├── d3flux
    ├── core
    │   ├── __init__.py
    │   ├── display_tools.py
    │   └── flux_layouts.py
    ├── templates
    │   ├── __init__.py
    │   ├── output_template.html
    │   └── network_style.css
    ├── __init__.py
    ├── test
    │   ├── create_test_html.py
    │   ├── test_flux_map.py
    │   ├── simple_model_no_layout.json
    │   └── simple_model.json
    └── examples
    │   └── asuc
    │       ├── asuc_v1.json
    │       └── full-map-render.svg
├── setup.cfg
├── MANIFEST.in
├── requirements.txt
├── .gitignore
├── setup.py
├── README.md
├── .travis.yml
└── LICENSE


/d3flux/core/__init__.py:
--------------------------------------------------------------------------------
1 | 


--------------------------------------------------------------------------------
/d3flux/templates/__init__.py:
--------------------------------------------------------------------------------
1 | 


--------------------------------------------------------------------------------
/setup.cfg:
--------------------------------------------------------------------------------
1 | [metadata]
2 | description-file = README.md
3 | 


--------------------------------------------------------------------------------
/MANIFEST.in:
--------------------------------------------------------------------------------
1 | include LICENSE
2 | 
3 | recursive-include d3flux/templates *
4 | 


--------------------------------------------------------------------------------
/requirements.txt:
--------------------------------------------------------------------------------
1 | pandas
2 | cobra>=0.6.0
3 | jinja2
4 | ipython
5 | csscompressor
6 | pytest
7 | 


--------------------------------------------------------------------------------
/d3flux/__init__.py:
--------------------------------------------------------------------------------
1 | from d3flux.core.flux_layouts import flux_map
2 | from d3flux.core.display_tools import *
3 | 


--------------------------------------------------------------------------------
/.gitignore:
--------------------------------------------------------------------------------
 1 | *.DS_Store
 2 | *.sw[op]
 3 | .ipynb_checkpoints
 4 | build
 5 | 
 6 | *.py[co]
 7 | __pycache__
 8 | ~$*
 9 | .cache
10 | 
11 | # Setuptools distribution folder.
12 | /dist/
13 | 
14 | # Python egg metadata, regenerated from source files by setuptools.
15 | /*.egg-info
16 | 


--------------------------------------------------------------------------------
/d3flux/templates/output_template.html:
--------------------------------------------------------------------------------
 1 | <div id="{{ figure_id }}">
 2 |   {{ background_svg }}
 3 | </div>
 4 | <div id="{{ figure_id }}_options">
 5 |   <button type="button" class="download btn btn-primary">Save JSON</button>
 6 |   <button type="button" class="reactionbutton btn btn-success ">Show Reaction Nodes</button>
 7 |   <button type="button" class="svgbutton btn btn-info ">Download SVG</button>
 8 | </div>
 9 | <script type="text/Javascript">
10 | {{ javascript_source }}
11 | </script>
12 | 


--------------------------------------------------------------------------------
/setup.py:
--------------------------------------------------------------------------------
 1 | from setuptools import setup, find_packages
 2 | 
 3 | setup(name='d3flux',
 4 |       version='0.2.7',
 5 |       description='A d3.js-based metabolic visualization tool for cobrapy',
 6 |       url='https://github.com/pstjohn/d3flux',
 7 |       download_url='https://github.com/pstjohn/d3flux',
 8 |       author='Peter St. John',
 9 |       author_email='peter.stjohn@nrel.gov',
10 |       license='MIT',
11 |       packages=find_packages(),
12 |       install_requires=['pandas', 'cobra', 'jinja2', 'ipython', 'csscompressor'],
13 |       package_data={'d3flux': ['templates/*']},
14 |       )
15 | 


--------------------------------------------------------------------------------
/d3flux/templates/network_style.css:
--------------------------------------------------------------------------------
 1 | .node.rxn {
 2 |   fill: #FFA319;
 3 | }
 4 | 
 5 | .node.rxn.hidden {
 6 |   fill: none;
 7 |   stroke: none;
 8 |   stroke-width: 0;
 9 | }
10 | 
11 | .link {
12 |   fill: none;
13 |   stroke-linecap: round;
14 | }
15 | 
16 | text.nodelabel {
17 |   font-size: {{ fontsize }}pt;
18 |   fill: #555;
19 |   font-family: Arial;
20 | }
21 | 
22 | text.nodelabel.cofactor {
23 |   font-size: {{ cf_fontsize }}pt;
24 |   fill: #778899;
25 | }
26 | 
27 | text.nodelabel.rxn {
28 |   fill: #A9A9A9;
29 |   font-size: {{ cf_fontsize }}pt;
30 |   font-style: italic;
31 | }
32 | 
33 | marker.inactive, .node.inactive, text.inactive {
34 |   fill-opacity: {{ inactive_alpha }};
35 | }
36 | 
37 | .link.inactive {
38 |   stroke-opacity: {{ inactive_alpha }};
39 | }
40 | 
41 | 
42 | 


--------------------------------------------------------------------------------
/README.md:
--------------------------------------------------------------------------------
 1 | # D3flux
 2 | 
 3 | [![Build Status](https://travis-ci.org/pstjohn/d3flux.svg?branch=master)](https://travis-ci.org/pstjohn/d3flux)
 4 | [![PyPI version](https://badge.fury.io/py/d3flux.svg)](https://badge.fury.io/py/d3flux)
 5 | 
 6 | This package implements a d3.js based visualization tool for cobrapy models.
 7 | 
 8 | ![](https://cloud.githubusercontent.com/assets/2576846/23142805/09426396-f77b-11e6-9c63-028a6c16a367.png)
 9 | 
10 | *Note*: This is still very much alpha software. Many things won't work :)
11 | 
12 | 
13 | ## Install
14 | Install via pip:
15 | ```
16 | pip install d3flux
17 | ```
18 | 
19 | Or, setup a development version by cloning the repo
20 | 
21 | ```
22 | git clone git@github.com:pstjohn/d3flux.git
23 | cd d3flux
24 | python setup.py develop
25 | ```
26 | 
27 | ## Documentation
28 | [https://pstjohn.github.io/d3flux/](https://pstjohn.github.io/d3flux/)
29 | 


--------------------------------------------------------------------------------
/.travis.yml:
--------------------------------------------------------------------------------
 1 | language: python
 2 | cache: pip
 3 | python:
 4 | - '2.7'
 5 | - '3.6'
 6 | install:
 7 | - pip install -r requirements.txt
 8 | - pip install -e .
 9 | script:
10 | - pytest
11 | deploy:
12 |   provider: pypi
13 |   user: pstjohn
14 |   password:
15 |     secure: 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
16 |   on:
17 |     tags: true
18 |     condition: $TRAVIS_PYTHON_VERSION = 3*
19 | 


--------------------------------------------------------------------------------
/LICENSE:
--------------------------------------------------------------------------------
 1 | MIT License
 2 | 
 3 | Copyright (c) 2016 Peter St. John
 4 | 
 5 | Permission is hereby granted, free of charge, to any person obtaining a copy
 6 | of this software and associated documentation files (the "Software"), to deal
 7 | in the Software without restriction, including without limitation the rights
 8 | to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
 9 | copies of the Software, and to permit persons to whom the Software is
10 | furnished to do so, subject to the following conditions:
11 | 
12 | The above copyright notice and this permission notice shall be included in all
13 | copies or substantial portions of the Software.
14 | 
15 | THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
16 | IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
17 | FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
18 | AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
19 | LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
20 | OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
21 | SOFTWARE.
22 | 


--------------------------------------------------------------------------------
/d3flux/test/create_test_html.py:
--------------------------------------------------------------------------------
 1 | from cobra.io import load_json_model
 2 | from d3flux import flux_map
 3 | 
 4 | new_model = load_json_model('simple_model_no_layout.json')
 5 | 
 6 | new_model.objective = new_model.reactions.R4
 7 | # new_model.reactions.R8.knock_out()
 8 | new_model.reactions.R6.knock_out()
 9 | new_model.optimize()
10 | 
11 | new_model.metabolites.B.notes['map_info']['align'] = 'left'
12 | new_model.metabolites.P.notes['map_info']['align'] = 'lower center'
13 | new_model.metabolites.C.notes['map_info']['align'] = 'upper right'
14 | 
15 | new_model.reactions.R5.bounds = (-1000, 1000)
16 | 
17 | html = flux_map(new_model, figsize=(900,250), inactive_alpha=0.5)
18 | with open('test.html', 'w') as f:
19 |     f.write('<!DOCTYPE html> <html> <head> <title>Test d3flux page</title> <script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.2/require.min.js" integrity="sha256-Vjusm6Kh2U7/tb6jBh+MOfxnaf2TWsTph34bMKhC1Qc=" crossorigin="anonymous"></script> <script src="https://code.jquery.com/jquery-3.1.1.min.js" integrity="sha256-hVVnYaiADRTO2PzUGmuLJr8BLUSjGIZsDYGmIJLv2b8=" crossorigin="anonymous"></script> <link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.7/css/bootstrap.min.css" integrity="sha384-BVYiiSIFeK1dGmJRAkycuHAHRg32OmUcww7on3RYdg4Va+PmSTsz/K68vbdEjh4u" crossorigin="anonymous"> </head> <body>')
20 |     f.write(html.data)
21 |     f.write('</body> </html>')
22 | 


--------------------------------------------------------------------------------
/d3flux/test/test_flux_map.py:
--------------------------------------------------------------------------------
 1 | import pytest
 2 | from cobra.core import Metabolite, Reaction, Model
 3 | from d3flux import flux_map
 4 | 
 5 | @pytest.fixture()
 6 | def simple_model():
 7 | 
 8 |     model = Model('simple_model')
 9 | 
10 |     A = Metabolite('A')
11 |     B = Metabolite('B')
12 |     C = Metabolite('C')
13 |     D = Metabolite('D')
14 |     E = Metabolite('E')
15 |     P = Metabolite('P')
16 | 
17 |     R1 = Reaction('R1')
18 |     R2 = Reaction('R2')
19 |     R3 = Reaction('R3')
20 |     R4 = Reaction('R4')
21 |     R5 = Reaction('R5')
22 |     R6 = Reaction('R6')
23 |     R7 = Reaction('R7')
24 |     R8 = Reaction('R8')
25 |     R9 = Reaction('R9')
26 |     R10 = Reaction('R10')
27 | 
28 |     model.add_metabolites([A, B, C, D, E, P])
29 |     model.add_reactions([R1, R2, R3, R4, R5, R6, R7, R8, R9, R10])
30 | 
31 |     model.reactions.R1.build_reaction_from_string('--> A')
32 |     model.reactions.R2.build_reaction_from_string('<--> B')
33 |     model.reactions.R3.build_reaction_from_string('P -->')
34 |     model.reactions.R4.build_reaction_from_string('E -->')
35 |     model.reactions.R5.build_reaction_from_string('A --> B')
36 |     model.reactions.R6.build_reaction_from_string('A --> C')
37 |     model.reactions.R7.build_reaction_from_string('A --> D')
38 |     model.reactions.R8.build_reaction_from_string('B <--> C')
39 |     model.reactions.R9.build_reaction_from_string('B --> P')
40 |     model.reactions.R10.build_reaction_from_string('C + D --> E + P')
41 | 
42 |     return model
43 | 
44 | 
45 | def test_flux_map(simple_model):
46 |     svg = flux_map(simple_model, display_name_format=lambda x: str(x.id),
47 |                    figsize=(300,250), flux_dict={rxn.id: None for rxn in
48 |                                                  simple_model.reactions})
49 | 
50 |     assert svg is not None
51 | 
52 | 
53 | def test_flux_map_optimize(simple_model):
54 |     simple_model.objective = simple_model.reactions.R4
55 |     simple_model.optimize()
56 |     svg = flux_map(simple_model, figsize=(300,250))
57 | 
58 |     assert svg is not None
59 | 
60 | def test_flux_map_knockout(simple_model):
61 |     simple_model.objective = simple_model.reactions.R4
62 |     simple_model.reactions.R8.knock_out()
63 |     simple_model.optimize()
64 |     svg = flux_map(simple_model, figsize=(300,250))
65 | 
66 |     assert svg is not None
67 | 
68 | 


--------------------------------------------------------------------------------
/d3flux/core/display_tools.py:
--------------------------------------------------------------------------------
  1 | import pandas as pd
  2 | from functools import reduce
  3 | # TODO: write docstrings
  4 | 
  5 | def metabolite_summary(met):
  6 |     return pd.Series({r.id : (r.x * r.metabolites[met]) 
  7 |                       for r in met.reactions}, name='flux')
  8 | 
  9 | common_ox_cofactors = ['nad_c', 'nadp_c', 'q8_c']
 10 | 
 11 | def redox_summary(cobra_model, tol=1E-8, ox_cofactors=None):
 12 | 
 13 |     if ox_cofactors == None: ox_cofactors = common_ox_cofactors
 14 |     elif not ox_cofactors: return pd.Series(), pd.Series()
 15 | 
 16 |     redox_series = reduce(lambda x, y: x.add(y, fill_value=0), (
 17 |             metabolite_summary(cobra_model.metabolites.get_by_id(cofactor))
 18 |             for cofactor in ox_cofactors))
 19 |     oxidizing = redox_series[redox_series > tol]
 20 |     reducing = redox_series[redox_series < -tol]
 21 |     return oxidizing, reducing
 22 | 
 23 | def color_redox_rxns(cobra_model, reset_groups=True, color_knockouts=True,
 24 |                      starting_group=1, **kwargs):
 25 |     """Add group info to the cobra_model according to the results of
 26 |     `redox_summary`. 
 27 | 
 28 |     cobra_model: a cobra.Model object
 29 | 
 30 |     reset_groups: bool
 31 |         whether or not to delete group info from model reactions prior to
 32 |         assigning new groups.
 33 | 
 34 |     color_knockouts: bool
 35 |         whether or not to conditionally format reactions which are currently
 36 |         knocked out. (i.e., rxn.bounds = (0,0))
 37 | 
 38 |     starting_group: int
 39 |         To use different colors, start from a group other than 1. (Highest
 40 |         color is 8)
 41 | 
 42 |     Additional kwargs are passed directly to the `redox_summary` function call:
 43 | 
 44 |     tol: int, default 1E-8
 45 |         flux tolerance above which to include the reaction
 46 |     
 47 |     ox_cofactors: list, default is common_ox_cofactors
 48 |         Cofactors which are produced or consumed in several reactions to use as
 49 |         the basis for coloring the flux model.
 50 | 
 51 |     """
 52 |     # Pop existing group info
 53 |     if reset_groups:
 54 |         for rxn in cobra_model.reactions:
 55 |             try: del rxn.notes['map_info']['group']
 56 |             except KeyError: pass
 57 | 
 58 |     # Assign group for knocked out reactions
 59 |     if color_knockouts:
 60 |         for rxn in cobra_model.reactions.query(
 61 |                 lambda r: r.bounds == (0, 0), None):
 62 |             rxn.notes['map_info']['group'] = 'ko'
 63 | 
 64 |     # Assign new group info based on redox balance
 65 |     oxidizing, reducing = redox_summary(cobra_model, **kwargs)
 66 |     for rxn, flux in oxidizing.items():
 67 |         cobra_model.reactions.get_by_id(
 68 |             rxn).notes['map_info']['group'] = starting_group
 69 |     for rxn, flux in reducing.items():
 70 |         cobra_model.reactions.get_by_id(
 71 |             rxn).notes['map_info']['group'] = starting_group + 1
 72 | 
 73 |     return cobra_model
 74 | 
 75 |                                             
 76 | def update_cofactors(cobra_model, cofactor_list):
 77 |     """ Given a model and list of cofactors to display, update the map_info
 78 |     field of each reaction containing the given cofactors. Updates the model
 79 |     inplace.
 80 |     
 81 |     cobra_model : a cobra.Model object
 82 |     cofactor_list : a list of strings indicating the desired cofactor IDs to show.
 83 | 
 84 |     """
 85 | 
 86 |     def rxn_cofactor_update(rxn, cofactor):
 87 |     
 88 |         if 'map_info' not in rxn.notes:
 89 |             rxn.notes['map_info'] = {}
 90 | 
 91 |         try:
 92 |             if cofactor in rxn.notes['map_info']['cofactors']: return
 93 |             rxn.notes['map_info']['cofactors'].update({cofactor: {}})
 94 |         except KeyError:
 95 |             rxn.notes['map_info']['cofactors'] = {cofactor: {}}
 96 | 
 97 |     for met_id in cofactor_list:
 98 |         this_met = cobra_model.metabolites.get_by_id(met_id)
 99 |         for rxn in this_met.reactions: rxn_cofactor_update(rxn, met_id)
100 | 
101 | common_cofactors = ['coa', 'nadh', 'nad', 'nadph', 'nadp', 'atp', 'adp', 'amp',
102 |                     'q8', 'q8h2', 'pi', 'co2', 'h2o', 'h', 'o2', 'h2', 'nh4']
103 | 
104 | 


--------------------------------------------------------------------------------
/d3flux/test/simple_model_no_layout.json:
--------------------------------------------------------------------------------
  1 | {
  2 |   "genes": [],
  3 |   "id": "simple_model",
  4 |   "metabolites": [
  5 |     {
  6 |       "compartment": "",
  7 |       "formula": "",
  8 |       "id": "A",
  9 |       "name": "",
 10 |       "notes": {
 11 |         "map_info": {
 12 |           "display_name": "A"
 13 |         }
 14 |       }
 15 |     },
 16 |     {
 17 |       "compartment": "",
 18 |       "formula": "",
 19 |       "id": "B",
 20 |       "name": "",
 21 |       "notes": {
 22 |         "map_info": {
 23 |           "display_name": "B"
 24 |         }
 25 |       }
 26 |     },
 27 |     {
 28 |       "compartment": "",
 29 |       "formula": "",
 30 |       "id": "C",
 31 |       "name": "",
 32 |       "notes": {
 33 |         "map_info": {
 34 |           "display_name": "C"
 35 |         }
 36 |       }
 37 |     },
 38 |     {
 39 |       "compartment": "",
 40 |       "formula": "",
 41 |       "id": "D",
 42 |       "name": "",
 43 |       "notes": {
 44 |         "map_info": {
 45 |           "display_name": "D"
 46 |         }
 47 |       }
 48 |     },
 49 |     {
 50 |       "compartment": "",
 51 |       "formula": "",
 52 |       "id": "E",
 53 |       "name": "",
 54 |       "notes": {
 55 |         "map_info": {
 56 |           "display_name": "E"
 57 |         }
 58 |       }
 59 |     },
 60 |     {
 61 |       "compartment": "",
 62 |       "formula": "",
 63 |       "id": "P",
 64 |       "name": "",
 65 |       "notes": {
 66 |         "map_info": {
 67 |           "display_name": "P"
 68 |         }
 69 |       }
 70 |     }
 71 |   ],
 72 |   "notes": {
 73 |     "map_info": {}
 74 |   },
 75 |   "pathways": [],
 76 |   "reactions": [
 77 |     {
 78 |       "gene_reaction_rule": "",
 79 |       "id": "R1",
 80 |       "lower_bound": 0,
 81 |       "metabolites": {
 82 |         "A": 1
 83 |       },
 84 |       "name": "",
 85 |       "notes": {
 86 |         "map_info": {
 87 |           "hidden": true,
 88 |           "reversibility": false
 89 |         }
 90 |       },
 91 |       "upper_bound": 1000
 92 |     },
 93 |     {
 94 |       "gene_reaction_rule": "",
 95 |       "id": "R2",
 96 |       "lower_bound": -1000,
 97 |       "metabolites": {
 98 |         "B": 1
 99 |       },
100 |       "name": "",
101 |       "notes": {
102 |         "map_info": {
103 |           "hidden": true,
104 |           "reversibility": true
105 |         }
106 |       },
107 |       "upper_bound": 1000
108 |     },
109 |     {
110 |       "gene_reaction_rule": "",
111 |       "id": "R3",
112 |       "lower_bound": 0,
113 |       "metabolites": {
114 |         "P": -1
115 |       },
116 |       "name": "",
117 |       "notes": {
118 |         "map_info": {
119 |           "hidden": true,
120 |           "reversibility": false
121 |         }
122 |       },
123 |       "upper_bound": 1000
124 |     },
125 |     {
126 |       "gene_reaction_rule": "",
127 |       "id": "R4",
128 |       "lower_bound": 0,
129 |       "metabolites": {
130 |         "E": -1
131 |       },
132 |       "name": "",
133 |       "notes": {
134 |         "map_info": {
135 |           "hidden": true,
136 |           "reversibility": false
137 |         }
138 |       },
139 |       "upper_bound": 1000
140 |     },
141 |     {
142 |       "gene_reaction_rule": "",
143 |       "id": "R5",
144 |       "lower_bound": 0,
145 |       "metabolites": {
146 |         "A": -1,
147 |         "B": 1
148 |       },
149 |       "name": "",
150 |       "notes": {
151 |         "map_info": {
152 |           "reversibility": false,
153 | 	  "display_name": "R5\ntest"
154 |         }
155 |       },
156 |       "upper_bound": 1000
157 |     },
158 |     {
159 |       "gene_reaction_rule": "",
160 |       "id": "R6",
161 |       "lower_bound": 0,
162 |       "metabolites": {
163 |         "A": -1,
164 |         "C": 1
165 |       },
166 |       "name": "",
167 |       "notes": {
168 |         "map_info": {
169 |           "reversibility": false
170 |         }
171 |       },
172 |       "upper_bound": 1000
173 |     },
174 |     {
175 |       "gene_reaction_rule": "",
176 |       "id": "R7",
177 |       "lower_bound": 0,
178 |       "metabolites": {
179 |         "A": -1,
180 |         "D": 1
181 |       },
182 |       "name": "",
183 |       "notes": {
184 |         "map_info": {
185 |           "reversibility": false
186 |         }
187 |       },
188 |       "upper_bound": 1000
189 |     },
190 |     {
191 |       "gene_reaction_rule": "",
192 |       "id": "R8",
193 |       "lower_bound": -1000,
194 |       "metabolites": {
195 |         "B": -1,
196 |         "C": 1
197 |       },
198 |       "name": "",
199 |       "notes": {
200 |         "map_info": {
201 |           "reversibility": true
202 |         }
203 |       },
204 |       "upper_bound": 1000
205 |     },
206 |     {
207 |       "gene_reaction_rule": "",
208 |       "id": "R9",
209 |       "lower_bound": 0,
210 |       "metabolites": {
211 |         "B": -1,
212 |         "P": 1
213 |       },
214 |       "name": "",
215 |       "notes": {
216 |         "map_info": {
217 |           "reversibility": false
218 |         }
219 |       },
220 |       "upper_bound": 1000
221 |     },
222 |     {
223 |       "gene_reaction_rule": "",
224 |       "id": "R10",
225 |       "lower_bound": 0,
226 |       "metabolites": {
227 |         "C": -1,
228 |         "D": -1,
229 |         "E": 1,
230 |         "P": 1
231 |       },
232 |       "name": "",
233 |       "notes": {
234 |         "map_info": {
235 |           "reversibility": false
236 |         }
237 |       },
238 |       "upper_bound": 1000
239 |     }
240 |   ],
241 |   "version": 1
242 | }
243 | 


