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Paper Citation Record · LEDGER

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits

As of 20 August 2026, this Paper Citation Record lists 46 of 46 outbound references and 0 inbound Pith citation observations for arXiv:2511.03483.

A citation records a reference. It does not transfer a finding from one paper to another.

pith.paper-citation-record.v1
2511.03483 v2

Coverage vector

measured 46 of 46 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-05-21T20:21:59.434912Z

measured 46 of 46 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-19T06:32:44.657259+00:00

measured 0 of 0 inbound itemization

Pith citing papers itemized under the disclosed page cap.

Source: paper_references, paper_reference_links

measured 0 of 1 external citation measurements

A source-named dated measurement, never combined with another source.

Source: cited_works

Reference resolution

46 of 46 outbound references displayed

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External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 4578ed01-0bb2-4810-81bf-11b1000234cb · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 1

Resolution
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 82f148e6-7ec0-4b14-9a03-242c945c428f · outbound

This paper cites John Wiley & Sons.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits John Wiley & Sons

Reference 2

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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 97be55c0-4562-4089-9538-4f275c96260d · outbound

This paper cites Systems biology of metabolism.Annual review of biochemistry, 86(1):245–275.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Systems biology of metabolism.Annual review of biochemistry, 86(1):245–275

Reference 3

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 6d17169a-aec2-480e-bd09-fba641ac3389 · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 4

Resolution
unresolved
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 4a4c348a-279a-4c6d-b287-9a61706ebb42 · outbound

This paper cites Akinetic model of escherichia coli core metabolism satisfying multiple sets of mutant flux data.Metabolic engineering, 25:50–62.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Akinetic model of escherichia coli core metabolism satisfying multiple sets of mutant flux data.Metabolic engineering, 25:50–62

Reference 5

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:f38595b141c3bbab5c6b6745bbc06041dc4141d1f755cbf81fe42fb7801cfd43

Observation dabbe3b3-d433-4230-bb30-8965a198a486 · outbound

This paper cites Mathematical modelling of metabolism.Current opinion in biotechnology, 11(2):180–186.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Mathematical modelling of metabolism.Current opinion in biotechnology, 11(2):180–186

Reference 6

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 4781a487-beaa-41a8-80bf-89a8a48621e8 · outbound

This paper cites Mass conserved elementary kinetics is sufficientfortheexistenceofanon-equilibriumsteadystateconcentration.Journal of Theoretical Biology, 314:173–181.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Mass conserved elementary kinetics is sufficientfortheexistenceofanon-equilibriumsteadystateconcentration.Journal of Theoretical Biology, 314:173–181

Reference 7

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:d33502465037bde5edb63bcd70ee157e72eb55dcc7e0100a33efa32e3a3a536b

Observation 6ea05d07-05fe-4498-b839-fc094943fcb4 · outbound

This paper cites Elsevier.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Elsevier

Reference 8

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verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:a87698174aa0f8d9d2606ddb3e698554e7ce4a286fe790e8ceb1b337a321eb3e

Observation bfc3ef68-7f3f-4654-92c4-618cbe4c1eb4 · outbound

This paper cites Quasi-steady-stateapproximationinthemathematical modelingofbiochemicalreactionnetworks.Mathematical biosciences,65(2):155– 170.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Quasi-steady-stateapproximationinthemathematical modelingofbiochemicalreactionnetworks.Mathematical biosciences,65(2):155– 170

Reference 9

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 8df44c34-2fe2-4a43-8d1f-7e927d9b6853 · outbound

This paper cites Constraint- based stoichiometric modelling from single organisms to microbial communities.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Constraint- based stoichiometric modelling from single organisms to microbial communities

Reference 10

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:2df56d7f4ba30c6d4a5b13191b8582e634086a671329c6ed844f4b81d5c7d4f5

Observation 194c254b-7655-4e75-9c91-53056aed5cb7 · outbound

This paper cites Recent advances in reconstruction and applications of genome-scale metabolic models.Current opinion in biotechnology, 23(4):617–623.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Recent advances in reconstruction and applications of genome-scale metabolic models.Current opinion in biotechnology, 23(4):617–623

Reference 11

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:1db4766b5312e8188eead7e5ded5520ccc3ce0f9f494447028ee06f156cbc098

Observation b51173d1-8dd1-46bd-b5f0-f4111d3daa70 · outbound

This paper cites A genome-scale metabolic reconstruction forescherichia colik-12 mg1655 that accounts for 1260 orfs and thermodynamic information.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits A genome-scale metabolic reconstruction forescherichia colik-12 mg1655 that accounts for 1260 orfs and thermodynamic information

Reference 12

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:49073a24d98bfed062d75163da1e25d2420cedc540bd20306f83952a393ed166

Observation 75ffe36d-715d-499e-8d6b-ad878dc417ff · outbound

This paper cites Reconstructionand use of microbial metabolic networks: the coreescherichia colimetabolic model as an educational guide.EcoSal plus.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Reconstructionand use of microbial metabolic networks: the coreescherichia colimetabolic model as an educational guide.EcoSal plus