--------------------------------------------------------------------------------
/d3flux/test/simple_model.json:
--------------------------------------------------------------------------------
  1 | {
  2 |   "genes": [],
  3 |   "id": "simple_model",
  4 |   "metabolites": [
  5 |     {
  6 |       "compartment": "",
  7 |       "formula": "",
  8 |       "id": "A",
  9 |       "name": "",
 10 |       "notes": {
 11 |         "map_info": {
 12 |           "display_name": "A",
 13 |           "x": 150,
 14 |           "y": 50
 15 |         }
 16 |       }
 17 |     },
 18 |     {
 19 |       "compartment": "",
 20 |       "formula": "",
 21 |       "id": "B",
 22 |       "name": "",
 23 |       "notes": {
 24 |         "map_info": {
 25 |           "display_name": "B",
 26 |           "x": 80,
 27 |           "y": 130
 28 |         }
 29 |       }
 30 |     },
 31 |     {
 32 |       "compartment": "",
 33 |       "formula": "",
 34 |       "id": "C",
 35 |       "name": "",
 36 |       "notes": {
 37 |         "map_info": {
 38 |           "display_name": "C",
 39 |           "x": 150,
 40 |           "y": 130
 41 |         }
 42 |       }
 43 |     },
 44 |     {
 45 |       "compartment": "",
 46 |       "formula": "",
 47 |       "id": "D",
 48 |       "name": "",
 49 |       "notes": {
 50 |         "map_info": {
 51 |           "display_name": "D",
 52 |           "x": 220,
 53 |           "y": 130
 54 |         }
 55 |       }
 56 |     },
 57 |     {
 58 |       "compartment": "",
 59 |       "formula": "",
 60 |       "id": "E",
 61 |       "name": "",
 62 |       "notes": {
 63 |         "map_info": {
 64 |           "display_name": "E",
 65 |           "x": 220,
 66 |           "y": 200
 67 |         }
 68 |       }
 69 |     },
 70 |     {
 71 |       "compartment": "",
 72 |       "formula": "",
 73 |       "id": "P",
 74 |       "name": "",
 75 |       "notes": {
 76 |         "map_info": {
 77 |           "display_name": "P",
 78 |           "x": 150,
 79 |           "y": 200
 80 |         }
 81 |       }
 82 |     }
 83 |   ],
 84 |   "notes": {
 85 |     "map_info": {}
 86 |   },
 87 |   "pathways": [],
 88 |   "reactions": [
 89 |     {
 90 |       "gene_reaction_rule": "",
 91 |       "id": "R1",
 92 |       "lower_bound": 0,
 93 |       "metabolites": {
 94 |         "A": 1
 95 |       },
 96 |       "name": "",
 97 |       "notes": {
 98 |         "map_info": {
 99 |           "hidden": true,
100 |           "reversibility": false
101 |         }
102 |       },
103 |       "upper_bound": 1000
104 |     },
105 |     {
106 |       "gene_reaction_rule": "",
107 |       "id": "R2",
108 |       "lower_bound": -1000,
109 |       "metabolites": {
110 |         "B": 1
111 |       },
112 |       "name": "",
113 |       "notes": {
114 |         "map_info": {
115 |           "hidden": true,
116 |           "reversibility": true
117 |         }
118 |       },
119 |       "upper_bound": 1000
120 |     },
121 |     {
122 |       "gene_reaction_rule": "",
123 |       "id": "R3",
124 |       "lower_bound": 0,
125 |       "metabolites": {
126 |         "P": -1
127 |       },
128 |       "name": "",
129 |       "notes": {
130 |         "map_info": {
131 |           "hidden": true,
132 |           "reversibility": false
133 |         }
134 |       },
135 |       "upper_bound": 1000
136 |     },
137 |     {
138 |       "gene_reaction_rule": "",
139 |       "id": "R4",
140 |       "lower_bound": 0,
141 |       "metabolites": {
142 |         "E": -1
143 |       },
144 |       "name": "",
145 |       "notes": {
146 |         "map_info": {
147 |           "hidden": true,
148 |           "reversibility": false
149 |         }
150 |       },
151 |       "upper_bound": 1000
152 |     },
153 |     {
154 |       "gene_reaction_rule": "",
155 |       "id": "R5",
156 |       "lower_bound": 0,
157 |       "metabolites": {
158 |         "A": -1,
159 |         "B": 1
160 |       },
161 |       "name": "",
162 |       "notes": {
163 |         "map_info": {
164 |           "reversibility": false
165 |         }
166 |       },
167 |       "upper_bound": 1000
168 |     },
169 |     {
170 |       "gene_reaction_rule": "",
171 |       "id": "R6",
172 |       "lower_bound": 0,
173 |       "metabolites": {
174 |         "A": -1,
175 |         "C": 1
176 |       },
177 |       "name": "",
178 |       "notes": {
179 |         "map_info": {
180 |           "reversibility": false
181 |         }
182 |       },
183 |       "upper_bound": 1000
184 |     },
185 |     {
186 |       "gene_reaction_rule": "",
187 |       "id": "R7",
188 |       "lower_bound": 0,
189 |       "metabolites": {
190 |         "A": -1,
191 |         "D": 1
192 |       },
193 |       "name": "",
194 |       "notes": {
195 |         "map_info": {
196 |           "reversibility": false
197 |         }
198 |       },
199 |       "upper_bound": 1000
200 |     },
201 |     {
202 |       "gene_reaction_rule": "",
203 |       "id": "R8",
204 |       "lower_bound": -1000,
205 |       "metabolites": {
206 |         "B": -1,
207 |         "C": 1
208 |       },
209 |       "name": "",
210 |       "notes": {
211 |         "map_info": {
212 |           "reversibility": true
213 |         }
214 |       },
215 |       "upper_bound": 1000
216 |     },
217 |     {
218 |       "gene_reaction_rule": "",
219 |       "id": "R9",
220 |       "lower_bound": 0,
221 |       "metabolites": {
222 |         "B": -1,
223 |         "P": 1
224 |       },
225 |       "name": "",
226 |       "notes": {
227 |         "map_info": {
228 |           "reversibility": false
229 |         }
230 |       },
231 |       "upper_bound": 1000
232 |     },
233 |     {
234 |       "gene_reaction_rule": "",
235 |       "id": "R10",
236 |       "lower_bound": 0,
237 |       "metabolites": {
238 |         "C": -1,
239 |         "D": -1,
240 |         "E": 1,
241 |         "P": 1
242 |       },
243 |       "name": "",
244 |       "notes": {
245 |         "map_info": {
246 |           "reversibility": false
247 |         }
248 |       },
249 |       "upper_bound": 1000
250 |     }
251 |   ],
252 |   "version": 1
253 | }
254 | 


--------------------------------------------------------------------------------
/d3flux/core/flux_layouts.py:
--------------------------------------------------------------------------------
  1 | """
  2 | A D3-based network layout engine for plotting model solutions in the jupyter
  3 | window
  4 | """
  5 | 
  6 | import os
  7 | import json
  8 | import itertools
  9 | import re
 10 | 
 11 | from jinja2 import Environment, FileSystemLoader
 12 | from IPython.display import HTML
 13 | from csscompressor import compress
 14 | 
 15 | from cobra.io.json import model_to_dict
 16 | from cobra.exceptions import OptimizationError
 17 | 
 18 | import d3flux
 19 | 
 20 | def flux_map(cobra_model,
 21 |              excluded_metabolites=None, excluded_reactions=None,
 22 |              excluded_compartments=None, display_name_format=True,
 23 |              overwrite_reversibility=True, **kwargs):
 24 |     """Create a flux map representation of the cobra.Model, including or
 25 |     excluding the given metabolites, reactions, and/or compartments.
 26 | 
 27 |     excluded_metabolites:
 28 |         A list of metabolites to not include. Probably better to simply set
 29 |         met.notes['map_info']['hidden'] = True
 30 | 
 31 |     excluded_reactions:
 32 |         A list of reactions not to display.
 33 | 
 34 |     excluded_compartment:
 35 |         Hide metabolites not in a compartment
 36 | 
 37 |     diplay_name_format: Bool or function
 38 |         How to format the metabolite names in map.display_name.
 39 | 
 40 |     Additional kwargs are passed directly to `render_model`:
 41 | 
 42 |     background_template:
 43 |         filename for an SVG to render behind the flux figure.  Useful for
 44 |         compartments or layout guides.
 45 | 
 46 |     custom_css:
 47 |         Additional CSS to embed in the figure. Use HTML inspector to show
 48 |         labels and classes applied to reactions and metabolites.
 49 | 
 50 |     figure_id:
 51 |         Each figure in the page requires a unique ID, which can be passed or
 52 |         generated automatically.
 53 | 
 54 |     hide_unused:
 55 |         whether or not to show metabolites and reactions with zero flux.
 56 | 
 57 |     hide_unused_cofactors:
 58 |         similar to hide_unused, but only hide cofactor nodes for reactions with
 59 |         0 flux.
 60 | 
 61 |     overwrite_reversibility:
 62 |         whether or not to overwrite the `reversibility` attribute in map_info.
 63 |         Useful in ensuring reversible, knocked-out reactions are rendered
 64 |         appropriately. Defaults to True.
 65 | 
 66 |     figsize:
 67 |         size, in pixels, of the generated SVG window. Defaults to 1024x768.
 68 | 
 69 |     fontsize:
 70 |         text size, in pt. Defaults to 12
 71 | 
 72 |     default_flux_width:
 73 |         If reaction fluxes are missing, the default thickness to use for
 74 |         connecting arrows.
 75 | 
 76 |     flux_dict:
 77 |         A dictionary-like object containing the desired fluxes for each
 78 |         reaction in the model
 79 | 
 80 |     metabolite_dict:
 81 |         A dictionary-like object containing the desired carried fluxes for each
 82 |         metabolite in the model
 83 | 
 84 |     flowLayout:
 85 |         whether or not to use the webcola's flow layout to force a heirarchical
 86 |         diagram
 87 | 
 88 |     """
 89 | 
 90 |     # Initialize empty map_info field in object notes
 91 |     for obj in itertools.chain([cobra_model], cobra_model.metabolites,
 92 |                                cobra_model.reactions):
 93 |         if 'map_info' not in obj.notes:
 94 |             obj.notes['map_info'] = {}
 95 | 
 96 |     # build cofactor metabolites from strings
 97 |     cobra_metabolites = []
 98 |     if excluded_metabolites:
 99 |         compartments = set((m.compartment for m in cobra_model.metabolites))
100 |         metabolite_list = [
101 |             cf + '_' + co for cf, co in itertools.product(
102 |                 excluded_metabolites, compartments)] + excluded_metabolites
103 |         for cofactor in metabolite_list:
104 |             try:
105 |                 cobra_metabolites += [
106 |                     cobra_model.metabolites.get_by_id(cofactor)]
107 |             except KeyError:
108 |                 pass
109 |             # what if its already a cobra metabolite?
110 | 
111 |     cobra_rxns = []
112 |     if excluded_reactions:
113 |         for rxnid in excluded_reactions:
114 |             try:
115 |                 cobra_rxns += [
116 |                     cobra_model.reactions.get_by_id(rxnid)]
117 |             except KeyError:
118 |                 pass
119 | 
120 |     # Exclude metabolites and reactions in the given comparment
121 |     excluded_metabolites = set(cobra_metabolites)
122 |     excluded_reactions = set(cobra_rxns)
123 | 
124 |     if excluded_compartments:
125 |         met_compartments = set((m for m in cobra_model.metabolites.query(
126 |             lambda x: set(x.compartment).intersection(
127 |                 set(excluded_compartments)), None)))
128 |         excluded_metabolites |= met_compartments
129 | 
130 |         # Do I want to redo this not to include excluded metabolites?
131 |         # rxn_compartments = set((r for r in cobra_model.reactions.query(
132 |         #     lambda x: set(x.compartments).intersection(
133 |         #         set(excluded_compartments)), None)))
134 |         # excluded_reactions |= rxn_compartments
135 | 
136 |     # for reaction in excluded_reactions:
137 |     #     reaction.notes['map_info'] = {'hidden': True}
138 | 
139 |     for metabolite in excluded_metabolites:
140 |         metabolite.notes['map_info'] = {'hidden': True}
141 | 
142 |     def is_hidden(obj):
143 |         try:
144 |             return bool(obj.notes['map_info']['hidden'])
145 |         except KeyError:
146 |             return False
147 | 
148 |     for reaction in cobra_model.reactions:
149 | 
150 |         if overwrite_reversibility:
151 |             reaction.notes['map_info']['reversibility'] = \
152 |                 bool(reaction.reversibility)
153 | 
154 |         # Unless 'hidden' specifically set to False, hide the reaction if all
155 |         # the reactants or products are hidden (excluding cofactors)
156 |         if ('hidden' not in reaction.notes['map_info']) & ~is_hidden(reaction):
157 | 
158 |             # Hide reactions if all of their products or reactants are hidden.
159 |             # Don't include cofactor metabolites in this calculation.
160 |             if 'cofactors' in reaction.notes['map_info']:
161 |                 cofactors = reaction.notes['map_info']['cofactors'].keys()
162 |             else:
163 |                 cofactors = {}
164 | 
165 |             if (all([is_hidden(met) for met in reaction.reactants
166 |                      if met.id not in cofactors]) or
167 |                 all([is_hidden(met) for met in reaction.products
168 |                      if met.id not in cofactors])):
169 | 
170 |                 reaction.notes['map_info']['hidden'] = True
171 | 
172 |     # Add diplay names to the cobra metabolites accoring to the
173 |     # display_name_format function
174 |     if display_name_format:
175 | 
176 |         # Handle the case for a default display name formatter. This is
177 |         # optimized for models using the typical bigg_id naming convention,
178 |         # ending with 'ID_c' compartment identifier.
179 |         if display_name_format is True:
180 |             display_name_format = (
181 |                 lambda met: re.sub('__[D,L]', '', met.id[:-2].upper()))
182 | 
183 |         for met in cobra_model.metabolites:
184 | 
185 |             # Don't overwrite existing display names
186 |             if 'display_name' not in met.notes['map_info']:
187 |                 met.notes['map_info']['display_name'] = (
188 |                     display_name_format(met))
189 | 
190 |     # Append model's map_info kwargs
191 |     render_kwargs = dict(cobra_model.notes['map_info'])
192 |     render_kwargs.update(kwargs)
193 | 
194 |     return render_model(cobra_model, **render_kwargs)
195 | 
196 | 
197 | def create_model_json(cobra_model, flux_dict=None, metabolite_dict=None):
198 |     """ Convert a cobra.Model object to a json string for d3. Adds flux
199 |     information if the model has been solved
200 | 
201 |     flux_dict: dict-like
202 |         Contains an external setting of the flux solution that should be
203 |         plotted.
204 | 
205 |     metabolite_dict:
206 |         A dictionary-like object containing the desired carried fluxes for each
207 |         metabolite in the model
208 | 
209 |     """
210 |     def get_flux(reaction):
211 |         if flux_dict is not None:
212 |             return flux_dict[reaction.id]
213 |         else:
214 | 
215 |             try:
216 |                 return reaction.flux
217 | 
218 |             except OptimizationError:
219 |                 # The model hasn't been solved, so we just throw in a None
220 |                 return None
221 | 
222 | 
223 |     # Add flux info
224 |     for reaction in cobra_model.reactions:
225 | 
226 |         # If I'm styling reaction knockouts, don't set the flux for a
227 |         # knocked out reaction
228 |         if reaction.lower_bound == reaction.upper_bound == 0:
229 |             reaction.notes['map_info']['group'] = 'ko'
230 |             
231 |             # Delete the flux key, if it exists
232 |             try:
233 |                 del reaction.notes['map_info']['flux']
234 |             except KeyError:
235 |                 pass
236 | 
237 |         else: 
238 |             try:
239 |                 if abs(get_flux(reaction)) < 1E-8:
240 |                     reaction.notes['map_info']['flux'] = 0.
241 |                 else:
242 |                     reaction.notes['map_info']['flux'] = get_flux(reaction)
243 |             except (KeyError, TypeError):
244 |                 if 'flux' in reaction.notes['map_info']:
245 |                     del reaction.notes['map_info']['flux']
246 | 
247 |             # cobrapy doesn't track contexted changes to the notes field. So if
248 |             # a reaction is set to the 'ko' group, reset it if it doens't match
249 |             # the bounds requirements
250 |             if 'group' in reaction.notes['map_info']:
251 |                 if reaction.notes['map_info']['group'] == 'ko':
252 |                     del reaction.notes['map_info']['group']
253 | 
254 |     def get_met_flux(metabolite):
255 |         if metabolite_dict is not None:
256 |             return metabolite_dict[metabolite.id]
257 |         else:
258 |             return sum([abs(get_flux(r) * r.metabolites[metabolite]) for r in
259 |                         metabolite.reactions]) / 2
260 | 
261 |     for metabolite in cobra_model.metabolites:
262 | 
263 |         try:
264 |             del metabolite.notes['map_info']['flux']
265 | 
266 |         except KeyError:
267 |             pass
268 | 
269 |         try:
270 |             carried_flux = get_met_flux(metabolite)
271 |             if carried_flux > 1E-8:
272 |                 metabolite.notes['map_info']['flux'] = carried_flux
273 |             else:
274 |                 metabolite.notes['map_info']['flux'] = 0.
275 | 
276 |         except Exception:
277 |             pass
278 | 
279 |     return json.dumps(model_to_dict(cobra_model), allow_nan=False)
280 | 
281 | 
282 | def render_model(cobra_model, background_template=None, custom_css=None,
283 |                  figure_id=None, hide_unused=None, hide_unused_cofactors=None,
284 |                  inactive_alpha=1., figsize=None, label=None, fontsize=None,
285 |                  default_flux_width=2.5, flux_dict=None, metabolite_dict=None,
286 |                  svg_scale=100, flowLayout=False):
287 |     """ Render a cobra.Model object in the current window
288 | 
289 |     Parameters:
290 | 
291 |     background_template:
292 |         filename for an SVG to render behind the flux figure.  Useful for
293 |         compartments or layout guides.
294 | 
295 |     custom_css:
296 |         Additional CSS to embed in the figure. Use HTML inspector to show
297 |         labels and classes applied to reactions and metabolites.
298 | 
299 |     figure_id:
300 |         Each figure in the page requires a unique ID, which can be passed or
301 |         generated automatically.
302 | 
303 |     hide_unused:
304 |         whether or not to show metabolites and reactions with zero flux.
305 | 
306 |     hide_unused_cofactors:
307 |         similar to hide_unused, but only hide cofactor nodes for reactions with
308 |         0 flux.
309 | 
310 |     inactive_alpha:
311 |         Alpha value with which to color reactions and nodes without any carried
312 |         flux. Defaults to 1.
313 | 
314 |     figsize:
315 |         size, in pixels, of the generated SVG window. Defaults to 1024x768.
316 | 
317 |     fontsize:
318 |         text size, in pt. Defaults to 12
319 | 
320 |     default_flux_width:
321 |         If reaction fluxes are missing, the default thickness to use for
322 |         connecting arrows.
323 | 
324 |     flux_dict:
325 |         A dictionary-like object containing the desired fluxes for each
326 |         reaction in the model
327 | 
328 |     metabolite_dict:
329 |         A dictionary-like object containing the desired carried fluxes for each
330 |         metabolite in the model
331 | 
332 |     """
333 | 
334 |     # Increment figure counter
335 | 
336 |     # Get figure name and JSON string for the cobra model
337 |     if not figure_id:
338 |         render_model._fignum += 1
339 |         figure_id = 'd3flux{:0>3d}'.format(render_model._fignum)
340 | 
341 |     if not figsize:
342 |         figsize = (1028, 768)
343 | 
344 |     modeljson = create_model_json(cobra_model, flux_dict, metabolite_dict)
345 | 
346 |     if not hide_unused:
347 |         hide_unused = "false"
348 |     else:
349 |         hide_unused = "true"
350 | 
351 |     if not hide_unused_cofactors:
352 |         hide_unused_cofactors = "false"
353 |     else:
354 |         hide_unused_cofactors = "true"
355 | 
356 |     # Handle custom CSS
357 |     if not custom_css:
358 |         custom_css = ''
359 | 
360 |     if not fontsize:
361 |         fontsize = 12
362 | 
363 |     # Handle background template
364 |     if not background_template:
365 |         background_svg = ''
366 |         no_background = "true"
367 |     else:
368 |         from IPython.display import SVG
369 |         background_svg = SVG(background_template).data
370 |         no_background = "false"
371 | 
372 |     # Initialize the jinja templates
373 |     env = Environment(loader=FileSystemLoader(
374 |         os.path.join(os.path.dirname(d3flux.__file__), 'templates')))
375 |     
376 |     template_css = env.get_template('network_style.css')
377 |     template_html = env.get_template('output_template.html')
378 |     template_js = env.get_template('d3flux.js')
379 | 
380 |     # Render the jinja templates with the given variables
381 |     css = template_css.render(inactive_alpha=inactive_alpha,
382 |                               fontsize=fontsize, cf_fontsize=0.8 * fontsize)
383 | 
384 |     js = template_js.render(figure_id=figure_id, modeljson=modeljson,
385 |                             no_background=no_background,
386 |                             hide_unused=hide_unused,
387 |                             hide_unused_cofactors=hide_unused_cofactors,
388 |                             figwidth=figsize[0], figheight=figsize[1],
389 |                             css=compress(css + custom_css),
390 |                             default_flux_width=default_flux_width,
391 |                             svg_scale=svg_scale, flowLayout=flowLayout)
392 | 
393 |     html = template_html.render(figure_id=figure_id,
394 |                                 background_svg=background_svg,
395 |                                 javascript_source=js)
396 | 
397 |     # compile and return HTML
398 |     return HTML(html)
399 | 
400 | 
401 | # Initialize figure counter
402 | render_model._fignum = 0
403 | 