Reference 13

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.185777Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:b6d9ccdd4ccac17b04c1ca67e65e8a1ff2864637b1ba2ce4dc1e7217a1c83ec7

Observation 73d96c68-4a44-4574-8553-0bc1141078bb · outbound

This paper cites A comprehensive genome-scale reconstructionofescherichia colimetabolism—2011.Molecular systems biology, 7(1):535.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits A comprehensive genome-scale reconstructionofescherichia colimetabolism—2011.Molecular systems biology, 7(1):535

Reference 14

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:2667a4557224a9bacf4ff6a3c631fb4e4b6aaa3db4ffaba8b1e299ef2ea746dc

Observation e5ca14be-fc9c-4c06-b406-6c8d48ab392e · outbound

This paper cites Bigg models 2020: multi-strain genome-scale models and expansion across the phylogenetic tree.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Bigg models 2020: multi-strain genome-scale models and expansion across the phylogenetic tree

Reference 15

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 9154b1d2-fc46-4368-882c-709acb17a2ba · outbound

This paper cites What is flux balance analysis?Nature biotechnology, 28(3):245–248.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits What is flux balance analysis?Nature biotechnology, 28(3):245–248

Reference 16

Resolution
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation fb3a22db-2d56-4ec0-9ca6-951941966ae6 · outbound

This paper cites Growth-coupledoverproductionisfeasiblefor almostallmetabolitesinfivemajorproductionorganisms.Nature communications, 8:15956.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Growth-coupledoverproductionisfeasiblefor almostallmetabolitesinfivemajorproductionorganisms.Nature communications, 8:15956

Reference 17

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation a579c481-3d10-4b84-a3b6-3278716b8845 · outbound

This paper cites Metabolic flux balancing: basic concepts, scientific and practical use.Bio/technology, 12(10):994–998.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Metabolic flux balancing: basic concepts, scientific and practical use.Bio/technology, 12(10):994–998

Reference 18

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:d8e4fa43b898ed0fca48610938fa265ae641eb448ee46b17f1e0d9ddd4afb15b

Observation fa7c7f9a-05a8-440c-8f24-7c4eba5aad79 · outbound

This paper cites Optknock: a bilevel programming framework for identifying gene knockout strategies for microbial strain optimization.Biotechnology and bioengineering, 84(6):647–657.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Optknock: a bilevel programming framework for identifying gene knockout strategies for microbial strain optimization.Biotechnology and bioengineering, 84(6):647–657

Reference 19

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 79b9fbf8-dbbf-47fd-a2cb-2d96a2397836 · outbound

This paper cites Gene deletionalgorithmsforminimumreactionnetworkdesignbymixed-integerlinear programming for metabolite production in constraint-based models: gdel_minrn.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Gene deletionalgorithmsforminimumreactionnetworkdesignbymixed-integerlinear programming for metabolite production in constraint-based models: gdel_minrn

Reference 20

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:43a34f980f1363af9fb5d793b1d1226bcf939b8c65c09a89f5c864ec25bb2032

Observation 006735ba-912b-4a6e-a966-5416bb11a51b · outbound

This paper cites Optforce: an optimization procedure for identifying all genetic manipulations leading to targeted overproductions.PLoS Comput Biol, 6(4):e1000744.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Optforce: an optimization procedure for identifying all genetic manipulations leading to targeted overproductions.PLoS Comput Biol, 6(4):e1000744

Reference 21

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:90394b98249462863368fa54babaa4597e5614d728df07d41c341ad4647ae20b

Observation 9b937a74-17a4-46c6-adf3-2f71e9db772d · outbound

This paper cites Optcom: a multi-level optimization framework for the metabolic modeling and analysis of microbial communities.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Optcom: a multi-level optimization framework for the metabolic modeling and analysis of microbial communities

Reference 22

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verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 4e30004e-9210-4826-85c9-f2e6db080067 · outbound

This paper cites Metnetcomp: Databaseforminimalandmaximalgene-deletion strategies for growth-coupled production of genome-scale metabolic networks.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Metnetcomp: Databaseforminimalandmaximalgene-deletion strategies for growth-coupled production of genome-scale metabolic networks

Reference 23

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.158027Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:9d3b34a1764f7e590f83d87cc81b08c0e927f0eb0dc0fe17dad9a44a60d3e0d9

Observation 72974f28-a871-4258-abed-2ade67fe0859 · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 24

Resolution
unresolved
raw_fallback, observed 2026-05-21T20:24:22.155157Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation c69a5479-5b3e-43e4-9e08-3848d6eeaa90 · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 25

Resolution
unresolved
raw_fallback, observed 2026-05-21T20:24:22.152896Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

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Observation 2d98f85e-67e5-43f1-b996-f1bfa4209524 · outbound

This paper cites Creation and analysis of biochemical constraint- based models using the cobra toolbox v.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Creation and analysis of biochemical constraint- based models using the cobra toolbox v

Reference 26

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.150758Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:fca4a34a2074f53565accd3b7a243a15a044f7e6ab12a61a7d4a2fbfbd8082c2