--------------------------------------------------------------------------------
/d3flux/examples/asuc/asuc_v1.json:
--------------------------------------------------------------------------------
1 | {"reactions":[{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0591","name":"acetaldehyde dehydrogenase (acetylating)","id":"ACALD","upper_bound":1000,"notes":{"MetaCyc":"ACETALD-DEHYDROG-RXN","Enzymes":["1.2.1.10"],"original_bigg_id":"ACALD","map_info":{"x":382.64525895293133,"reversibility":true,"y":560.8483113179269,"cofactors":{"nadh_c":{"x":393.63231629605326,"y":535.5403540860555}}},"KEGG":"R00228"},"metabolites":{"acald_c":-1,"h_c":1,"nad_c":-1,"nadh_c":1,"accoa_c":1,"coa_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_acetaldehyde_reversible_transport","id":"ACALDt","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"ACALDt"},"metabolites":{"acald_c":1,"acald_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1661","name":"acetate kinase","id":"ACKr","upper_bound":1000,"notes":{"MetaCyc":"ACETATEKIN-RXN","Enzymes":["2.7.2.1","2.7.2.15"],"original_bigg_id":"ACKr","map_info":{"x":303.0931379450599,"reversibility":true,"y":610.9159748329513,"cofactors":{"atp_c":{"x":266.7300153137178,"y":610.8281666525227}},"group":"ko"},"KEGG":"R00315"},"metabolites":{"ac_c":-1,"atp_c":-1,"actp_c":1,"adp_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_acetate_reversible_transport_via_proton_symport","id":"ACt2r","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"ACt2r"},"metabolites":{"ac_e":-1,"ac_c":1,"h_c":1,"h_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0403","name":"alcohol dehydrogenase (ethanol)","id":"ALCD2x","upper_bound":1000,"notes":{"MetaCyc":"ALCOHOL-DEHYDROG-RXN","Enzymes":["1.1.1.1","1.1.1.71"],"original_bigg_id":"ALCD2x","map_info":{"x":419.00015582585576,"reversibility":true,"y":624.4703227914397,"cofactors":{"nadh_c":{"x":433.1132679242588,"y":602.7038041865424}}},"KEGG":"R00754"},"metabolites":{"acald_c":1,"etoh_c":-1,"nadh_c":1,"h_c":1,"nad_c":-1}},{"lower_bound":4.701484070350633,"gene_reaction_rule":"","name":"ATP maintenance requirement","id":"ATPM","upper_bound":1000,"notes":{"Enzymes":["3.6.1.3","3.6.1.15","3.6.4.6"],"original_bigg_id":"ATPM","map_info":{"hidden":true,"reversibility":false,"cofactors":{"atp_c":{}}}},"metabolites":{"atpm":1,"atp_c":-1,"h_c":1,"pi_c":1,"h2o_c":-1,"adp_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0326 or Asuc_0328","name":"ATP synthase (four protons for one ATP)","id":"ATPS4r","upper_bound":1000,"notes":{"Enzymes":["3.6.3.14"],"original_bigg_id":"ATPS4r","map_info":{"hidden":true,"reversibility":true,"cofactors":{"atp_c":{}}}},"metabolites":{"atp_c":1,"h_e":-4,"h_c":3,"pi_c":-1,"h2o_c":1,"adp_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_CO2_transporter_via_diffusion","id":"CO2t","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":true,"cofactors":{"co2_c":{}}},"original_bigg_id":"CO2t"},"metabolites":{"co2_c":1,"co2_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"cytochrome oxidase bd (ubiquinol-8: 2 protons)","id":"CYTBD","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"q8_c":{},"q8h2_c":{}}},"original_bigg_id":"CYTBD"},"metabolites":{"h2o_c":1,"h_e":2,"h_c":-2,"q8_c":1,"o2_c":-0.5,"q8h2_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_2051","name":"enolase","id":"ENO","upper_bound":1000,"notes":{"MetaCyc":"2PGADEHYDRAT-RXN","Enzymes":["4.2.1.11"],"original_bigg_id":"ENO","map_info":{"x":291.7908162239458,"reversibility":true,"y":359.025665205511},"KEGG":"R00658"},"metabolites":{"h2o_c":1,"pep_c":1,"2pg_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"ETOHt2r","id":"ETOHt2r","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"ETOHt2r"},"metabolites":{"etoh_c":1,"etoh_e":-1,"h_e":-1,"h_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Acetate exchange","id":"EX_ac_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_ac_e"},"metabolites":{"ac_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Acetaldehyde exchange","id":"EX_acald_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_acald_e"},"metabolites":{"acald_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"CO2 exchange","id":"EX_co2_e","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"EX_co2_e"},"metabolites":{"co2_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Ethanol exchange","id":"EX_etoh_e","upper_bound":0,"notes":{"map_info":{"group":"ko","reversibility":false,"hidden":true},"original_bigg_id":"EX_etoh_e"},"metabolites":{"etoh_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Formate exchange","id":"EX_for_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_for_e"},"metabolites":{"for_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"D-Fructose exchange","id":"EX_fru_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_fru_e"},"metabolites":{"fru_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Fumarate exchange","id":"EX_fum_e","upper_bound":0,"notes":{"map_info":{"group":"ko","reversibility":false,"hidden":true},"original_bigg_id":"EX_fum_e"},"metabolites":{"fum_e":-1}},{"lower_bound":-1,"gene_reaction_rule":"","name":"D-Glucose exchange","id":"EX_glc_e","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"EX_glc_e"},"metabolites":{"glc__D_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"H+ exchange","id":"EX_h_e","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"EX_h_e"},"metabolites":{"h_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"H2O exchange","id":"EX_h2o_e","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"EX_h2o_e"},"metabolites":{"h2o_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"L-Malate exchange","id":"EX_mal__L_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_mal_L_e"},"metabolites":{"mal__L_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"O2 exchange","id":"EX_o2_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_o2_e"},"metabolites":{"o2_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"Phosphate exchange","id":"EX_pi_e","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"EX_pi_e"},"metabolites":{"pi_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Pyruvate exchange","id":"EX_pyr_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_pyr_e"},"metabolites":{"pyr_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Succinate exchange","id":"EX_succ_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_succ_e"},"metabolites":{"succ_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0536","name":"fructose-bisphosphate aldolase","id":"FBA","upper_bound":1000,"notes":{"MetaCyc":"F16ALDOLASE-RXN","Enzymes":["4.1.2.13"],"original_bigg_id":"FBA","map_info":{"x":224.1583165935302,"reversibility":true,"y":244.87862920130573},"KEGG":"R01068"},"metabolites":{"dhap_c":1,"fdp_c":-1,"g3p_c":1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0394 or Asuc_1073","name":"fructose-bisphosphatase","id":"FBP","upper_bound":1000,"notes":{"MetaCyc":"F16BDEPHOS-RXN","Enzymes":["3.1.3.11"],"original_bigg_id":"FBP","map_info":{"x":142.3640880339957,"reversibility":false,"y":205.18000736770938},"KEGG":"R00762"},"metabolites":{"h2o_c":-1,"f6p_c":1,"fdp_c":-1,"pi_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"formate transport in via proton symport","id":"FORt2","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"FORt2"},"metabolites":{"for_c":1,"for_e":-1,"h_e":-1,"h_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"formate transport via diffusion","id":"FORti","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"FORti"},"metabolites":{"for_c":-1,"for_e":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1813 or Asuc_1814","name":"fumarate reductase","id":"FRD7","upper_bound":1000,"notes":{"MetaCyc":"SUCCINATE-DEHYDROGENASE-UBIQUINONE-RXN","Enzymes":["1.3.5.1","1.3.5.4"],"original_bigg_id":"FRD7","map_info":{"x":91.85808723484153,"reversibility":true,"y":617.1681673337579,"cofactors":{"q8_c":{"x":118.69275404506878,"y":624.3914968332098},"q8h2_c":{"x":119.2533052823336,"y":608.0773561013383}}},"KEGG":"R02164"},"metabolites":{"q8_c":1,"fum_c":-1,"succ_c":1,"q8h2_c":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"R_Fructose_transport_via_PEPPyr_PTS__f6p_generating","id":"FRUpts2","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"FRUpts2"},"metabolites":{"pyr_c":1,"f6p_c":1,"fru_e":-1,"pep_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0956","name":"fumarase","id":"FUM","upper_bound":1000,"notes":{"MetaCyc":"FUMHYDR-RXN","Enzymes":["4.2.1.2"],"original_bigg_id":"FUM","map_info":{"x":128.7879223563044,"reversibility":true,"y":552.1226480673281,"group":2},"KEGG":"R01082"},"metabolites":{"h2o_c":-1,"fum_c":-1,"mal__L_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"R_Fumarate_transport_via_proton_symport__2_H","id":"FUMt2_2","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"FUMt2_2"},"metabolites":{"fum_c":1,"h_e":-2,"h_c":2,"fum_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1027","name":"glyceraldehyde-3-phosphate dehydrogenase","id":"GAPD","upper_bound":1000,"notes":{"MetaCyc":"GAPOXNPHOSPHN-RXN","Enzymes":["1.2.1.12","1.2.1.59"],"original_bigg_id":"GAPD","map_info":{"x":347.3582370890107,"reversibility":true,"y":211.28467493652442,"cofactors":{"nadh_c":{"x":380.0553232949826,"y":196.7216203331348}}},"KEGG":"R01061"},"metabolites":{"h_c":1,"pi_c":-1,"13dpg_c":1,"nadh_c":1,"g3p_c":-1,"nad_c":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"D-glucose transport via PEP:Pyr PTS","id":"GLCpts","upper_bound":1000,"notes":{"map_info":{"x":74.07382680101327,"reversibility":false,"y":47.09257932828508,"cofactors":{"pyr_c":{"x":58.002541538494754,"y":78.79946293784405},"pep_c":{"x":31.480504681410935,"y":60.264936292496046}}},"original_bigg_id":"GLCpts"},"metabolites":{"pyr_c":1,"glc__D_e":-1,"pep_c":-1,"g6p_c":1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0232","name":"phosphogluconate dehydrogenase","id":"GND","upper_bound":1000,"notes":{"MetaCyc":"RXN-9952","Enzymes":["1.1.1.44","1.1.1.351"],"original_bigg_id":"GND","map_info":{"x":264.4839278394269,"reversibility":false,"y":19.07008358081694,"cofactors":{"nadph_c":{"x":321.66670403486387,"y":30.554305302939596},"co2_c":{"x":316.74655609093656,"y":15.396386542933953}}},"KEGG":"R01528"},"metabolites":{"nadph_c":1,"co2_c":1,"6pgc_c":-1,"nadp_c":-1,"ru5p__D_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_H2O_transport_via_diffusion","id":"H2Ot","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"H2Ot"},"metabolites":{"h2o_c":1,"h2o_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"R_Malate_transport_via_proton_symport__2_H","id":"MALt2_2","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"MALt2_2"},"metabolites":{"mal__L_e":-1,"h_e":-2,"mal__L_c":1,"h_c":2}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1612","name":"malate dehydrogenase","id":"MDH","upper_bound":1000,"notes":{"MetaCyc":"MALATE-DEH-RXN","Enzymes":["1.1.1.37","1.1.1.299"],"original_bigg_id":"MDH","map_info":{"x":168.8757596691594,"reversibility":true,"y":483.36967508245345,"cofactors":{"nadh_c":{"x":137.77353012291036,"y":432.74976774451216}},"group":2},"KEGG":"R00342"},"metabolites":{"oaa_c":1,"nadh_c":1,"mal__L_c":-1,"h_c":1,"nad_c":-1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0669","name":"malic enzyme (NADP)","id":"ME2","upper_bound":1000,"notes":{"MetaCyc":"MALIC-NADP-RXN","Enzymes":["1.1.1.40"],"original_bigg_id":"ME2","map_info":{"x":205.61003807650025,"reversibility":false,"y":491.3126487628525,"cofactors":{"nadph_c":{"x":218.02399667262947,"y":536.0931373872677},"co2_c":{"x":235.94197276702695,"y":520.8345509714555}}},"KEGG":"R00216"},"metabolites":{"nadph_c":1,"co2_c":1,"pyr_c":1,"mal__L_c":-1,"nadp_c":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"NADH dehydrogenase (ubiquinone-8 & 3 protons)","id":"NADH16","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"q8_c":{},"nadh_c":{},"q8h2_c":{}}},"original_bigg_id":"NADH16"},"metabolites":{"h_e":3,"h_c":-4,"q8_c":-1,"nadh_c":-1,"q8h2_c":1,"nad_c":1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_1021 or Asuc_1022","name":"NAD transhydrogenase","id":"NADTRHD","upper_bound":1000,"notes":{"MetaCyc":"PYRNUTRANSHYDROGEN-RXN","Enzymes":["1.6.1.1","1.6.1.2","1.6.1.3"],"original_bigg_id":"NADTRHD","map_info":{"hidden":true,"reversibility":false,"cofactors":{"nadph_c":{},"nadh_c":{}}},"KEGG":"R00112"},"metabolites":{"nadph_c":-1,"nadh_c":1,"nadp_c":1,"nad_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_o2_transport__diffusion","id":"O2t","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"O2t"},"metabolites":{"o2_e":-1,"o2_c":1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0942 or Asuc_0944 or Asuc_0943","name":"pyruvate dehydrogenase","id":"PDH","upper_bound":1000,"notes":{"MetaCyc":"PYRUVDEH-RXN","Enzymes":["1.2.4.1","1.8.1.4","2.3.1.12"],"original_bigg_id":"PDH","map_info":{"x":316.9307329456555,"reversibility":false,"y":466.0116167359042,"cofactors":{"co2_c":{"x":300.80184508575394,"y":520.1979178366431},"nadh_c":{"x":280.4304995293506,"y":502.42259256641546}}},"KEGG":"R00209"},"metabolites":{"co2_c":1,"coa_c":-1,"pyr_c":-1,"nadh_c":1,"accoa_c":1,"nad_c":-1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0687","name":"phosphofructokinase","id":"PFK","upper_bound":1000,"notes":{"MetaCyc":"6PFRUCTPHOS-RXN","Enzymes":["2.7.1.11"],"original_bigg_id":"PFK","map_info":{"x":133.80538618985943,"reversibility":false,"y":216.73428030936736,"cofactors":{"atp_c":{"x":79.98019294099704,"y":218.81350203548726}}},"KEGG":"R00756"},"metabolites":{"f6p_c":-1,"atp_c":-1,"fdp_c":1,"h_c":1,"adp_c":1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0207","name":"pyruvate formate lyase","id":"PFL","upper_bound":1000,"notes":{"MetaCyc":"PYRUVFORMLY-RXN","Enzymes":["2.3.1.54"],"original_bigg_id":"PFL","map_info":{"x":345.3829389128512,"reversibility":false,"y":467.39393224318394,"group":"ko"},"KEGG":"R00212"},"metabolites":{"pyr_c":-1,"for_c":1,"coa_c":-1,"accoa_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1425","name":"glucose-6-phosphate isomerase","id":"PGI","upper_bound":1000,"notes":{"MetaCyc":"PGLUCISOM-RXN","Enzymes":["5.3.1.9"],"original_bigg_id":"PGI","map_info":{"x":91.98307808744356,"reversibility":true,"y":115.95617458755262},"KEGG":"R00771"},"metabolites":{"f6p_c":1,"g6p_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0535","name":"phosphoglycerate kinase","id":"PGK","upper_bound":1000,"notes":{"MetaCyc":"PHOSGLYPHOS-RXN","Enzymes":["2.7.2.3"],"original_bigg_id":"PGK","map_info":{"x":389.9618138227907,"reversibility":true,"y":258.5231106462878,"cofactors":{"atp_c":{"x":420.31493574154047,"y":278.9922657220668}}},"KEGG":"R01512"},"metabolites":{"atp_c":-1,"3pg_c":-1,"adp_c":1,"13dpg_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0572 or Asuc_1383","name":"phosphoglycerate mutase","id":"PGM","upper_bound":1000,"notes":{"MetaCyc":"3PGAREARR-RXN","Enzymes":["5.4.2.11","5.4.2.12"],"original_bigg_id":"PGM","map_info":{"x":367.8069554754235,"reversibility":true,"y":341.2765723756918},"KEGG":"R01518"},"metabolites":{"3pg_c":1,"2pg_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_phosphate_reversible_transport_via_symport","id":"PIt2r","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"PIt2r"},"metabolites":{"h_e":-1,"pi_e":-1,"pi_c":1,"h_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0221","name":"phosphoenolpyruvate carboxykinase","id":"PPCK","upper_bound":1000,"notes":{"MetaCyc":"PEPCARBOXYKIN-RXN","Enzymes":["4.1.1.49"],"original_bigg_id":"PPCK","map_info":{"x":225.14157388231007,"reversibility":true,"y":384.6537560731797,"cofactors":{"co2_c":{"x":195.29336942169803,"y":342.9377798390681},"atp_c":{"x":172.8741869016683,"y":380.0570124689461}},"group":2},"KEGG":"R00341"},"metabolites":{"co2_c":1,"atp_c":-1,"pep_c":1,"adp_c":1,"oaa_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1662","name":"phosphotransacetylase","id":"PTAr","upper_bound":1000,"notes":{"MetaCyc":"PHOSACETYLTRANS-RXN","Enzymes":["2.3.1.8"],"original_bigg_id":"PTAr","map_info":{"x":337.56678237297814,"reversibility":true,"y":551.3180861798992},"KEGG":"R00230"},"metabolites":{"pi_c":-1,"actp_c":1,"coa_c":1,"accoa_c":-1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_1171","name":"pyruvate kinase","id":"PYK","upper_bound":1000,"notes":{"MetaCyc":"PEPDEPHOS-RXN","Enzymes":["2.7.1.40"],"original_bigg_id":"PYK","map_info":{"x":275.7553622814589,"reversibility":false,"y":374.0973638547674,"cofactors":{"atp_c":{"x":310.9807956946766,"y":386.16479587096}}},"KEGG":"R00200"},"metabolites":{"pyr_c":1,"atp_c":1,"pep_c":-1,"adp_c":-1,"h_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"R_pyruvate_transport_in_via_proton_symport","id":"PYRt2","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"PYRt2r"},"metabolites":{"pyr_c":1,"h_e":-1,"h_c":1,"pyr_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0218","name":"ribulose 5-phosphate 3-epimerase","id":"RPE","upper_bound":1000,"notes":{"MetaCyc":"RIBULP3EPIM-RXN","Enzymes":["5.1.3.1"],"original_bigg_id":"RPE","map_info":{"x":325.8088418501407,"reversibility":true,"y":97.32403922907261},"KEGG":"R01529"},"metabolites":{"xu5p__D_c":1,"ru5p__D_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_1580 or Asuc_1597 or Asuc_1870","name":"ribose-5-phosphate isomerase","id":"RPI","upper_bound":1000,"notes":{"MetaCyc":"RIB5PISOM-RXN","Enzymes":["5.3.1.6"],"original_bigg_id":"RPI","map_info":{"x":283.881107839456,"reversibility":true,"y":67.29564196697308},"KEGG":"R01056"},"metabolites":{"ru5p__D_c":1,"r5p_c":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"R_succinate_transport_via_proton_symport__2_H","id":"SUCCt2_2","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"SUCCt2_2"},"metabolites":{"h_e":-2,"h_c":2,"succ_e":-1,"succ_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"succinate transport out via proton antiport","id":"SUCCt3","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"SUCCt3"},"metabolites":{"h_e":-1,"h_c":1,"succ_e":1,"succ_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0582","name":"transaldolase","id":"TALA","upper_bound":1000,"notes":{"MetaCyc":"TRANSALDOL-RXN","Enzymes":["2.2.1.2"],"original_bigg_id":"TALA","map_info":{"x":180.55593569906966,"reversibility":true,"y":166.4198058730998},"KEGG":"R08575"},"metabolites":{"f6p_c":1,"e4p_c":1,"s7p_c":-1,"g3p_c":-1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_1021 or Asuc_1022","name":"R_NAD_P__transhydrogenase","id":"THD2","upper_bound":1000,"notes":{"Enzymes":["1.6.1.2"],"original_bigg_id":"THD2","map_info":{"hidden":true,"reversibility":false,"cofactors":{"nadph_c":{},"nadh_c":{}}}},"metabolites":{"nadph_c":1,"h_e":-2,"h_c":2,"nad_c":1,"nadh_c":-1,"nadp_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0170 or Asuc_0171 or Asuc_0265","name":"transketolase","id":"TKT1","upper_bound":1000,"notes":{"MetaCyc":"1TRANSKETO-RXN","Enzymes":["2.2.1.1"],"original_bigg_id":"TKT1","map_info":{"x":274.51468969512905,"reversibility":true,"y":156.8092631665833},"KEGG":"R01641"},"metabolites":{"xu5p__D_c":-1,"s7p_c":1,"r5p_c":-1,"g3p_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0170 or Asuc_0171 or Asuc_0265","name":"transketolase","id":"TKT2","upper_bound":1000,"notes":{"MetaCyc":"2TRANSKETO-RXN","Enzymes":["2.2.1.1"],"original_bigg_id":"TKT2","map_info":{"x":231.48068334636415,"reversibility":true,"y":136.77351849450065},"KEGG":"R01067"},"metabolites":{"xu5p__D_c":-1,"e4p_c":-1,"g3p_c":1,"f6p_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"Asuc_0677 or Asuc_1575 or Asuc_1601","name":"triose-phosphate isomerase","id":"TPI","upper_bound":1000,"notes":{"MetaCyc":"TRIOSEPISOMERIZATION-RXN","Enzymes":["5.3.1.1"],"original_bigg_id":"TPI","map_info":{"x":297.1596302668127,"reversibility":true,"y":237.50395472210562},"KEGG":"R01015"},"metabolites":{"dhap_c":-1,"g3p_c":1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_0301 or Asuc_0302 or Asuc_0303","name":"OXALODECARB-RXN","id":"OAADC","upper_bound":1000,"subsystem":"PWY-6339, METHYLGALLATE-DEGRADATION-PWY, P184-PWY","notes":{"RHEA":["15641"],"Enzymes":["1.1.1.38","4.1.1.3"],"map_info":{"x":248.3832451334038,"reversibility":false,"y":438.2336301142614,"cofactors":{"co2_c":{"x":253.12970865514836,"y":411.3388431800438}}},"orig_id":"OXALODECARB-RXN","BIOCYC":["OXALODECARB-RXN"],"CONFIDENCE LEVEL":["4"],"KEGG":["R00217"]},"metabolites":{"pyr_c":1,"co2_c":1,"h_c":-1,"oaa_c":-1}},{"lower_bound":0,"gene_reaction_rule":"Asuc_1264 or Asuc_1265 or Asuc_1704","name":"1.2.1.2-RXN","id":"FDH","upper_bound":1000,"subsystem":"PWY-1881, PWY-5497, P164-PWY, PWY-6696","notes":{"RHEA":["15985"],"Enzymes":["1.2.1.2"],"map_info":{"x":423.4407901556308,"reversibility":false,"hidden":false,"cofactors":{"nadh_c":{"x":463.5330220895758,"y":493.4239508909179}},"y":496.2018904466845},"orig_id":"_1.2.1.2-RXN","BIOCYC":["1.2.1.2-RXN"],"CONFIDENCE LEVEL":["2"],"KEGG":["R00519"]},"metabolites":{"for_c":-1,"nadh_c":1,"nad_c":-1,"co2_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"H2RED","id":"H2RED","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"q8_c":{},"q8h2_c":{}}}},"metabolites":{"q8_c":-1,"h2_e":-1,"h_e":2,"h_c":-2,"q8h2_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"EX_h2_e","id":"EX_h2_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true}},"metabolites":{"h2_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"GLCabc","id":"GLCabc","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"atp_c":{}}}},"metabolites":{"glc__D_c":1,"atp_c":-1,"h_c":1,"pi_c":1,"h2o_c":-1,"glc__D_e":-1,"adp_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"Glucokinase","id":"GLK","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"atp_c":{}}}},"metabolites":{"glc__D_c":-1,"atp_c":-1,"h_c":1,"adp_c":1,"g6p_c":1}},{"lower_bound":-6,"gene_reaction_rule":"","name":"EX_xyl_e","id":"EX_xyl_e","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true}},"metabolites":{"xyl__D_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"XYLT","id":"XYLT","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true}},"metabolites":{"xyl__D_e":-1,"h_e":-1,"h_c":1,"xyl__D_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"xylose isomerase","id":"XYLI","upper_bound":1000,"notes":{"map_info":{"x":409.74618702609604,"reversibility":true,"y":101.00702504959148}},"metabolites":{"xyl__D_c":-1,"xylu__D_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"xylulokinase","id":"XYLK","upper_bound":1000,"notes":{"map_info":{"x":355.274637558575,"reversibility":true,"y":134.06484742133145,"cofactors":{"atp_c":{"x":391.9735184439857,"y":141.7113484973318}}}},"metabolites":{"xu5p__D_c":1,"atp_c":-1,"h_c":1,"adp_c":1,"xylu__D_c":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"EX_arab_e","id":"EX_arab_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true}},"metabolites":{"arab__D_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"ARABT","id":"ARABT","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"atp_c":{}}}},"metabolites":{"atp_c":-1,"arab__D_c":1,"h_c":1,"pi_c":1,"h2o_c":-1,"arab__D_e":-1,"adp_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"AKI","id":"AKI","upper_bound":1000,"notes":{"map_info":{"x":412.8530223543729,"reversibility":false,"y":-12.086736195040189,"hidden":true}},"metabolites":{"rbl__D_c":1,"arab__D_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"arab_ptrans","id":"arab_ptrans","upper_bound":1000,"notes":{"map_info":{"x":367.9683175146411,"reversibility":true,"hidden":true,"cofactors":{"atp_c":{}},"y":11.104788301272038}},"metabolites":{"rbl__D_c":-1,"atp_c":-1,"h_c":1,"adp_c":1,"ru5p__D_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"EX_galac_e","id":"EX_galac_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true}},"metabolites":{"gal_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"GALACT","id":"GALACT","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"atp_c":{}}}},"metabolites":{"atp_c":-1,"gal_e":-1,"h_c":1,"pi_c":1,"h2o_c":-1,"gal_c":1,"adp_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"GALACP","id":"GALACP","upper_bound":1000,"notes":{"map_info":{"x":4.867197102182892,"reversibility":false,"hidden":true,"cofactors":{"atp_c":{}},"y":64.34888023257503}},"metabolites":{"gal1p_c":1,"gal_c":-1,"atp_c":-1,"h_c":1,"adp_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"GALUTRANS","id":"GALUTRANS","upper_bound":1000,"notes":{"map_info":{"x":22.99337196476698,"reversibility":false,"y":24.975832474358228,"hidden":true}},"metabolites":{"gal1p_c":-1,"udpg_c":-1,"g1p_c":1,"udpgal_c":1}},{"lower_bound":-1000,"gene_reaction_rule":"","name":"UDP_RECYC","id":"UDP_RECYC","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true}},"metabolites":{"udpg_c":-1,"udpgal_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"G1PPI","id":"G1PPI","upper_bound":1000,"notes":{"map_info":{"x":68.14513967049888,"reversibility":false,"y":6.471010071849321,"hidden":true}},"metabolites":{"g1p_c":-1,"g6p_c":1}},{"lower_bound":0,"gene_reaction_rule":"","name":"","id":"EX_biomass","upper_bound":1000,"objective_coefficient":1,"notes":{"map_info":{"reversibility":false,"hidden":true}},"metabolites":{"biomass":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"A. succinogenes 130z biomass formation","id":"biomass","upper_bound":1000,"notes":{"map_info":{"hidden":true,"reversibility":false,"cofactors":{"nadph_c":{},"co2_c":{},"atp_c":{},"nadh_c":{}}}},"metabolites":{"atp_c":-26,"nadp_c":13.0279,"f6p_c":-0.07387568057546033,"3pg_c":-1.5587872798432814,"nadh_c":3.547,"adp_c":26,"nadph_c":-13.0279,"co2_c":13.753651140545564,"g6p_c":-0.2136038719036582,"h2o_c":-31.587866869298622,"g3p_c":-0.1344141437832776,"accoa_c":-3.9050955664416107,"coa_c":3.9050955664416107,"r5p_c":-0.9353765649166534,"pi_c":29.833095432058474,"h_c":35.4809,"pep_c":-0.5408866824643365,"nad_c":-3.547,"oaa_c":-1.8616879899037369,"pyr_c":-2.9516929186765024,"biomass":1,"e4p_c":-0.37615120857180784}},{"lower_bound":0,"gene_reaction_rule":"","name":"","id":"EX_atpm","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true}},"metabolites":{"atpm":-1}},{"lower_bound":-1000,"gene_reaction_rule":"(b2133 or b1380)","name":"D-lactate dehydrogenase","id":"LDH_D","upper_bound":1000,"notes":{"MetaCyc":"DLACTDEHYDROGNAD-RXN","Enzymes":["1.1.1.28"],"original_bigg_id":"LDH_D","map_info":{"x":394.36957371174753,"reversibility":true,"y":396.6707449188173,"cofactors":{"nadh_c":{"x":375.7087967758144,"y":430.8530168183352}}},"KEGG":"R00704"},"metabolites":{"pyr_c":1,"nadh_c":1,"lac__D_c":-1,"h_c":1,"nad_c":-1}},{"lower_bound":-1000,"gene_reaction_rule":"( b2975  or  b3603 )","name":"R_D_lactate_transport_via_proton_symport","id":"D_LACt2","upper_bound":1000,"notes":{"map_info":{"reversibility":true,"hidden":true},"original_bigg_id":"D_LACt2"},"metabolites":{"lac__D_c":1,"h_e":-1,"h_c":1,"lac__D_e":-1}},{"lower_bound":0,"gene_reaction_rule":"","name":"D-lactate exchange","id":"EX_lac__D_e","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"hidden":true},"original_bigg_id":"EX_lac_D_e"},"metabolites":{"lac__D_e":-1}},{"lower_bound":-1000,"gene_reaction_rule":"(Asuc_0227) and (Asuc_0228)","name":"glucose 6-phosphate dehydrogenase","id":"G6PDH2r","upper_bound":1000,"notes":{"MetaCyc":"GLU6PDEHYDROG-RXN","Enzymes":["1.1.1.49","1.1.1.363"],"original_bigg_id":"G6PDH2r","map_info":{"x":147.73235676719128,"reversibility":true,"y":24.99947127525205,"cofactors":{"nadph_c":{"x":180.3723335905413,"y":34.60991459649382}}},"KEGG":"R00835"},"metabolites":{"nadph_c":1,"6pgc_c":1,"h_c":2,"g6p_c":-1,"h2o_c":-1,"nadp_c":-1}},{"lower_bound":0,"gene_reaction_rule":"b1300","name":"aldehyde dehydrogenase (acetaldehyde, NAD)","id":"ALDD2x","upper_bound":1000,"notes":{"map_info":{"reversibility":false,"cofactors":{"nadh_c":{"x":349.85825961700823,"y":640.8539741979195}},"x":351.1322090979263,"y":609.5077876523435}},"metabolites":{"h2o_c":-1,"nad_c":-1,"acald_c":-1,"ac_c":1,"h_c":2,"nadh_c":1}}],"metabolites":[{"name":"3-Phospho-D-glyceroyl phosphate","id":"13dpg_c","compartment":"c","charge":-4,"formula":"C3H4O10P2","notes":{"SEED":["cpd00203"],"MetaCyc":"DPG","PUBCHEM ID":["3535"],"ChEBI":["16001","1658","20189","57604","11881"],"Reactome":["29800"],"UPA":["UPC00236"],"BRENDA":["BG18032","BG87317"],"map_info":{"x":373.043223866228,"display_name":"13DPG","y":237.3584107009283},"BioPath":["1,3-Diphospho-D-glycerate"],"HMDB":["HMDB01270"],"KEGG":"C00236"}},{"name":"D-Glycerate 2-phosphate","id":"2pg_c","compartment":"c","charge":-3,"formula":"C3H4O7P","notes":{"SEED":["cpd00482"],"MetaCyc":"2-PG","PUBCHEM ID":["3904"],"ChEBI":["1267","58289","17835","21028","11651","12986","24344","39868"],"Reactome":["30485"],"UPA":["UPC00631"],"BRENDA":["BG17976","BG17975"],"map_info":{"x":324.1399811479195,"display_name":"2PG","y":361.40399959209265},"BioPath":["2-Phospho-D-glycerate"],"HMDB":["HMDB03391","HMDB00362"],"KEGG":"C00631"}},{"name":"3-Phospho-D-glycerate","id":"3pg_c","compartment":"c","charge":-3,"formula":"C3H4O7P","notes":{"SEED":["cpd00169"],"MetaCyc":"G3P","PUBCHEM ID":["3497"],"ChEBI":["40016","58272","57998","11879","1657","1659","17050","21029","11882","11880","12987","17794","24345"],"Reactome":["29728"],"UPA":["UPC00597","UPC00197"],"BRENDA":["BG17981","BG17979"],"map_info":{"x":386.81349679838365,"display_name":"3PG","y":307.835730848789},"BioPath":["3-Phospho-D-glycerate"],"HMDB":["HMDB00807"],"KEGG":"C00197"}},{"name":"6-Phospho-D-gluconate","id":"6pgc_c","compartment":"c","charge":-3,"formula":"C6H10O10P","notes":{"SEED":["cpd00284"],"MetaCyc":"CPD-2961","PUBCHEM ID":["3638"],"ChEBI":["2231","12232","48928","16863","58759","40282","33851"],"Reactome":["29996"],"UPA":["UPC00345"],"BRENDA":["BG22563"],"map_info":{"x":198.1801574871815,"display_name":"6PGC","y":8.920309065114125},"BioPath":["6-Phospho-D-gluconate"],"HMDB":["HMDB01316"],"KEGG":"C00345"}},{"name":"Acetate","id":"ac_c","compartment":"c","charge":-1,"formula":"C2H3O2","notes":{"MetaCyc":"ACET","ChEBI":["62947","62964","32029","22165","3310","2387","62984","63879","32138","15366","13704","63078","30089","40480","22169","40486","59199","63045","32954"],"Reactome":["113539","2022890","29416","1524044","390305"],"CASID":["71-50-1"],"HMDB":["HMDB00042"],"SEED":["cpd00029"],"CAS":["71-50-1"],"PUBCHEM ID":["3335"],"UPA":["UPC00033"],"BRENDA":["BG15447"],"map_info":{"x":282.34262460899663,"display_name":"AC","y":648.5447410537606},"BioPath":["Acetate"],"LIPIDMAPS":["LMFA01010000","LMFA01010002"],"KEGG":"C00033"}},{"name":"Acetate","id":"ac_e","compartment":"e","charge":-1,"formula":"C2H3O2","notes":{"MetaCyc":"ACET","ChEBI":["62947","62964","32029","22165","3310","2387","62984","63879","32138","15366","13704","63078","30089","40480","22169","40486","59199","63045","32954"],"Reactome":["113539","2022890","29416","1524044","390305"],"CASID":["71-50-1"],"HMDB":["HMDB00042"],"SEED":["cpd00029"],"CAS":["71-50-1"],"PUBCHEM ID":["3335"],"UPA":["UPC00033"],"BRENDA":["BG15447"],"map_info":{"display_name":"AC","hidden":true},"BioPath":["Acetate"],"LIPIDMAPS":["LMFA01010000","LMFA01010002"],"KEGG":"C00033"}},{"name":"Acetaldehyde","id":"acald_c","compartment":"c","charge":0,"formula":"C2H4O","notes":{"MetaCyc":"ACETALD","ChEBI":["13703","2383","15343","22158","40533"],"Reactome":["113532","29510","113681","113745"],"CASID":["75-07-0"],"HMDB":["HMDB00990"],"SEED":["cpd00071"],"CAS":["75-07-0"],"PUBCHEM ID":["3384"],"UPA":["UPC00084"],"BRENDA":["BG89392","BG15435"],"map_info":{"x":396.5187869869987,"display_name":"ACALD","y":583.8260177198886},"BioPath":["Acetaldehyde"],"KEGG":"C00084"}},{"name":"Acetaldehyde","id":"acald_e","compartment":"e","charge":0,"formula":"C2H4O","notes":{"MetaCyc":"ACETALD","ChEBI":["13703","2383","15343","22158","40533"],"Reactome":["113532","29510","113681","113745"],"CASID":["75-07-0"],"HMDB":["HMDB00990"],"SEED":["cpd00071"],"CAS":["75-07-0"],"PUBCHEM ID":["3384"],"UPA":["UPC00084"],"BRENDA":["BG89392","BG15435"],"map_info":{"display_name":"ACALD","hidden":true},"BioPath":["Acetaldehyde"],"KEGG":"C00084"}},{"name":"Acetyl-CoA","id":"accoa_c","compartment":"c","charge":-4,"formula":"C23H34N7O17P3S","notes":{"MetaCyc":"ACETYL-COA","ChEBI":["13712","22192","40470","2408","57288","15351"],"Reactome":["113559","727753","113560","353123","76183"],"CASID":["72-89-9"],"HMDB":["HMDB01206"],"SEED":["cpd00022"],"CAS":["72-89-9"],"PUBCHEM ID":["3326"],"UPA":["UPC00024"],"BRENDA":["BG36329"],"map_info":{"x":356.5408460563843,"display_name":"ACCOA","y":517.5604880189204},"BioPath":["Acetyl-CoA"],"LIPIDMAPS":["LMFA07050029","LMFA07050000"],"KEGG":"C00024"}},{"name":"Acetyl phosphate","id":"actp_c","compartment":"c","charge":-2,"formula":"C2H3O5P","notes":{"MetaCyc":"ACETYL-P","ChEBI":["13711","2407","22191","46262","15350"],"CAS":["19926-71-7"],"CASID":["19926-71-7"],"HMDB":["HMDB01494"],"SEED":["cpd00196"],"PUBCHEM ID":["3527"],"UPA":["UPC00227"],"BRENDA":["BG15501"],"map_info":{"x":319.1394521829853,"display_name":"ACTP","y":582.8240702520674},"BioPath":["Acetyl_phosphate"],"KEGG":"C00227"}},{"name":"ADP","id":"adp_c","compartment":"c","charge":-3,"formula":"C10H12N5O10P2","notes":{"MetaCyc":"ADP","ChEBI":["13222","16761","2342","22244","40553","456216"],"Reactome":["190072","481002","211606","429160","29370","196180","113581","113582","114564","114565","429153"],"CASID":["58-64-0"],"HMDB":["HMDB01341"],"SEED":["cpd00008"],"CAS":["58-64-0"],"PUBCHEM ID":["3310"],"UPA":["UPC00008"],"BRENDA":["BG1228"],"map_info":{"display_name":"ADP","hidden":true},"BioPath":["Adenosine-5-prime-diphosphate"],"KEGG":"C00008"}},{"name":"ATP","id":"atp_c","compartment":"c","charge":-4,"formula":"C10H12N5O13P3","notes":{"MetaCyc":"ATP","ChEBI":["40938","15422","57299","13236","10789","30616","22249","10841","2359"],"Reactome":["190078","113592","113593","114570","29358","389573","139836","211579"],"CASID":["56-65-5"],"HMDB":["HMDB00538"],"SEED":["cpd00002"],"CAS":["56-65-5"],"PUBCHEM ID":["3304"],"UPA":["UPC00002"],"BRENDA":["BG1395"],"map_info":{"color":"#ffbb78","display_name":"ATP","hidden":true},"BioPath":["Adenosine-5-prime-triphosphate"],"KEGG":"C00002"}},{"name":"CO2","id":"co2_c","compartment":"c","charge":0,"formula":"CO2","notes":{"MetaCyc":"CARBON-DIOXIDE","ChEBI":["48829","16526","13284","13285","13282","13283","23011","3283"],"Reactome":["159751","159942","1237009","29376","113528","389536","189480"],"CASID":["124-38-9"],"HMDB":["HMDB01967"],"SEED":["cpd00011"],"CAS":["124-38-9"],"PUBCHEM ID":["3313"],"UPA":["UPC00011"],"BRENDA":["BG28651"],"map_info":{"x":457.4357200364724,"color":"#aec7e8","display_name":"CO2","y":516.2417657229903,"hidden":false},"BioPath":["Carbon_dioxide"],"KEGG":"C00011"}},{"name":"CO2","id":"co2_e","compartment":"e","charge":0,"formula":"CO2","notes":{"MetaCyc":"CARBON-DIOXIDE","ChEBI":["48829","16526","13284","13285","13282","13283","23011","3283"],"Reactome":["159751","159942","1237009","29376","113528","389536","189480"],"CASID":["124-38-9"],"HMDB":["HMDB01967"],"SEED":["cpd00011"],"CAS":["124-38-9"],"PUBCHEM ID":["3313"],"UPA":["UPC00011"],"BRENDA":["BG28651"],"map_info":{"display_name":"CO2","hidden":true},"BioPath":["Carbon_dioxide"],"KEGG":"C00011"}},{"name":"Coenzyme A","id":"coa_c","compartment":"c","charge":-4,"formula":"C21H32N7O16P3S","notes":{"MetaCyc":"CO-A","ChEBI":["57287","13295","13294","13298","41631","41597","741566","15346","23355","3771"],"Reactome":["76194","193514","29374","2485002","162743"],"CASID":["85-61-0"],"HMDB":["HMDB01423"],"SEED":["cpd00010"],"CAS":["85-61-0"],"PUBCHEM ID":["3312"],"UPA":["UPC00010"],"BRENDA":["BG11741"],"map_info":{"display_name":"COA","hidden":true},"BioPath":["CoA-SH"],"KEGG":"C00010"}},{"name":"Dihydroxyacetone phosphate","id":"dhap_c","compartment":"c","charge":-2,"formula":"C3H5O6P","notes":{"MetaCyc":"DIHYDROXY-ACETONE-PHOSPHATE","ChEBI":["14341","57642","14342","16108","5454","24355","39571"],"Reactome":["188451","75970","390404"],"CASID":["57-04-5"],"HMDB":["HMDB01473","HMDB11735"],"SEED":["cpd00095"],"CAS":["57-04-5"],"PUBCHEM ID":["3411"],"UPA":["UPC00111"],"BRENDA":["BG89172"],"map_info":{"x":288.1821461789964,"display_name":"DHAP","y":259.62935854085896},"BioPath":["2-Glycerone_phosphate"],"KEGG":"C00111"}},{"name":"D-Erythrose 4-phosphate","id":"e4p_c","compartment":"c","charge":-2,"formula":"C4H7O7P","notes":{"MetaCyc":"ERYTHROSE-4P","ChEBI":["42349","48153","4256","20927","12921","21109","27508","4114","16897"],"Reactome":["29878"],"CASID":["585-18-2"],"HMDB":["HMDB01321"],"SEED":["cpd01994","cpd00236"],"CAS":["585-18-2"],"PUBCHEM ID":["3574"],"UPA":["UPC00279"],"BRENDA":["BG59851","BG91980"],"map_info":{"x":177.79008346463644,"display_name":"E4P","y":62.84947822464068},"BioPath":["D-Erythrose_4-phosphate"],"KEGG":"C00279"}},{"name":"Ethanol","id":"etoh_c","compartment":"c","charge":0,"formula":"C2H6O","notes":{"MetaCyc":"ETOH","ChEBI":["4879","30880","16236","30878","52092","14222","52096","23978","44594","42377"],"Reactome":["30203","113748"],"CASID":["64-17-5"],"HMDB":["HMDB00108"],"SEED":["cpd00363"],"CAS":["64-17-5"],"PUBCHEM ID":["3752"],"UPA":["UPC00469"],"BRENDA":["BG15529"],"map_info":{"x":428.49577610988814,"display_name":"ETOH","y":642.6537303483125},"BioPath":["Ethanol"],"KEGG":"C00469"}},{"name":"Ethanol","id":"etoh_e","compartment":"e","charge":0,"formula":"C2H6O","notes":{"MetaCyc":"ETOH","ChEBI":["4879","30880","16236","30878","52092","14222","52096","23978","44594","42377"],"Reactome":["30203","113748"],"CASID":["64-17-5"],"HMDB":["HMDB00108"],"SEED":["cpd00363"],"CAS":["64-17-5"],"PUBCHEM ID":["3752"],"UPA":["UPC00469"],"BRENDA":["BG15529"],"map_info":{"display_name":"ETOH","hidden":true},"BioPath":["Ethanol"],"KEGG":"C00469"}},{"name":"D-Fructose 6-phosphate","id":"f6p_c","compartment":"c","charge":-2,"formula":"C6H11O9P","notes":{"MetaCyc":"FRUCTOSE-6P","ChEBI":["57634","12352","45804","61527","61553","10375","16084","42378","22768"],"CAS":["643-13-0"],"CASID":["643-13-0"],"HMDB":["HMDB03971"],"SEED":["cpd00072"],"PUBCHEM ID":["3385"],"UPA":["UPC05345","UPC00085"],"BRENDA":["BG56501","BG22637"],"map_info":{"x":101.26331523486641,"display_name":"F6P","y":177.34727315441216},"BioPath":["beta-D-Fructose_6-phosphate"],"KEGG":"C00085"}},{"name":"D-Fructose 1,6-bisphosphate","id":"fdp_c","compartment":"c","charge":-4,"formula":"C6H10O12P2","notes":{"SEED":["cpd00290"],"MetaCyc":"FRUCTOSE-16-DIPHOSPHATE","PUBCHEM ID":["3647"],"map_info":{"x":180.377220566232,"display_name":"FDP","y":240.75502501147935},"ChEBI":["32968","49299","42553","32966","37736","28013","32967","41014","22767","10374","40595","40591"],"CAS":["488-69-7"],"UPA":["UPC00354"],"BRENDA":["BG22767"],"KEGG":"C00354","BioPath":["beta-D-Fructose_1,6-bisphosphate"],"CASID":["488-69-7"]}},{"name":"Formate","id":"for_c","compartment":"c","charge":-1,"formula":"CH1O2","notes":{"MetaCyc":"FORMATE","ChEBI":["42460","14276","63050","5145","24082","24081","30751","63880","15740","52343"],"Reactome":["389585","29460"],"CASID":["64-18-6"],"HMDB":["HMDB00142"],"SEED":["cpd00047"],"CAS":["64-18-6"],"PUBCHEM ID":["3358"],"UPA":["UPC00058"],"BRENDA":["BG28488"],"map_info":{"x":397.42101960996047,"display_name":"FOR","y":484.62092175127543},"BioPath":["Formate"],"LIPIDMAPS":["LMFA01010040"],"KEGG":"C00058"}},{"name":"Formate","id":"for_e","compartment":"e","charge":-1,"formula":"CH1O2","notes":{"MetaCyc":"FORMATE","ChEBI":["42460","14276","63050","5145","24082","24081","30751","63880","15740","52343"],"Reactome":["389585","29460"],"CASID":["64-18-6"],"HMDB":["HMDB00142"],"SEED":["cpd00047"],"CAS":["64-18-6"],"PUBCHEM ID":["3358"],"UPA":["UPC00058"],"BRENDA":["BG28488"],"map_info":{"display_name":"FOR","hidden":true},"BioPath":["Formate"],"LIPIDMAPS":["LMFA01010040"],"KEGG":"C00058"}},{"name":"D-Fructose","id":"fru_e","compartment":"e","charge":0,"formula":"C6H12O6","notes":{"MetaCyc":"CPD-10723","ChEBI":["5172","10373","37721","37720","28757","48673","24104","49089","22766","42560","24110","28645"],"CAS":["57-48-7"],"CASID":["57-48-7"],"HMDB":["HMDB00660"],"SEED":["cpd00082"],"PUBCHEM ID":["3395"],"UPA":["UPC00095"],"BRENDA":["BG22357","BG22370"],"map_info":{"display_name":"FRU","hidden":true},"BioPath":["beta-D-Fructofuranose"],"KEGG":"C00095"}},{"name":"Fumarate","id":"fum_c","compartment":"c","charge":-2,"formula":"C4H2O4","notes":{"MetaCyc":"FUM","ChEBI":["42743","18012","5190","22958","24122","24124","22956","22957","37154","37155","42511","29806","36180","14284"],"Reactome":["29586","113588"],"CASID":["110-17-8"],"HMDB":["HMDB00134"],"SEED":["cpd00106"],"CAS":["110-17-8"],"PUBCHEM ID":["3422"],"UPA":["UPC00122"],"BRENDA":["BG19266"],"map_info":{"x":110.73854035372122,"display_name":"FUM","y":585.6323318434088},"BioPath":["Fumarate"],"KEGG":"C00122"}},{"name":"Fumarate","id":"fum_e","compartment":"e","charge":-2,"formula":"C4H2O4","notes":{"MetaCyc":"FUM","ChEBI":["42743","18012","5190","22958","24122","24124","22956","22957","37154","37155","42511","29806","36180","14284"],"Reactome":["29586","113588"],"CASID":["110-17-8"],"HMDB":["HMDB00134"],"SEED":["cpd00106"],"CAS":["110-17-8"],"PUBCHEM ID":["3422"],"UPA":["UPC00122"],"BRENDA":["BG19266"],"map_info":{"display_name":"FUM","hidden":true},"BioPath":["Fumarate"],"KEGG":"C00122"}},{"name":"Glyceraldehyde 3-phosphate","id":"g3p_c","compartment":"c","charge":-2,"formula":"C3H5O6P","notes":{"SEED":["cpd00102"],"MetaCyc":"GAP","PUBCHEM ID":["3930"],"ChEBI":["17138","14333","5446","58027"],"CAS":["142-10-9"],"UPA":["UPC00661","UPC00118"],"BRENDA":["BG17970"],"map_info":{"x":306.2673827992605,"display_name":"G3P","y":207.3921752993234},"CASID":["142-10-9"],"HMDB":["HMDB01112"],"KEGG":"C00118"}},{"name":"D-Glucose 6-phosphate","id":"g6p_c","compartment":"c","charge":-2,"formula":"C6H11O9P","notes":{"MetaCyc":"GLC-6-P","ChEBI":["10399","22797","41041","17719","4170","61548","58247","12375"],"Reactome":["1629756"],"HMDB":["HMDB03498","HMDB06793","HMDB01401","HMDB01549"],"SEED":["cpd00079"],"CAS":["56-73-5"],"PUBCHEM ID":["3392"],"UPA":["UPC00092"],"BRENDA":["BG22626","BG22646"],"map_info":{"x":112.52666232322949,"display_name":"G6P","y":60.75748557678827},"CASID":["56-73-5"],"KEGG":"C00092"}},{"name":"D-Glucose","id":"glc__D_e","compartment":"e","charge":0,"formula":"C6H12O6","notes":{"MetaCyc":"ALPHA-GLUCOSE","PUBCHEM ID":["3333"],"CAS":["50-99-7"],"CASID":["50-99-7"],"map_info":{"x":34.37107051776515,"display_name":"GLC","y":32.477984768907746},"KEGG":"C00031"}},{"name":"H2O","id":"h2o_c","compartment":"c","charge":0,"formula":"H2O","notes":{"MetaCyc":"WATER","ChEBI":["15377","13365","41979","16234","36385","42857","27313","44819","29373","10743","5594","29356","53442","29375","29374","13419","43228","44292","13352","41981","29412","42043","33811","33813","35511","5585","44641","44701"],"Reactome":["947593","189422","141343","113518","1605715","109276","113521","113519","2022884","351603","29356"],"CASID":["7732-18-5"],"HMDB":["HMDB01039","HMDB02111"],"SEED":["cpd15275","cpd00001"],"CAS":["7732-18-5"],"PUBCHEM ID":["3303"],"UPA":["UPC00001","UPC01328"],"BRENDA":["BG92137","BG89181","BG92081","BG92002"],"map_info":{"display_name":"H2O","hidden":true},"BioPath":["OH-","Water","Oxygen_atom"],"KEGG":"C00001"}},{"name":"H2O","id":"h2o_e","compartment":"e","charge":0,"formula":"H2O","notes":{"MetaCyc":"WATER","ChEBI":["15377","13365","41979","16234","36385","42857","27313","44819","29373","10743","5594","29356","53442","29375","29374","13419","43228","44292","13352","41981","29412","42043","33811","33813","35511","5585","44641","44701"],"Reactome":["947593","189422","141343","113518","1605715","109276","113521","113519","2022884","351603","29356"],"CASID":["7732-18-5"],"HMDB":["HMDB01039","HMDB02111"],"SEED":["cpd15275","cpd00001"],"CAS":["7732-18-5"],"PUBCHEM ID":["3303"],"UPA":["UPC00001","UPC01328"],"BRENDA":["BG92137","BG89181","BG92081","BG92002"],"map_info":{"display_name":"H2O","hidden":true},"BioPath":["OH-","Water","Oxygen_atom"],"KEGG":"C00001"}},{"name":"H+","id":"h_c","compartment":"c","charge":1,"formula":"H","notes":{"MetaCyc":"PROTON","ChEBI":["24636","15378","10744","13357","5584"],"Reactome":["194688","425978","193465","374900","74722","425999","428040","163953","372511","2000349","70106","1470067","113529","425969","428548","156540","1614597","351626","427899"],"CASID":["12408-02-5"],"SEED":["cpd00067"],"CAS":["12408-02-5"],"PUBCHEM ID":["3380"],"UPA":["UPC00080"],"BRENDA":["BG79440"],"map_info":{"display_name":"H","hidden":true},"BioPath":["Proton"],"KEGG":"C00080"}},{"name":"H+","id":"h_e","compartment":"e","charge":1,"formula":"H","notes":{"MetaCyc":"PROTON","ChEBI":["24636","15378","10744","13357","5584"],"Reactome":["194688","425978","193465","374900","74722","425999","428040","163953","372511","2000349","70106","1470067","113529","425969","428548","156540","1614597","351626","427899"],"CASID":["12408-02-5"],"SEED":["cpd00067"],"CAS":["12408-02-5"],"PUBCHEM ID":["3380"],"UPA":["UPC00080"],"BRENDA":["BG79440"],"map_info":{"display_name":"H","hidden":true},"BioPath":["Proton"],"KEGG":"C00080"}},{"name":"L-Malate","id":"mal__L_c","compartment":"c","charge":-2,"formula":"C4H4O5","notes":{"MetaCyc":"MAL","PUBCHEM ID":["3449"],"CAS":["97-67-6"],"CASID":["97-67-6"],"map_info":{"x":147.25266608917624,"display_name":"MAL","y":521.7750406278898},"KEGG":"C00149"}},{"name":"L-Malate","id":"mal__L_e","compartment":"e","charge":-2,"formula":"C4H4O5","notes":{"MetaCyc":"MAL","PUBCHEM ID":["3449"],"CAS":["97-67-6"],"CASID":["97-67-6"],"map_info":{"display_name":"MAL","hidden":true},"KEGG":"C00149"}},{"name":"Nicotinamide adenine dinucleotide","id":"nad_c","compartment":"c","charge":-1,"formula":"C21H26N7O14P2","notes":{"MetaCyc":"NAD","ChEBI":["21901","7422","44214","15846","13394","13393","44215","13389","57540","44281"],"Reactome":["192307","29360","427523","194653","113526"],"CASID":["53-84-9"],"HMDB":["HMDB00902"],"SEED":["cpd00003"],"CAS":["53-84-9"],"PUBCHEM ID":["3305"],"UPA":["UPC00003"],"BRENDA":["BG11259"],"map_info":{"display_name":"NAD","hidden":true},"BioPath":["NAD"],"KEGG":"C00003"}},{"name":"Nicotinamide adenine dinucleotide - reduced","id":"nadh_c","compartment":"c","charge":-2,"formula":"C21H27N7O14P2","notes":{"MetaCyc":"NADH","ChEBI":["13395","21902","16908","7423","44216","57945","13396"],"Reactome":["192305","73473","194697","29362"],"CASID":["58-68-4"],"HMDB":["HMDB01487"],"SEED":["cpd00004"],"CAS":["58-68-4"],"PUBCHEM ID":["3306"],"UPA":["UPC00004"],"BRENDA":["BG11384"],"map_info":{"color":"#b5cf6b","display_name":"NADH","hidden":true},"BioPath":["NADH"],"KEGG":"C00004"}},{"name":"Nicotinamide adenine dinucleotide phosphate","id":"nadp_c","compartment":"c","charge":-3,"formula":"C21H25N7O17P3","notes":{"MetaCyc":"NADP","ChEBI":["7424","13398","13397","13390","25524","25523","44405","44409","18009","58349","21903"],"Reactome":["29366","2000348","113563","113564","389556","428218","351628","194668","517495"],"CASID":["53-59-8"],"HMDB":["HMDB00217"],"SEED":["cpd00006"],"CAS":["53-59-8"],"PUBCHEM ID":["3308"],"UPA":["UPC00006"],"BRENDA":["BG48210"],"map_info":{"display_name":"NADP","hidden":true},"BioPath":["NADP"],"KEGG":"C00006"}},{"name":"Nicotinamide adenine dinucleotide phosphate - reduced","id":"nadph_c","compartment":"c","charge":-4,"formula":"C21H26N7O17P3","notes":{"MetaCyc":"NADPH","ChEBI":["13400","16474","7425","13399","13392","57783","21904","44286"],"Reactome":["2000347","29364","428206","113602","113600","113601","194725","517496","351627"],"CASID":["2646-71-1"],"HMDB":["HMDB00799","HMDB06341","HMDB00221"],"SEED":["cpd00005"],"CAS":["2646-71-1"],"PUBCHEM ID":["3307"],"UPA":["UPC00005"],"BRENDA":["BG48213"],"map_info":{"color":"#8ca252","display_name":"NADPH","hidden":true},"BioPath":["NADPH"],"KEGG":"C00005"}},{"name":"O2","id":"o2_c","compartment":"c","charge":0,"formula":"O2","notes":{"MetaCyc":"OXYGEN-MOLECULE","ChEBI":["44742","27140","15379","25366","26689","30491","13416","29793","23833","7860","10745"],"Reactome":["113534","29368","113535","1236709","113533","189461","113685","352327","351593"],"CASID":["7782-44-7"],"HMDB":["HMDB01377"],"SEED":["cpd00532"],"CAS":["7782-44-7"],"PUBCHEM ID":["3309"],"UPA":["UPC00007"],"BRENDA":["BG36249"],"map_info":{"display_name":"O2","hidden":true},"BioPath":["Oxygen"],"KEGG":"C00007"}},{"name":"O2","id":"o2_e","compartment":"e","charge":0,"formula":"O2","notes":{"MetaCyc":"OXYGEN-MOLECULE","ChEBI":["44742","27140","15379","25366","26689","30491","13416","29793","23833","7860","10745"],"Reactome":["113534","29368","113535","1236709","113533","189461","113685","352327","351593"],"CASID":["7782-44-7"],"HMDB":["HMDB01377"],"SEED":["cpd00532"],"CAS":["7782-44-7"],"PUBCHEM ID":["3309"],"UPA":["UPC00007"],"BRENDA":["BG36249"],"map_info":{"display_name":"O2","hidden":true},"BioPath":["Oxygen"],"KEGG":"C00007"}},{"name":"Oxaloacetate","id":"oaa_c","compartment":"c","charge":-2,"formula":"C4H2O5","notes":{"MetaCyc":"OXALACETIC_ACID","ChEBI":["23911","23910","12810","10547","16452","17479","30744","7812","19638","25734","25731","12820","1158","14703","28394","24958","24959"],"Reactome":["76213","113587"],"CASID":["328-42-7"],"HMDB":["HMDB00223"],"SEED":["cpd00032"],"CAS":["328-42-7"],"PUBCHEM ID":["3338"],"UPA":["UPC00036"],"BRENDA":["BG19269","BG19271"],"map_info":{"x":194.71811459453318,"display_name":"OAA","y":440.88467502945394},"BioPath":["Oxaloacetate"],"LIPIDMAPS":["LMFA01170061","LMFA01170120"],"KEGG":"C00036"}},{"name":"Phosphoenolpyruvate","id":"pep_c","compartment":"c","charge":-3,"formula":"C3H2O6P","notes":{"MetaCyc":"PHOSPHO-ENOL-PYRUVATE","ChEBI":["44897","44894","14812","8147","26055","26054","58702","18021"],"Reactome":["29492","372364"],"CASID":["138-08-9"],"HMDB":["HMDB00263"],"SEED":["cpd00061"],"CAS":["138-08-9"],"PUBCHEM ID":["3374"],"UPA":["UPC00074"],"BRENDA":["BG17779"],"map_info":{"x":251.87819507727542,"display_name":"PEP","y":338.4645607084292},"BioPath":["Phosphoenolpyruvate"],"KEGG":"PHOSPHO-ENOL-PYRUVATE"}},{"name":"Phosphate","id":"pi_c","compartment":"c","charge":-2,"formula":"HO4P","notes":{"MetaCyc":"Pi","ChEBI":["37583","7793","37585","34683","14791","34855","29137","29139","63036","26020","39739","32597","32596","43474","63051","43470","9679","35433","4496","45024","18367","26078","39745","24838"],"Reactome":["947590","109277","113548","2255331","29372","113550","113551"],"CASID":["14265-44-2"],"HMDB":["HMDB02142"],"SEED":["cpd09464","cpd09463","cpd00009"],"CAS":["14265-44-2"],"PUBCHEM ID":["3311"],"UPA":["UPC00009"],"BRENDA":["BG92038"],"map_info":{"display_name":"PI","hidden":true},"BioPath":["Phosphate","Phosphate_(protonated)"],"KEGG":"C00009"}},{"name":"Phosphate","id":"pi_e","compartment":"e","charge":-2,"formula":"HO4P","notes":{"MetaCyc":"Pi","ChEBI":["37583","7793","37585","34683","14791","34855","29137","29139","63036","26020","39739","32597","32596","43474","63051","43470","9679","35433","4496","45024","18367","26078","39745","24838"],"Reactome":["947590","109277","113548","2255331","29372","113550","113551"],"CASID":["14265-44-2"],"HMDB":["HMDB02142"],"SEED":["cpd09464","cpd09463","cpd00009"],"CAS":["14265-44-2"],"PUBCHEM ID":["3311"],"UPA":["UPC00009"],"BRENDA":["BG92038"],"map_info":{"display_name":"PI","hidden":true},"BioPath":["Phosphate","Phosphate_(protonated)"],"KEGG":"C00009"}},{"name":"Pyruvate","id":"pyr_c","compartment":"c","charge":-1,"formula":"C3H3O3","notes":{"MetaCyc":"PYRUVATE","ChEBI":["15361","14987","8685","32816","45253","26466","26462"],"Reactome":["113557","389680","29398"],"CASID":["127-17-3"],"HMDB":["HMDB00243"],"SEED":["cpd00020"],"CAS":["127-17-3"],"PUBCHEM ID":["3324"],"UPA":["UPC00022"],"BRENDA":["BG17694"],"map_info":{"x":312.26594527039765,"display_name":"PYR","y":436.20477823325166},"BioPath":["Pyruvate"],"LIPIDMAPS":["LMFA01060077"],"KEGG":"C00022"}},{"name":"Pyruvate","id":"pyr_e","compartment":"e","charge":-1,"formula":"C3H3O3","notes":{"MetaCyc":"PYRUVATE","ChEBI":["15361","14987","8685","32816","45253","26466","26462"],"Reactome":["113557","389680","29398"],"CASID":["127-17-3"],"HMDB":["HMDB00243"],"SEED":["cpd00020"],"CAS":["127-17-3"],"PUBCHEM ID":["3324"],"UPA":["UPC00022"],"BRENDA":["BG17694"],"map_info":{"display_name":"PYR","hidden":true},"BioPath":["Pyruvate"],"LIPIDMAPS":["LMFA01060077"],"KEGG":"C00022"}},{"name":"Ubiquinone-8","id":"q8_c","compartment":"c","charge":0,"formula":"C49H74O4","notes":{"SEED":["cpd15560"],"MetaCyc":"UBIQUINONE-8","PUBCHEM ID":["3689"],"ChEBI":["61683"],"CAS":["1339-63-5"],"BRENDA":["BG18990"],"map_info":{"color":"#b5cf6b","display_name":"Q8","hidden":true},"CASID":["1339-63-5"],"LIPIDMAPS":["LMPR02010005"],"KEGG":"C00399"}},{"name":"Ubiquinol-8","id":"q8h2_c","compartment":"c","charge":0,"formula":"C49H76O4","notes":{"SEED":["cpd15561"],"MetaCyc":"CPD-9956","PUBCHEM ID":["3680"],"ChEBI":["61682"],"BRENDA":["BG79801"],"map_info":{"color":"#b5cf6b","display_name":"Q8H2","hidden":true},"KEGG":"C00390"}},{"name":"Alpha-D-Ribose 5-phosphate","id":"r5p_c","compartment":"c","charge":-2,"formula":"C5H9O8P","notes":{"MetaCyc":"RIBOSE-5P","ChEBI":["12331","52742","10270","22413","18189"],"CAS":["4300-28-1"],"CASID":["4300-28-1"],"HMDB":["HMDB00618","HMDB01548","HMDB02033","HMDB02694"],"SEED":["cpd00101"],"PUBCHEM ID":["3417"],"UPA":["UPC00117"],"BRENDA":["BG81798","BG34575"],"map_info":{"x":252.27219055767722,"display_name":"R5P","y":84.61556835464663},"BioPath":["alpha-D-Ribose_5-phosphate"],"KEGG":"C00117"}},{"name":"D-Ribulose 5-phosphate","id":"ru5p__D_c","compartment":"c","charge":-2,"formula":"C5H9O8P","notes":{"MetaCyc":"RIBULOSE-5P","PUBCHEM ID":["3499"],"CAS":["4151-19-3"],"CASID":["4151-19-3"],"map_info":{"x":306.9904123614967,"display_name":"RU5P","y":53.89042223441865},"KEGG":"C00199"}},{"name":"Sedoheptulose 7-phosphate","id":"s7p_c","compartment":"c","charge":-2,"formula":"C7H13O10P","notes":{"SEED":["cpd00238"],"Reactome":["29882"],"MetaCyc":"D-SEDOHEPTULOSE-7-P","PUBCHEM ID":["3576"],"ChEBI":["26621","57483","9083","15721","4244","15074","15073"],"BioPath":["D-Sedoheptulose_7-phosphate"],"UPA":["UPC05382"],"CASID":["583-08-4"],"map_info":{"x":197.90319841866625,"display_name":"S7P","y":216.66892207293898},"BRENDA":["BG24563"],"KEGG":"C05382"}},{"name":"Succinate","id":"succ_c","compartment":"c","charge":-2,"formula":"C4H4O4","notes":{"MetaCyc":"SUC","ChEBI":["22941","22943","26807","26803","30031","9304","15125","45639","15741","30779"],"Reactome":["113536","433123","29434","389583","1650769","159939"],"CASID":["110-15-6"],"HMDB":["HMDB00254"],"SEED":["cpd00036"],"CAS":["110-15-6"],"PUBCHEM ID":["3344"],"UPA":["UPC00042"],"BRENDA":["BG19270"],"map_info":{"x":76.0034965285222,"display_name":"SUCC","y":646.9972070225022},"BioPath":["Succinate"],"LIPIDMAPS":["LMFA01170043"],"KEGG":"C00042"}},{"name":"Succinate","id":"succ_e","compartment":"e","charge":-2,"formula":"C4H4O4","notes":{"MetaCyc":"SUC","ChEBI":["22941","22943","26807","26803","30031","9304","15125","45639","15741","30779"],"Reactome":["113536","433123","29434","389583","1650769","159939"],"CASID":["110-15-6"],"HMDB":["HMDB00254"],"SEED":["cpd00036"],"CAS":["110-15-6"],"PUBCHEM ID":["3344"],"UPA":["UPC00042"],"BRENDA":["BG19270"],"map_info":{"display_name":"SUCC","hidden":true},"BioPath":["Succinate"],"LIPIDMAPS":["LMFA01170043"],"KEGG":"C00042"}},{"name":"D-Xylulose 5-phosphate","id":"xu5p__D_c","compartment":"c","charge":-2,"formula":"C5H9O8P","notes":{"MetaCyc":"XYLULOSE-5-PHOSPHATE","PUBCHEM ID":["3530"],"map_info":{"x":328.8045419120096,"display_name":"XU5P","y":149.42807376203066},"KEGG":"C00231"}},{"name":"H2","id":"h2_e","compartment":"e","charge":0,"formula":"H2","notes":{"map_info":{"display_name":"H2","hidden":true}}},{"name":"D-Glucose","id":"glc__D_c","compartment":"c","charge":0,"formula":"C6H12O6","notes":{"map_info":{"display_name":"GLC","hidden":true}}},{"name":"D-Xylose","id":"xyl__D_e","compartment":"e","charge":0,"formula":"C5H10O5","notes":{"map_info":{"display_name":"XYL","hidden":true}}},{"name":"D-Xylose","id":"xyl__D_c","compartment":"c","charge":0,"formula":"C5H10O5","notes":{"map_info":{"x":430.8162518021068,"display_name":"XYL","y":86.69573824181867}}},{"name":"D-Xylulose","id":"xylu__D_c","compartment":"c","charge":0,"formula":"C5H10O5","notes":{"map_info":{"x":385.69889867167296,"display_name":"XU","y":115.60941469730261}}},{"name":"D Arabinose C5H10O5","id":"arab__D_e","compartment":"e","charge":0,"formula":"C5H10O5","notes":{"map_info":{"display_name":"ARAB","hidden":true}}},{"name":"D Arabinose C5H10O5","id":"arab__D_c","compartment":"c","charge":0,"formula":"C5H10O5","notes":{"map_info":{"x":431.41646996280593,"display_name":"ARAB","y":-23.905634013546177,"hidden":true}}},{"name":"D-Ribulose","id":"rbl__D_c","compartment":"c","charge":0,"formula":"C5H10O5","notes":{"map_info":{"x":387.07235689544444,"display_name":"RIB","y":-1.7130130677534225,"hidden":true}}},{"name":"D-Galactose","id":"gal_e","compartment":"e","charge":0,"formula":"C6H12O6","notes":{"map_info":{"display_name":"GAL","hidden":true}}},{"name":"D-Galactose","id":"gal_c","compartment":"c","charge":0,"formula":"C6H12O6","notes":{"map_info":{"x":5.135350485571223,"display_name":"GAL","y":79.88406774077112,"hidden":true}}},{"name":"Alpha-D-Galactose 1-phosphate","id":"gal1p_c","compartment":"c","charge":-2,"formula":"C6H11O9P","notes":{"map_info":{"x":10.916224067944043,"display_name":"GAL1P","y":41.453644652449725,"hidden":true}}},{"name":"UDPglucose","id":"udpg_c","compartment":"c","charge":-2,"formula":"C15H22N2O17P2","notes":{"map_info":{"display_name":"UDP_GLUCOSE","hidden":true}}},{"name":"UDPgalactose","id":"udpgal_c","compartment":"c","charge":-2,"formula":"C15H22N2O17P2","notes":{"map_info":{"display_name":"UDP_GALACTOSE","hidden":true}}},{"name":"D-Glucose 1-phosphate","id":"g1p_c","compartment":"c","charge":-2,"formula":"C6H11O9P","notes":{"map_info":{"x":44.48121996313575,"display_name":"G1P","y":11.753846178531717,"hidden":true}}},{"name":"","id":"biomass","compartment":"e","formula":"C24.967H49.934O12.4835","notes":{"map_info":{"display_name":"BIOMA","hidden":true}}},{"name":"atp maintenance","id":"atpm","compartment":"","formula":"","notes":{"map_info":{"display_name":"AT","hidden":true}}},{"name":"D-Lactate","id":"lac__D_c","compartment":"c","charge":-1,"formula":"C3H5O3","notes":{"MetaCyc":"D-LACTATE","PUBCHEM ID":["3555"],"CAS":["10326-41-7"],"CASID":["10326-41-7"],"map_info":{"x":424.23354197668004,"display_name":"LAC","y":381.0789779306125},"KEGG":"C00256"}},{"name":"D-Lactate","id":"lac__D_e","compartment":"e","charge":-1,"formula":"C3H5O3","notes":{"MetaCyc":"D-LACTATE","PUBCHEM ID":["3555"],"CAS":["10326-41-7"],"CASID":["10326-41-7"],"map_info":{"display_name":"LAC","hidden":true},"KEGG":"C00256"}}],"genes":[{"name":"Asuc_0591","id":"Asuc_0591","notes":{"map_info":{}}},{"name":"Asuc_1661","id":"Asuc_1661","notes":{"map_info":{}}},{"name":"Asuc_0185","id":"Asuc_0185","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_1819","notes":{"map_info":{}}},{"name":"Asuc_0403","id":"Asuc_0403","notes":{"map_info":{}}},{"name":"Asuc_0326","id":"Asuc_0326","notes":{"map_info":{}}},{"name":"Asuc_0328","id":"Asuc_0328","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_2051","notes":{"map_info":{}}},{"name":"Asuc_0536","id":"Asuc_0536","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0394","notes":{"map_info":{}}},{"name":"Asuc_1073","id":"Asuc_1073","notes":{"map_info":{}}},{"name":"Asuc_1813","id":"Asuc_1813","notes":{"map_info":{}}},{"name":"Asuc_1814","id":"Asuc_1814","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0956","notes":{"map_info":{}}},{"name":"Asuc_0227","id":"Asuc_0227","notes":{"map_info":{}}},{"name":"Asuc_1027","id":"Asuc_1027","notes":{"map_info":{}}},{"name":"Asuc_0232","id":"Asuc_0232","notes":{"map_info":{}}},{"name":"Asuc_1612","id":"Asuc_1612","notes":{"map_info":{}}},{"name":"Asuc_0669","id":"Asuc_0669","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_1021","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_1022","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0942","notes":{"map_info":{}}},{"name":"Asuc_0944","id":"Asuc_0944","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0943","notes":{"map_info":{}}},{"name":"Asuc_0687","id":"Asuc_0687","notes":{"map_info":{}}},{"name":"Asuc_0207","id":"Asuc_0207","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_1425","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0535","notes":{"map_info":{}}},{"name":"Asuc_0228","id":"Asuc_0228","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0572","notes":{"map_info":{}}},{"name":"Asuc_1383","id":"Asuc_1383","notes":{"map_info":{}}},{"name":"Asuc_0221","id":"Asuc_0221","notes":{"map_info":{}}},{"name":"Asuc_1662","id":"Asuc_1662","notes":{"map_info":{}}},{"name":"Asuc_1171","id":"Asuc_1171","notes":{"map_info":{}}},{"name":"Asuc_0218","id":"Asuc_0218","notes":{"map_info":{}}},{"name":"Asuc_1580","id":"Asuc_1580","notes":{"map_info":{}}},{"name":"Asuc_1597","id":"Asuc_1597","notes":{"map_info":{}}},{"name":"Asuc_1870","id":"Asuc_1870","notes":{"map_info":{}}},{"name":"Asuc_0582","id":"Asuc_0582","notes":{"map_info":{}}},{"name":"Asuc_0170","id":"Asuc_0170","notes":{"map_info":{}}},{"name":"Asuc_0171","id":"Asuc_0171","notes":{"map_info":{}}},{"name":"Asuc_0265","id":"Asuc_0265","notes":{"map_info":{}}},{"name":"fabG","id":"Asuc_0677","notes":{"map_info":{}}},{"name":"Asuc_1575","id":"Asuc_1575","notes":{"map_info":{}}},{"name":"Asuc_1601","id":"Asuc_1601","notes":{"map_info":{}}},{"name":"Asuc_0301","id":"Asuc_0301","notes":{"map_info":{}}},{"name":"Asuc_0302","id":"Asuc_0302","notes":{"map_info":{}}},{"name":"Asuc_0303","id":"Asuc_0303","notes":{"map_info":{}}},{"name":"Asuc_1264","id":"Asuc_1264","notes":{"map_info":{}}},{"name":"Asuc_1265","id":"Asuc_1265","notes":{"map_info":{}}},{"name":"Asuc_1704","id":"Asuc_1704","notes":{"map_info":{}}},{"name":"ldhA","id":"b1380","notes":{"map_info":{}}},{"name":"dld","id":"b2133","notes":{"map_info":{}}},{"name":"lldP","id":"b3603","notes":{"map_info":{}}},{"name":"glcA","id":"b2975","notes":{"map_info":{}}},{"name":"b1300","id":"b1300"}],"id":"asuc_v1","name":"A. Succinogenes CCM Model","compartments":{},"notes":{"map_info":{}},"version":1}


--------------------------------------------------------------------------------
/d3flux/examples/asuc/full-map-render.svg:
--------------------------------------------------------------------------------
1 | <?xml version="1.0" standalone="no"?><!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN" "http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd"><svg viewBox="0 0 520 660" style="display:block;margin:auto;width:100%" version="1.1" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink"><defs xmlns="http://www.w3.org/1999/xhtml"><style type="text/css"></style></defs><style>.node.rxn{fill:#ffa319}.node.rxn.hidden{fill:none;stroke:none;stroke-width:0}.link{fill:none;stroke-linecap:round}text.nodelabel{font-size:14pt;fill:#555;font-family:Arial}text.nodelabel.cofactor{font-size:11.200000000000001pt;fill:#789}text.nodelabel.rxn{fill:#a9a9a9;font-size:11.200000000000001pt;font-style:italic}marker.inactive,.node.inactive,text.inactive{fill-opacity:1.0}.link.inactive{stroke-opacity:1.0}text#succ_c{font-weight:900}text#ac_c{font-weight:900}text#etoh_c{font-weight:900}text#for_c{font-weight:900}text#co2_c{font-weight:900}text#lac__D_c{font-weight:900}text.cofactor{fill:#789}</style><defs><marker id="d3flux001ACALD" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ACALDt" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ACKr" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ACt2r" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ALCD2x" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ATPM" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.478517111418203pt" markerHeight="8.478517111418203pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ATPS4r" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.293256764464545pt" markerHeight="8.293256764464545pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001CO2t" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.041658445932587pt" markerHeight="7.041658445932587pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001CYTBD" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ENO" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="11.816464521628898pt" markerHeight="11.816464521628898pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ETOHt2r" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_ac_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_acald_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_co2_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.041658445932587pt" markerHeight="7.041658445932587pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_etoh_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.333333333333334pt" markerHeight="7.333333333333334pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#d62728"/></marker><marker id="d3flux001EX_for_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.744192116880876pt" markerHeight="8.744192116880876pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_fru_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_fum_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.333333333333334pt" markerHeight="7.333333333333334pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#d62728"/></marker><marker id="d3flux001EX_glc_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.52717760484369pt" markerHeight="6.52717760484369pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_h_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="19.178053245443927pt" markerHeight="19.178053245443927pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_h2o_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.232695435883924pt" markerHeight="6.232695435883924pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_mal__L_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_o2_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_pi_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_pyr_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_succ_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FBA" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.513854106881722pt" markerHeight="8.513854106881722pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FBP" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FORt2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FORti" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.744192116880876pt" markerHeight="8.744192116880876pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FRD7" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FRUpts2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FUM" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#6f3589"/></marker><marker id="d3flux001FUMt2_2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GAPD" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="12pt" markerHeight="12pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GLCpts" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.52717760484369pt" markerHeight="6.52717760484369pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GND" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001H2Ot" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.232695435883924pt" markerHeight="6.232695435883924pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001MALt2_2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001MDH" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.975784906571397pt" markerHeight="9.975784906571397pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#6f3589"/></marker><marker id="d3flux001ME2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.53393724056515pt" markerHeight="7.53393724056515pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001NADH16" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001NADTRHD" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001O2t" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PDH" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PFK" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.513854106881722pt" markerHeight="8.513854106881722pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PFL" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.744192116880876pt" markerHeight="8.744192116880876pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PGI" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.50202735546797pt" markerHeight="6.50202735546797pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PGK" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="12pt" markerHeight="12pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PGM" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="11.816464521628898pt" markerHeight="11.816464521628898pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PIt2r" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PPCK" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="10.194984665398698pt" markerHeight="10.194984665398698pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#6f3589"/></marker><marker id="d3flux001PTAr" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PYK" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.030616912601461pt" markerHeight="7.030616912601461pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001PYRt2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001RPE" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.142540571888679pt" markerHeight="7.142540571888679pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001RPI" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.142540571888679pt" markerHeight="7.142540571888679pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001SUCCt2_2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001SUCCt3" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001TALA" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.032407016451689pt" markerHeight="7.032407016451689pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001THD2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001TKT1" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.032407016451689pt" markerHeight="7.032407016451689pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001TKT2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.988118040721766pt" markerHeight="6.988118040721766pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001TPI" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.513854106881722pt" markerHeight="8.513854106881722pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001OAADC" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001FDH" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001H2RED" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_h2_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GLCabc" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GLK" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_xyl_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001XYLT" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001XYLI" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001XYLK" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_arab_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ARABT" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001AKI" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001arab_ptrans" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_galac_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GALACT" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GALACP" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001GALUTRANS" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001UDP_RECYC" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001G1PPI" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_biomass" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.1177424788772665pt" markerHeight="6.1177424788772665pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001biomass" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.1177424788772665pt" markerHeight="6.1177424788772665pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_atpm" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.478517111418203pt" markerHeight="8.478517111418203pt" orient="auto" class="endmarker"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001LDH_D" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001D_LACt2" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001EX_lac__D_e" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001G6PDH2r" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker><marker id="d3flux001ALDD2x" viewBox="0 0 10 10" refX="1" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="endmarker inactive"><path d="M 0 0 L 10 5 L 0 10 z" fill="#bbb"/></marker></defs><defs><marker id="d3flux001ACALD_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ACALDt_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ACKr_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ACt2r_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ALCD2x_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ATPM_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.478517111418203pt" markerHeight="8.478517111418203pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ATPS4r_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.293256764464545pt" markerHeight="8.293256764464545pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001CO2t_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.041658445932587pt" markerHeight="7.041658445932587pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001CYTBD_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ENO_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="11.816464521628898pt" markerHeight="11.816464521628898pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ETOHt2r_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_ac_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_acald_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_co2_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.041658445932587pt" markerHeight="7.041658445932587pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_etoh_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.333333333333334pt" markerHeight="7.333333333333334pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#d62728"/></marker><marker id="d3flux001EX_for_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.744192116880876pt" markerHeight="8.744192116880876pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_fru_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_fum_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.333333333333334pt" markerHeight="7.333333333333334pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#d62728"/></marker><marker id="d3flux001EX_glc_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.52717760484369pt" markerHeight="6.52717760484369pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_h_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="19.178053245443927pt" markerHeight="19.178053245443927pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_h2o_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.232695435883924pt" markerHeight="6.232695435883924pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_mal__L_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_o2_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_pi_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_pyr_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_succ_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FBA_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.513854106881722pt" markerHeight="8.513854106881722pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FBP_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FORt2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FORti_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.744192116880876pt" markerHeight="8.744192116880876pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FRD7_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FRUpts2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FUM_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#6f3589"/></marker><marker id="d3flux001FUMt2_2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GAPD_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="12pt" markerHeight="12pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GLCpts_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.52717760484369pt" markerHeight="6.52717760484369pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GND_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001H2Ot_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.232695435883924pt" markerHeight="6.232695435883924pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001MALt2_2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001MDH_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.975784906571397pt" markerHeight="9.975784906571397pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#6f3589"/></marker><marker id="d3flux001ME2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.53393724056515pt" markerHeight="7.53393724056515pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001NADH16_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001NADTRHD_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001O2t_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PDH_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PFK_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.513854106881722pt" markerHeight="8.513854106881722pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PFL_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.744192116880876pt" markerHeight="8.744192116880876pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PGI_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.50202735546797pt" markerHeight="6.50202735546797pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PGK_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="12pt" markerHeight="12pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PGM_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="11.816464521628898pt" markerHeight="11.816464521628898pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PIt2r_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PPCK_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="10.194984665398698pt" markerHeight="10.194984665398698pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#6f3589"/></marker><marker id="d3flux001PTAr_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.28439648463539pt" markerHeight="8.28439648463539pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PYK_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.030616912601461pt" markerHeight="7.030616912601461pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001PYRt2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001RPE_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.142540571888679pt" markerHeight="7.142540571888679pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001RPI_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.142540571888679pt" markerHeight="7.142540571888679pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001SUCCt2_2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001SUCCt3_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.441847666006247pt" markerHeight="8.441847666006247pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001TALA_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.032407016451689pt" markerHeight="7.032407016451689pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001THD2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001TKT1_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="7.032407016451689pt" markerHeight="7.032407016451689pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001TKT2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.988118040721766pt" markerHeight="6.988118040721766pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001TPI_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.513854106881722pt" markerHeight="8.513854106881722pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001OAADC_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001FDH_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001H2RED_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_h2_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GLCabc_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GLK_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_xyl_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001XYLT_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001XYLI_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001XYLK_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="9.163065629062132pt" markerHeight="9.163065629062132pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_arab_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ARABT_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001AKI_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001arab_ptrans_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_galac_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GALACT_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GALACP_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001GALUTRANS_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001UDP_RECYC_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001G1PPI_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_biomass_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.1177424788772665pt" markerHeight="6.1177424788772665pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001biomass_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6.1177424788772665pt" markerHeight="6.1177424788772665pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_atpm_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="8.478517111418203pt" markerHeight="8.478517111418203pt" orient="auto" class="startmarker"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001LDH_D_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001D_LACt2_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001EX_lac__D_e_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001G6PDH2r_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker><marker id="d3flux001ALDD2x_rev" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="6pt" markerHeight="6pt" orient="auto" class="startmarker inactive"><path d="M 10,10 0,5 10,0 Z" fill="#bbb"/></marker></defs><g><path class="link d3flux001ACALD inactive" marker-end="url(#d3flux001ACALD)" marker-start="url(#d3flux001ACALD_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M388.7638017911524,570.9862826048455 Q385.992928386878,566.3962074030961 382.64525895293133,560.8483113179269 Q376.02174923460046,549.8715573816561 365.0896591742335,531.7402124222726"/><path class="link d3flux001ACALD inactive" marker-end="url(#d3flux001ACALD)" marker-start="url(#d3flux001ACALD_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M388.7638017911524,570.9862826048455 Q385.992928386878,566.3962074030961 382.64525895293133,560.8483113179269 Q377.3811592975475,552.1244278980475 381.97392436702984,544.9786747856924"/><path class="link d3flux001ACKr" marker-end="url(#d3flux001ACKr)" stroke-width="3.2132973634765425" stroke="#bbb" d="M313.97714832903733,591.7328985020652 Q308.9909759118839,600.4083072910248 303.0931379450599,610.9159748329513 Q297.6294356553518,620.650180406461 291.2563903736615,632.2416085520293"/><path class="link d3flux001ACKr" marker-end="url(#d3flux001ACKr)" stroke-width="3.2132973634765425" stroke="#bbb" d="M313.97714832903733,591.7328985020652 Q308.9909759118839,600.4083072910248 303.0931379450599,610.9159748329513 Q297.2054104220763,621.4056294719846 283.7417840596588,618.3012566165746"/><path class="link d3flux001ALCD2x inactive" marker-end="url(#d3flux001ALCD2x)" marker-start="url(#d3flux001ALCD2x_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M421.6030853067158,629.3311625221686 Q420.395161614121,627.0653470416186 419.00015582585576,624.4703227914397 Q413.56738948880866,614.3641565598828 403.84130265749036,596.9172653401665"/><path class="link d3flux001ALCD2x inactive" marker-end="url(#d3flux001ALCD2x)" marker-start="url(#d3flux001ALCD2x_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M421.6030853067158,629.3311625221686 Q420.395161614121,627.0653470416186 419.00015582585576,624.4703227914397 Q414.7188587592872,616.5061481597479 420.25063757198177,610.4208463932947"/><path class="link d3flux001ENO" marker-end="url(#d3flux001ENO)" stroke-width="5.8623483912216745" stroke="#bbb" d="M311.8781284962507,362.3839558006061 Q302.66600096068004,362.0887130192489 291.7908162239458,359.025665205511 Q282.419301621906,356.3861332795632 272.36463501133863,351.19073100863494"/><path class="link d3flux001FBA" marker-end="url(#d3flux001FBA)" stroke-width="3.3853905801612916" stroke="#bbb" d="M190.39988407118037,243.62929144543003 Q202.41351249697192,245.6112604583718 224.1583165935302,244.87862920130573 Q248.15455148622644,244.07014218729438 270.8092047664726,252.08456596290168"/><path class="link d3flux001FBA" marker-end="url(#d3flux001FBA)" stroke-width="3.3853905801612916" stroke="#bbb" d="M190.39988407118037,243.62929144543003 Q202.41351249697192,245.6112604583718 224.1583165935302,244.87862920130573 Q251.26130299500068,243.96546875573995 288.630316314001,219.71206995498966"/><path class="link d3flux001FBP inactive" marker-end="url(#d3flux001FBP)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M173.20726089924224,233.18489491744285 Q158.34372419160792,217.93810853587382 142.3640880339957,205.18000736770938 Q129.1566186381602,194.63519714390242 115.34733070579955,185.81118449262476"/><path class="link d3flux001FRD7" marker-end="url(#d3flux001FRD7)" stroke-width="3.331385749504684" stroke="#bbb" d="M105.27168139153962,594.4628552944278 Q97.6680928001622,606.8781205496518 91.85808723484153,617.1681673337579 Q88.28319382647845,623.4996277784464 84.66212029580595,630.2787059351289"/><path class="link d3flux001FRD7" marker-end="url(#d3flux001FRD7)" stroke-width="3.331385749504684" stroke="#bbb" d="M108.93648087910452,606.8824395501439 Q97.4200349632286,607.3174534760171 91.85808723484153,617.1681673337579 Q86.70908583862303,626.2875157858091 99.9866278692497,626.5271203126688"/><path class="link d3flux001FUM" marker-end="url(#d3flux001FUM)" stroke-width="3.331385749504684" stroke="#6f3589" d="M141.22183175905553,531.2794606835819 Q134.96553874450052,541.3416786640263 128.7879223563044,552.1226480673281 Q124.08873261263582,560.3235167621863 119.45366479776294,568.9432141292593"/><path class="link d3flux001GAPD" marker-end="url(#d3flux001GAPD)" stroke-width="6" stroke="#bbb" d="M319.19118340306784,205.98669390384762 Q335.0516432096182,205.43557781569876 347.3582370890107,211.28467493652442 Q353.2469261920463,214.08346027189486 358.12458070109625,218.04407887740908"/><path class="link d3flux001GAPD" marker-end="url(#d3flux001GAPD)" stroke-width="6" stroke="#bbb" d="M319.19118340306784,205.98669390384762 Q335.0516432096182,205.43557781569876 347.3582370890107,211.28467493652442 Q354.59707879841244,214.72516290708097 361.5631710789498,212.6480020344719"/><path class="link d3flux001GLCpts" marker-end="url(#d3flux001GLCpts)" stroke-width="1.8953832036327665" stroke="#bbb" d="M43.084384515087876,35.72651683784043 Q58.98843208346994,41.635873017874076 74.07382680101327,47.09257932828508 Q85.82079852368514,51.34170743712929 97.5957670389407,55.50941150014289"/><path class="link d3flux001GLCpts" marker-end="url(#d3flux001GLCpts)" stroke-width="1.8953832036327665" stroke="#bbb" d="M38.81781408814135,54.55190801593295 Q57.93638089435607,41.25532385293662 74.07382680101327,47.09257932828508 Q89.19422006288946,52.56194535236563 70.5072115978601,69.09859124956024"/><path class="link d3flux001GND inactive" marker-end="url(#d3flux001GND)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M207.17771253612293,8.710539807882096 Q240.97719750150665,8.597620360518784 264.4839278394269,19.07008358081694 Q283.5272145944592,27.554041888449106 297.10536723548324,41.7595238573098"/><path class="link d3flux001GND inactive" marker-end="url(#d3flux001GND)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M207.17771253612293,8.710539807882096 Q240.97719750150665,8.597620360518784 264.4839278394269,19.07008358081694 Q284.44320694181374,27.962124851491836 306.6778793660854,29.975396805269312"/><path class="link d3flux001GND inactive" marker-end="url(#d3flux001GND)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M207.17771253612293,8.710539807882096 Q240.97719750150665,8.597620360518784 264.4839278394269,19.07008358081694 Q284.0450604708109,27.784746959546425 303.1258735261623,21.679459554579722"/><path class="link d3flux001MDH" marker-end="url(#d3flux001MDH)" stroke-width="4.481838679928547" stroke="#6f3589" d="M188.6726906729959,450.5269703653088 Q178.7623387625212,466.4817590395476 168.8757596691594,483.36967508245345 Q162.69990641377842,493.919056247088 157.48169057201608,503.1694028204378"/><path class="link d3flux001MDH" marker-end="url(#d3flux001MDH)" stroke-width="4.481838679928547" stroke="#6f3589" d="M147.03013576131758,439.1544703424006 Q180.31227969490374,463.8342029849853 168.8757596691594,483.36967508245345 Q162.69990641377842,493.919056247088 157.48169057201608,503.1694028204378"/><path class="link d3flux001ME2" marker-end="url(#d3flux001ME2)" stroke-width="2.6504529304238624" stroke="#bbb" d="M157.22159428196537,516.5476671000631 Q180.5414172036637,504.33178585095965 205.61003807650025,491.3126487628525 Q232.71880441036024,477.23398256975486 296.0116032713167,444.5873472680868"/><path class="link d3flux001ME2" marker-end="url(#d3flux001ME2)" stroke-width="2.6504529304238624" stroke="#bbb" d="M157.22159428196537,516.5476671000631 Q180.5414172036637,504.33178585095965 205.61003807650025,491.3126487628525 Q231.39323874651848,477.9224018164452 222.4309817396629,519.2558510347279"/><path class="link d3flux001ME2" marker-end="url(#d3flux001ME2)" stroke-width="2.6504529304238624" stroke="#bbb" d="M157.22159428196537,516.5476671000631 Q180.5414172036637,504.33178585095965 205.61003807650025,491.3126487628525 Q229.20967746900615,479.05641248884797 234.4480925178959,503.4943072909368"/><path class="link d3flux001PDH inactive" marker-end="url(#d3flux001PDH)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M310.7513257902096,446.85220256066464 Q311.9117456325507,454.31083990198863 316.9307329456555,466.0116167359042 Q324.82273996537197,484.41027111550136 344.8682820415492,505.8174884362495"/><path class="link d3flux001PDH inactive" marker-end="url(#d3flux001PDH)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M310.7513257902096,446.85220256066464 Q311.9117456325507,454.31083990198863 316.9307329456555,466.0116167359042 Q324.94885837342383,484.7042912544667 309.79463416841463,508.1925130323579"/><path class="link d3flux001PDH inactive" marker-end="url(#d3flux001PDH)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M310.7513257902096,446.85220256066464 Q311.9117456325507,454.31083990198863 316.9307329456555,466.0116167359042 Q325.2383367683771,485.3791529120653 294.6567060127396,497.66706430008134"/><path class="link d3flux001PFK" marker-end="url(#d3flux001PFK)" stroke-width="3.3853905801612916" stroke="#bbb" d="M106.50903551325138,186.36395633960723 Q117.51635158111112,203.6095143588546 133.80538618985943,216.73428030936736 Q146.99630666672448,227.3627643226372 162.57689521257623,234.28266797007643"/><path class="link d3flux001PFK" marker-end="url(#d3flux001PFK)" stroke-width="3.3853905801612916" stroke="#bbb" d="M89.33121360356256,214.2011703220187 Q116.32415367197724,202.648909946137 133.80538618985943,216.73428030936736 Q146.99630666672448,227.3627643226372 162.57689521257623,234.28266797007643"/><path class="link d3flux001PFL" marker-end="url(#d3flux001PFL)" stroke-width="3.558144087660658" stroke="#bbb" d="M320.4248045269811,443.211541580834 Q332.38594605826876,453.8371303209406 345.3829389128512,467.39393224318394 Q357.2149405201559,479.73556418286296 358.1470553078417,498.3258648518185"/><path class="link d3flux001PFL" marker-end="url(#d3flux001PFL)" stroke-width="3.558144087660658" stroke="#bbb" d="M320.4248045269811,443.211541580834 Q332.38594605826876,453.8371303209406 345.3829389128512,467.39393224318394 Q357.6078602854232,480.14540786660285 378.1527321543291,483.48790142178336"/><path class="link d3flux001PGI" marker-end="url(#d3flux001PGI)" stroke-width="1.8765205166009773" stroke="#bbb" d="M107.51087677416074,68.58798343737456 Q94.618713394037,90.49064457016918 91.98307808744356,115.95617458755262 Q89.67213602775604,138.2845157818694 95.90283516379404,161.28449657834528"/><path class="link d3flux001PGK" marker-end="url(#d3flux001PGK)" stroke-width="6" stroke="#bbb" d="M383.14664618698293,244.55615880377323 Q387.21181294632765,249.79724639190266 389.9618138227907,258.5231106462878 Q393.253473789026,268.9676811490817 391.658940714232,283.9164708072268"/><path class="link d3flux001PGK" marker-end="url(#d3flux001PGK)" stroke-width="6" stroke="#bbb" d="M383.14664618698293,244.55615880377323 Q387.21181294632765,249.79724639190266 389.9618138227907,258.5231106462878 Q392.21624061757217,265.6764982510267 397.48073080396745,270.37783523906074"/><path class="link d3flux001PGM" marker-end="url(#d3flux001PGM)" stroke-width="5.8623483912216745" stroke="#bbb" d="M383.398647340093,319.7615651391294 Q378.4978278052746,331.45715218722063 367.8069554754235,341.2765723756918 Q359.2228040497993,349.1609981932472 347.2154274171157,354.3916240203419"/><path class="link d3flux001PPCK" marker-end="url(#d3flux001PPCK)" stroke-width="4.646238499049024" stroke="#6f3589" d="M245.59174968756338,349.03782647562724 Q235.44217754614147,366.25309455106833 225.14157388231007,384.6537560731797 Q215.80800385216503,401.326940337192 204.83560269791047,421.82823550924144"/><path class="link d3flux001PPCK" marker-end="url(#d3flux001PPCK)" stroke-width="4.646238499049024" stroke="#6f3589" d="M205.65256808542026,347.6503176670566 Q236.8754566365748,363.6927316567665 225.14157388231007,384.6537560731797 Q215.13556044936547,402.52817124088534 191.24236913554955,391.3760819595208"/><path class="link d3flux001PTAr" marker-end="url(#d3flux001PTAr)" stroke-width="3.2132973634765425" stroke="#bbb" d="M351.4231705314621,526.7945360225145 Q344.42394769941365,539.3597126453092 337.56678237297814,551.3180861798992 Q333.04533818663003,559.2031401230652 328.58985050290715,566.826029088503"/><path class="link d3flux001PYK" marker-end="url(#d3flux001PYK)" stroke-width="2.2729626844510955" stroke="#bbb" d="M258.9963322500061,348.4967821878438 Q266.671932055031,359.6382429487 275.7553622814589,374.0973638547674 Q286.5548821856441,391.28817835211214 303.45926948763463,420.75301809116746"/><path class="link d3flux001PYK" marker-end="url(#d3flux001PYK)" stroke-width="2.2729626844510955" stroke="#bbb" d="M258.9963322500061,348.4967821878438 Q266.671932055031,359.6382429487 275.7553622814589,374.0973638547674 Q283.720424502638,386.77625220526113 294.5583757655238,388.69052715922896"/><path class="link d3flux001RPE" marker-end="url(#d3flux001RPE)" stroke-width="2.356905428916509" stroke="#bbb" d="M329.5560602225328,138.65916760473712 Q330.4332208791728,116.79834732582918 325.8088418501407,97.32403922907261 Q322.1314043119496,81.83751635201044 315.45767785820385,68.3901299472344"/><path class="link d3flux001RPI" marker-end="url(#d3flux001RPI)" stroke-width="2.356905428916509" stroke="#bbb" d="M298.69107952148835,58.81108656421506 Q292.03852938994845,62.695662551143656 283.881107839456,67.29564196697308 Q276.14649268797075,71.65720036701023 267.04237503149335,76.62947078488496"/><path class="link d3flux001TALA" marker-end="url(#d3flux001TALA)" stroke-width="2.2743052623387667" stroke="#bbb" d="M293.354797691373,205.88713515648874 Q212.0104342784367,195.45911222533627 180.55593569906966,166.4198058730998 Q150.40603251693832,138.5849232795334 171.70774233440216,78.31471588968088"/><path class="link d3flux001TALA" marker-end="url(#d3flux001TALA)" stroke-width="2.2743052623387667" stroke="#bbb" d="M202.58791602128747,208.305723804162 Q207.44419303490736,191.24348379894496 180.55593569906966,166.4198058730998 Q151.7944011883713,139.86668789192612 114.74685659500915,166.24837907502047"/><path class="link d3flux001TKT1" marker-end="url(#d3flux001TKT1)" stroke-width="2.2743052623387667" stroke="#bbb" d="M258.51625562932674,91.97107747480804 Q285.864976658395,126.39521140936787 274.51468969512905,156.8092631665833 Q264.95083969815926,182.4364063170139 288.3809747552432,198.3714359640066"/><path class="link d3flux001TKT1" marker-end="url(#d3flux001TKT1)" stroke-width="2.2743052623387667" stroke="#bbb" d="M319.41964744488547,144.09348142178854 Q285.5981325750084,127.11024264950254 274.51468969512905,156.8092631665833 Q263.52971651482574,186.24442581389252 213.1221763926516,209.99425660655967"/><path class="link d3flux001TKT2" marker-end="url(#d3flux001TKT2)" stroke-width="2.2410885305413233" stroke="#bbb" d="M186.82723932524158,66.0462700931102 Q249.2665513692328,89.91310506216907 231.48068334636415,136.77351849450065 Q214.00045734228453,182.82865712414446 118.64490478653275,178.49910565861202"/><path class="link d3flux001TKT2" marker-end="url(#d3flux001TKT2)" stroke-width="2.2410885305413233" stroke="#bbb" d="M320.28352109055413,142.80038006392067 Q249.44183183526258,89.4512937469043 231.48068334636415,136.77351849450065 Q214.56691640734599,181.33620784097528 286.88958173561184,202.4905746681531"/><path class="link d3flux001TPI" marker-end="url(#d3flux001TPI)" stroke-width="3.3853905801612916" stroke="#bbb" d="M292.39380034600873,250.09116371981014 Q294.74391178999304,244.3420769308051 297.1596302668127,237.50395472210562 Q298.74286861567845,233.02231606307748 300.3133038992554,228.06570579086446"/><path class="link d3flux001OAADC inactive" marker-end="url(#d3flux001OAADC)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M206.08147889939627,440.2562154764874 Q228.97352188351218,439.02120372402834 248.3832451334038,438.2336301142614 Q267.2065238844781,437.469852217855 295.5176147073548,436.66358687050234"/><path class="link d3flux001OAADC inactive" marker-end="url(#d3flux001OAADC)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M206.08147889939627,440.2562154764874 Q228.97352188351218,439.02120372402834 248.3832451334038,438.2336301142614 Q265.51901810429445,437.5383248592055 260.71837811449734,424.2776258058108"/><path class="link d3flux001FDH inactive" marker-end="url(#d3flux001FDH)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M407.26021638187,488.4482513940565 Q414.3894156295939,491.53890354197915 423.4407901556308,496.2018904466845 Q432.7518709318342,500.998669941688 442.72271170367446,506.98881200093876"/><path class="link d3flux001FDH inactive" marker-end="url(#d3flux001FDH)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M407.26021638187,488.4482513940565 Q414.3894156295939,491.53890354197915 423.4407901556308,496.2018904466845 Q434.49640334856804,501.8973988353675 449.3857356492213,498.40935823380835"/><path class="link d3flux001XYLI" marker-end="url(#d3flux001XYLI)" stroke-width="3.872299221796599" stroke="#bbb" d="M421.98166005466067,92.89929433905883 Q416.0984776779122,96.92478271401917 409.74618702609604,101.00702504959148 Q406.3569597018068,103.18508144317545 402.8322002478718,105.37329075873339"/><path class="link d3flux001XYLK" marker-end="url(#d3flux001XYLK)" stroke-width="3.872299221796599" stroke="#bbb" d="M376.5056476361536,121.26788224549166 Q365.71625005230754,127.86852733831915 355.274637558575,134.06484742133145 Q350.52234675386023,136.8849784088819 346.10242921817667,139.47260536874046"/><path class="link d3flux001XYLK" marker-end="url(#d3flux001XYLK)" stroke-width="3.872299221796599" stroke="#bbb" d="M382.93142686888694,135.81434082028431 Q366.9492042834128,127.13686074293284 355.274637558575,134.06484742133145 Q350.52234675386023,136.8849784088819 346.10242921817667,139.47260536874046"/><path class="link d3flux001LDH_D inactive" marker-end="url(#d3flux001LDH_D)" marker-start="url(#d3flux001LDH_D_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M411.03673511768477,388.20949605534673 Q404.2580167995735,391.7103220413404 394.36957371174753,396.6707449188173 Q373.30544368566746,407.2373216334219 327.40665473347974,429.03010061198285"/><path class="link d3flux001LDH_D inactive" marker-end="url(#d3flux001LDH_D)" marker-start="url(#d3flux001LDH_D_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M411.03673511768477,388.20949605534673 Q404.2580167995735,391.7103220413404 394.36957371174753,396.6707449188173 Q379.0598653316929,404.35068270289764 375.6164405826605,415.8533011432439"/><path class="link d3flux001G6PDH2r inactive" marker-end="url(#d3flux001G6PDH2r)" marker-start="url(#d3flux001G6PDH2r_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M121.57758847012659,48.422748800702664 Q133.67904493156243,33.63236883836573 147.73235676719128,24.99947127525205 Q162.3354235510372,16.028861277640143 183.39865858714597,11.471248160475945"/><path class="link d3flux001G6PDH2r inactive" marker-end="url(#d3flux001G6PDH2r)" marker-start="url(#d3flux001G6PDH2r_rev)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M121.57758847012659,48.422748800702664 Q133.67904493156243,33.63236883836573 147.73235676719128,24.99947127525205 Q160.31141348748497,17.272203185208074 170.25651985476347,23.53425152546086"/><path class="link d3flux001ALDD2x inactive" marker-end="url(#d3flux001ALDD2x)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M388.6834036268606,588.2539707006298 Q370.5062859312464,598.5291962423663 351.1322090979263,609.5077876523435 Q331.3979827310065,620.6904628289901 296.51365244329634,640.4976416759035"/><path class="link d3flux001ALDD2x inactive" marker-end="url(#d3flux001ALDD2x)" stroke-width="1.5" stroke="#bbb" stroke-dasharray="5,5" d="M388.6834036268606,588.2539707006298 Q370.5062859312464,598.5291962423663 351.1322090979263,609.5077876523435 Q335.3620524340581,618.4441673298606 340.1162046016226,629.4481702333994"/></g><g><g transform="translate(373.043223866228,237.3584107009283)"><circle class="node metabolite" id="13dpg_c" r="7.405108638921334" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="13dpg_c" x=".9em" y=".35em" text-anchor="start">13DPG</text></g><g transform="translate(324.1399811479195,361.40399959209265)"><circle class="node metabolite" id="2pg_c" r="7.300948931763001" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="2pg_c" x=".9em" y=".35em" text-anchor="start">2PG</text></g><g transform="translate(386.81349679838365,307.835730848789)"><circle class="node metabolite" id="3pg_c" r="7.405108638921334" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="3pg_c" x=".9em" y=".35em" text-anchor="start">3PG</text></g><g transform="translate(198.1801574871815,8.920309065114125)"><circle class="node metabolite inactive" id="6pgc_c" r="4" style="fill: rgb(31, 119, 180);"/><text class="nodelabel inactive" id="6pgc_c" x=".9em" y=".35em" text-anchor="start">6PGC</text></g><g transform="translate(282.34262460899663,648.5447410537606)"><circle class="node metabolite" id="ac_c" r="5.296436367425582" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="ac_c" x=".9em" y=".35em" text-anchor="start">AC</text></g><g transform="translate(396.5187869869987,583.8260177198886)"><circle class="node metabolite inactive" id="acald_c" r="4" style="fill: rgb(31, 119, 180);"/><text class="nodelabel inactive" id="acald_c" x=".9em" y=".35em" text-anchor="start">ACALD</text></g><g transform="translate(356.5408460563843,517.5604880189204)"><circle class="node metabolite" id="accoa_c" r="5.5573787140084825" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="accoa_c" x=".9em" y=".35em" text-anchor="start">ACCOA</text></g><g transform="translate(319.1394521829853,582.8240702520674)"><circle class="node metabolite" id="actp_c" r="5.296436367425582" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="actp_c" x=".9em" y=".35em" text-anchor="start">ACTP</text></g><g transform="translate(457.4357200364724,516.2417657229903)"><circle class="node metabolite" id="co2_c" r="6.38072975404862" style="fill: rgb(174, 199, 232);"/><text class="nodelabel" id="co2_c" x=".9em" y=".35em" text-anchor="start">CO2</text></g><g transform="translate(288.1821461789964,259.62935854085896)"><circle class="node metabolite" id="dhap_c" r="5.426657722721805" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="dhap_c" x=".9em" y=".35em" text-anchor="start">DHAP</text></g><g transform="translate(177.79008346463644,62.84947822464068)"><circle class="node metabolite" id="e4p_c" r="4.5859096751004405" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="e4p_c" x=".9em" y=".35em" text-anchor="start">E4P</text></g><g transform="translate(428.49577610988814,642.6537303483125)"><circle class="node metabolite inactive" id="etoh_c" r="4" style="fill: rgb(31, 119, 180);"/><text class="nodelabel inactive" id="etoh_c" x=".9em" y=".35em" text-anchor="start">ETOH</text></g><g transform="translate(101.26331523486641,177.34727315441216)"><circle class="node metabolite" id="f6p_c" r="5.4315941687361935" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="f6p_c" x="-.9em" y=".35em" text-anchor="end">F6P</text></g><g transform="translate(180.377220566232,240.75502501147935)"><circle class="node metabolite" id="fdp_c" r="5.426657722721805" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="fdp_c" x=".9em" y=".35em" text-anchor="start">FDP</text></g><g transform="translate(397.42101960996047,484.62092175127543)"><circle class="node metabolite" id="for_c" r="5.5573787140084825" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="for_c" x=".9em" y=".35em" text-anchor="start">FOR</text></g><g transform="translate(110.73854035372122,585.6323318434088)"><circle class="node metabolite" id="fum_c" r="5.385792763741295" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="fum_c" x=".9em" y=".35em" text-anchor="start">FUM</text></g><g transform="translate(306.2673827992605,207.3921752993234)"><circle class="node metabolite" id="g3p_c" r="8" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="g3p_c" x=".9em" y=".35em" text-anchor="start">G3P</text></g><g transform="translate(112.52666232322949,60.75748557678827)"><circle class="node metabolite" id="g6p_c" r="4.299182836083183" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="g6p_c" x=".9em" y=".35em" text-anchor="start">G6P</text></g><g transform="translate(34.37107051776515,32.477984768907746)"><circle class="node metabolite" id="glc__D_e" r="4.299182836083183" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="glc__D_e" x=".9em" y=".35em" text-anchor="start">GLC</text></g><g transform="translate(147.25266608917624,521.7750406278898)"><circle class="node metabolite" id="mal__L_c" r="6.256329921976551" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="mal__L_c" x=".9em" y=".35em" text-anchor="start">MAL</text></g><g transform="translate(194.71811459453318,440.88467502945394)"><circle class="node metabolite" id="oaa_c" r="6.3807297540486045" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="oaa_c" x=".9em" y=".35em" text-anchor="start">OAA</text></g><g transform="translate(251.87819507727542,338.4645607084292)"><circle class="node metabolite" id="pep_c" r="7.300948931763001" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="pep_c" x=".9em" y=".35em" text-anchor="start">PEP</text></g><g transform="translate(312.26594527039765,436.20477823325166)"><circle class="node metabolite" id="pyr_c" r="5.7546137530714" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="pyr_c" x=".9em" y=".35em" text-anchor="start">PYR</text></g><g transform="translate(252.27219055767722,84.61556835464663)"><circle class="node metabolite" id="r5p_c" r="4.64841246194271" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="r5p_c" x=".9em" y=".35em" text-anchor="start">R5P</text></g><g transform="translate(306.9904123614967,53.89042223441865)"><circle class="node metabolite" id="ru5p__D_c" r="4.64841246194271" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="ru5p__D_c" x=".9em" y=".35em" text-anchor="start">RU5P</text></g><g transform="translate(197.90319841866625,216.66892207293898)"><circle class="node metabolite" id="s7p_c" r="4.5859096751004405" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="s7p_c" x=".9em" y=".35em" text-anchor="start">S7P</text></g><g transform="translate(76.0034965285222,646.9972070225022)"><circle class="node metabolite" id="succ_c" r="5.385792763741295" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="succ_c" x=".9em" y=".35em" text-anchor="start">SUCC</text></g><g transform="translate(328.8045419120096,149.42807376203066)"><circle class="node metabolite" id="xu5p__D_c" r="5.795097016499101" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="xu5p__D_c" x=".9em" y=".35em" text-anchor="start">XU5P</text></g><g transform="translate(430.8162518021068,86.69573824181867)"><circle class="node metabolite" id="xyl__D_c" r="5.795097016499101" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="xyl__D_c" x=".9em" y=".35em" text-anchor="start">XYL</text></g><g transform="translate(385.69889867167296,115.60941469730261)"><circle class="node metabolite" id="xylu__D_c" r="5.795097016499101" style="fill: rgb(31, 119, 180);"/><text class="nodelabel" id="xylu__D_c" x=".9em" y=".35em" text-anchor="start">XU</text></g><g transform="translate(424.23354197668004,381.0789779306125)"><circle class="node metabolite inactive" id="lac__D_c" r="4" style="fill: rgb(31, 119, 180);"/><text class="nodelabel inactive" id="lac__D_c" x=".9em" y=".35em" text-anchor="start">LAC</text></g><g transform="translate(393.63231629605326,535.5403540860555)"><circle class="node metabolite inactive" id="nadh_c_ACALD" r="4" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor inactive" id="nadh_c_ACALD" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(266.7300153137178,610.8281666525227)"><circle class="node metabolite" id="atp_c_ACKr" r="5.296436367425582" style="fill: rgb(255, 187, 120);"/><text class="nodelabel cofactor" id="atp_c_ACKr" x=".9em" y=".35em" text-anchor="start">ATP</text></g><g transform="translate(433.1132679242588,602.7038041865424)"><circle class="node metabolite inactive" id="nadh_c_ALCD2x" r="4" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor inactive" id="nadh_c_ALCD2x" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(118.69275404506878,624.3914968332098)"><circle class="node metabolite" id="q8_c_FRD7" r="5.385792763741295" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor" id="q8_c_FRD7" x=".9em" y=".35em" text-anchor="start">Q8</text></g><g transform="translate(119.2533052823336,608.0773561013383)"><circle class="node metabolite" id="q8h2_c_FRD7" r="5.385792763741295" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor" id="q8h2_c_FRD7" x=".9em" y=".35em" text-anchor="start">Q8H2</text></g><g transform="translate(380.0553232949826,196.7216203331348)"><circle class="node metabolite" id="nadh_c_GAPD" r="7.405108638921334" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor" id="nadh_c_GAPD" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(58.002541538494754,78.79946293784405)"><circle class="node metabolite" id="pyr_c_GLCpts" r="4.299182836083183" style="fill: rgb(31, 119, 180);"/><text class="nodelabel cofactor" id="pyr_c_GLCpts" x=".9em" y=".35em" text-anchor="start">PYR</text></g><g transform="translate(31.480504681410935,60.264936292496046)"><circle class="node metabolite" id="pep_c_GLCpts" r="4.299182836083183" style="fill: rgb(31, 119, 180);"/><text class="nodelabel cofactor" id="pep_c_GLCpts" x=".9em" y=".35em" text-anchor="start">PEP</text></g><g transform="translate(321.66670403486387,30.554305302939596)"><circle class="node metabolite inactive" id="nadph_c_GND" r="4" style="fill: rgb(140, 162, 82);"/><text class="nodelabel cofactor inactive" id="nadph_c_GND" x=".9em" y=".35em" text-anchor="start">NADPH</text></g><g transform="translate(316.74655609093656,15.396386542933953)"><circle class="node metabolite inactive" id="co2_c_GND" r="4" style="fill: rgb(174, 199, 232);"/><text class="nodelabel cofactor inactive" id="co2_c_GND" x=".9em" y=".35em" text-anchor="start">CO2</text></g><g transform="translate(137.77353012291036,432.74976774451216)"><circle class="node metabolite" id="nadh_c_MDH" r="6.256329921976551" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor" id="nadh_c_MDH" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(218.02399667262947,536.0931373872677)"><circle class="node metabolite" id="nadph_c_ME2" r="4.8705371582352575" style="fill: rgb(140, 162, 82);"/><text class="nodelabel cofactor" id="nadph_c_ME2" x=".9em" y=".35em" text-anchor="start">NADPH</text></g><g transform="translate(235.94197276702695,520.8345509714555)"><circle class="node metabolite" id="co2_c_ME2" r="4.8705371582352575" style="fill: rgb(174, 199, 232);"/><text class="nodelabel cofactor" id="co2_c_ME2" x=".9em" y=".35em" text-anchor="start">CO2</text></g><g transform="translate(300.80184508575394,520.1979178366431)"><circle class="node metabolite inactive" id="co2_c_PDH" r="4" style="fill: rgb(174, 199, 232);"/><text class="nodelabel cofactor inactive" id="co2_c_PDH" x=".9em" y=".35em" text-anchor="start">CO2</text></g><g transform="translate(280.4304995293506,502.42259256641546)"><circle class="node metabolite inactive" id="nadh_c_PDH" r="4" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor inactive" id="nadh_c_PDH" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(79.98019294099704,218.81350203548726)"><circle class="node metabolite" id="atp_c_PFK" r="5.426657722721805" style="fill: rgb(255, 187, 120);"/><text class="nodelabel cofactor" id="atp_c_PFK" x=".9em" y=".35em" text-anchor="start">ATP</text></g><g transform="translate(420.31493574154047,278.9922657220668)"><circle class="node metabolite" id="atp_c_PGK" r="7.405108638921334" style="fill: rgb(255, 187, 120);"/><text class="nodelabel cofactor" id="atp_c_PGK" x=".9em" y=".35em" text-anchor="start">ATP</text></g><g transform="translate(195.29336942169803,342.9377798390681)"><circle class="node metabolite" id="co2_c_PPCK" r="6.380729754048605" style="fill: rgb(174, 199, 232);"/><text class="nodelabel cofactor" id="co2_c_PPCK" x=".9em" y=".35em" text-anchor="start">CO2</text></g><g transform="translate(172.8741869016683,380.0570124689461)"><circle class="node metabolite" id="atp_c_PPCK" r="6.380729754048605" style="fill: rgb(255, 187, 120);"/><text class="nodelabel cofactor" id="atp_c_PPCK" x=".9em" y=".35em" text-anchor="start">ATP</text></g><g transform="translate(310.9807956946766,386.16479587096)"><circle class="node metabolite" id="atp_c_PYK" r="4.584893758752944" style="fill: rgb(255, 187, 120);"/><text class="nodelabel cofactor" id="atp_c_PYK" x=".9em" y=".35em" text-anchor="start">ATP</text></g><g transform="translate(253.12970865514836,411.3388431800438)"><circle class="node metabolite inactive" id="co2_c_OAADC" r="4" style="fill: rgb(174, 199, 232);"/><text class="nodelabel cofactor inactive" id="co2_c_OAADC" x=".9em" y=".35em" text-anchor="start">CO2</text></g><g transform="translate(463.5330220895758,493.4239508909179)"><circle class="node metabolite inactive" id="nadh_c_FDH" r="4" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor inactive" id="nadh_c_FDH" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(391.9735184439857,141.7113484973318)"><circle class="node metabolite" id="atp_c_XYLK" r="5.795097016499101" style="fill: rgb(255, 187, 120);"/><text class="nodelabel cofactor" id="atp_c_XYLK" x=".9em" y=".35em" text-anchor="start">ATP</text></g><g transform="translate(375.7087967758144,430.8530168183352)"><circle class="node metabolite inactive" id="nadh_c_LDH_D" r="4" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor inactive" id="nadh_c_LDH_D" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(180.3723335905413,34.60991459649382)"><circle class="node metabolite inactive" id="nadph_c_G6PDH2r" r="4" style="fill: rgb(140, 162, 82);"/><text class="nodelabel cofactor inactive" id="nadph_c_G6PDH2r" x=".9em" y=".35em" text-anchor="start">NADPH</text></g><g transform="translate(349.85825961700823,640.8539741979195)"><circle class="node metabolite inactive" id="nadh_c_ALDD2x" r="4" style="fill: rgb(181, 207, 107);"/><text class="nodelabel cofactor inactive" id="nadh_c_ALDD2x" x=".9em" y=".35em" text-anchor="start">NADH</text></g><g transform="translate(382.64525895293133,560.8483113179269)"><circle class="node rxn hidden inactive" id="ACALD" r="5"/><text class="nodelabel inactive rxn" id="ACALD" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(303.0931379450599,610.9159748329513)"><circle class="node rxn hidden" id="ACKr" r="5"/><text class="nodelabel rxn" id="ACKr" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(419.00015582585576,624.4703227914397)"><circle class="node rxn hidden inactive" id="ALCD2x" r="5"/><text class="nodelabel inactive rxn" id="ALCD2x" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(291.7908162239458,359.025665205511)"><circle class="node rxn hidden" id="ENO" r="5"/><text class="nodelabel rxn" id="ENO" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(224.1583165935302,244.87862920130573)"><circle class="node rxn hidden" id="FBA" r="5"/><text class="nodelabel rxn" id="FBA" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(142.3640880339957,205.18000736770938)"><circle class="node rxn hidden inactive" id="FBP" r="5"/><text class="nodelabel inactive rxn" id="FBP" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(91.85808723484153,617.1681673337579)"><circle class="node rxn hidden" id="FRD7" r="5"/><text class="nodelabel rxn" id="FRD7" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(128.7879223563044,552.1226480673281)"><circle class="node rxn hidden" id="FUM" r="5"/><text class="nodelabel rxn" id="FUM" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(347.3582370890107,211.28467493652442)"><circle class="node rxn hidden" id="GAPD" r="5"/><text class="nodelabel rxn" id="GAPD" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(74.07382680101327,47.09257932828508)"><circle class="node rxn hidden" id="GLCpts" r="5"/><text class="nodelabel rxn" id="GLCpts" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(264.4839278394269,19.07008358081694)"><circle class="node rxn hidden inactive" id="GND" r="5"/><text class="nodelabel inactive rxn" id="GND" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(168.8757596691594,483.36967508245345)"><circle class="node rxn hidden" id="MDH" r="5"/><text class="nodelabel rxn" id="MDH" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(205.61003807650025,491.3126487628525)"><circle class="node rxn hidden" id="ME2" r="5"/><text class="nodelabel rxn" id="ME2" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(316.9307329456555,466.0116167359042)"><circle class="node rxn hidden inactive" id="PDH" r="5"/><text class="nodelabel inactive rxn" id="PDH" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(133.80538618985943,216.73428030936736)"><circle class="node rxn hidden" id="PFK" r="5"/><text class="nodelabel rxn" id="PFK" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(345.3829389128512,467.39393224318394)"><circle class="node rxn hidden" id="PFL" r="5"/><text class="nodelabel rxn" id="PFL" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(91.98307808744356,115.95617458755262)"><circle class="node rxn hidden" id="PGI" r="5"/><text class="nodelabel rxn" id="PGI" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(389.9618138227907,258.5231106462878)"><circle class="node rxn hidden" id="PGK" r="5"/><text class="nodelabel rxn" id="PGK" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(367.8069554754235,341.2765723756918)"><circle class="node rxn hidden" id="PGM" r="5"/><text class="nodelabel rxn" id="PGM" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(225.14157388231007,384.6537560731797)"><circle class="node rxn hidden" id="PPCK" r="5"/><text class="nodelabel rxn" id="PPCK" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(337.56678237297814,551.3180861798992)"><circle class="node rxn hidden" id="PTAr" r="5"/><text class="nodelabel rxn" id="PTAr" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(275.7553622814589,374.0973638547674)"><circle class="node rxn hidden" id="PYK" r="5"/><text class="nodelabel rxn" id="PYK" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(325.8088418501407,97.32403922907261)"><circle class="node rxn hidden" id="RPE" r="5"/><text class="nodelabel rxn" id="RPE" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(283.881107839456,67.29564196697308)"><circle class="node rxn hidden" id="RPI" r="5"/><text class="nodelabel rxn" id="RPI" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(180.55593569906966,166.4198058730998)"><circle class="node rxn hidden" id="TALA" r="5"/><text class="nodelabel rxn" id="TALA" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(274.51468969512905,156.8092631665833)"><circle class="node rxn hidden" id="TKT1" r="5"/><text class="nodelabel rxn" id="TKT1" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(231.48068334636415,136.77351849450065)"><circle class="node rxn hidden" id="TKT2" r="5"/><text class="nodelabel rxn" id="TKT2" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(297.1596302668127,237.50395472210562)"><circle class="node rxn hidden" id="TPI" r="5"/><text class="nodelabel rxn" id="TPI" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(248.3832451334038,438.2336301142614)"><circle class="node rxn hidden inactive" id="OAADC" r="5"/><text class="nodelabel inactive rxn" id="OAADC" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(423.4407901556308,496.2018904466845)"><circle class="node rxn hidden inactive" id="FDH" r="5"/><text class="nodelabel inactive rxn" id="FDH" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(409.74618702609604,101.00702504959148)"><circle class="node rxn hidden" id="XYLI" r="5"/><text class="nodelabel rxn" id="XYLI" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(355.274637558575,134.06484742133145)"><circle class="node rxn hidden" id="XYLK" r="5"/><text class="nodelabel rxn" id="XYLK" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(394.36957371174753,396.6707449188173)"><circle class="node rxn hidden inactive" id="LDH_D" r="5"/><text class="nodelabel inactive rxn" id="LDH_D" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(147.73235676719128,24.99947127525205)"><circle class="node rxn hidden inactive" id="G6PDH2r" r="5"/><text class="nodelabel inactive rxn" id="G6PDH2r" x=".9em" y=".35em" text-anchor="start"/></g><g transform="translate(351.1322090979263,609.5077876523435)"><circle class="node rxn hidden inactive" id="ALDD2x" r="5"/><text class="nodelabel inactive rxn" id="ALDD2x" x=".9em" y=".35em" text-anchor="start"/></g></g></svg>


--------------------------------------------------------------------------------