Observation 3950a887-c935-49c1-82c4-c5ce8420dc11 · outbound

This paper cites Mip: Theory and practice—closing the gap.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Mip: Theory and practice—closing the gap

Reference 27

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.148569Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:7cf6719eebe5ea20a7aba3e371b91db6b11eb0ad79f06ceb5ae24213962ad8fd

Observation c6806523-6845-4265-966f-07166730031c · outbound

This paper cites An automatic method for solving discrete programming problems.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits An automatic method for solving discrete programming problems

Reference 28

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.146425Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:0f3fd4901b6fed1099bc92f99818bf5f7767425331c3a8bf08f1ce99d01b93f4

Observation 7b9e9ecd-71b0-4d9d-a0d3-4591a9f73400 · outbound

This paper cites The cutting-plane method for solving convex programs.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits The cutting-plane method for solving convex programs

Reference 29

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.142460Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:c43ba9a1215b4690c2023b20ea862f63882815329e5b181aadcdef2bc1249b4b

Observation db14c3da-7396-4880-8a81-1c8b8d91a6bc · outbound

This paper cites Elementary flux modes in a nutshell: properties, calculation and applications.Biotechnology journal, 8(9):1009–1016.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Elementary flux modes in a nutshell: properties, calculation and applications.Biotechnology journal, 8(9):1009–1016

Reference 30

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.140105Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:9c42b57c37f4b57df8bba1441f8e2a7992d6b3ccdfcdd636de0149fa4b19a82b

Observation b8e6f9c5-8260-4733-85d3-d6d6fa45634d · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 31

Resolution
unresolved
raw_fallback, observed 2026-05-21T20:24:22.137417Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:83c1ffaad04006c1cc994c197bd4f55ca7d46d4c9637a464954bc0184b87e92a

Observation a85cc0ec-81a5-4393-9a7c-67de197dac8f · outbound

This paper cites Min- imal cut sets in a metabolic network are elementary modes in a dual network.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Min- imal cut sets in a metabolic network are elementary modes in a dual network

Reference 32

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.135464Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:1300b2e0cf9ea8287bad506a5708952441fe364f5bf4b3fb85038e4b920506fd

Observation 3fdedc20-e923-4af9-8c76-17832cc421df · outbound

This paper cites Enumeration of smallest intervention strategies in genome-scale metabolic networks.PLoS computational biology, 10(1):e1003378.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Enumeration of smallest intervention strategies in genome-scale metabolic networks.PLoS computational biology, 10(1):e1003378

Reference 33

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.133086Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:8b10b46fd34e8787ad1cf7dc518670b44986ec4a6cfce8f42fb1cbc6fff5c615

Observation 41fcc4ac-3e46-485a-ba73-5027a8ca5b21 · outbound

This paper cites L1 norm minimal mode-based methods for listing reaction net- work designs for metabolite production.IEICE TRANSACTIONS on Information and Systems, 104(5):679–687.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits L1 norm minimal mode-based methods for listing reaction net- work designs for metabolite production.IEICE TRANSACTIONS on Information and Systems, 104(5):679–687

Reference 34

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.130503Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:2a4c639550a36be078870ad7715b5599e81b01adb81f2a94d676dd01f8efe94b

Observation 41db70de-864a-4a9b-97d0-a92d4b4696a6 · outbound

This paper cites From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints.PLoS computational biology, 13(4).

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints.PLoS computational biology, 13(4)

Reference 35

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.127678Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:f4c12ee2bf604ebe472eae687d0aa4d3a779362657736116e64bb54af2c9ccc0

Observation 8777ab90-3db5-438a-a0d2-4a667e496752 · outbound

This paper cites Model-driven evaluation of the production potential for growth-coupled products of escherichia coli.Metabolic engineering, 12(3):173–186.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Model-driven evaluation of the production potential for growth-coupled products of escherichia coli.Metabolic engineering, 12(3):173–186

Reference 36

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.125570Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:06c6130e69e60a5a3c5f2698693a1f88eb91a1eca54be18d623f92839c0cb854

Observation fe2c8feb-cf9e-4899-b1ad-13ed61f9afff · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 37

Resolution
unresolved
raw_fallback, observed 2026-05-21T20:24:22.122734Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:5f0867f54779b39edd11c0df7c0ae6196a496f22876300f29405df1f05cf49cd

Observation 940e2803-c164-42fe-8242-89f28af29bc4 · outbound

This paper cites Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways.Bioinfor- matics, 26(4):536–543.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways.Bioinfor- matics, 26(4):536–543

Reference 38

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.118066Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:898a9836b35bd1fbc6bd1f7d4c1d8fb2b35e79d6ec6f25a1741d6fce1d47e939

Observation 628e3edb-ae00-43a6-b4db-d7bad6093ecc · outbound

This paper cites Evolu- tionary programming as a platform for in silico metabolic engineering.BMC bioinformatics, 6(1):308.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Evolu- tionary programming as a platform for in silico metabolic engineering.BMC bioinformatics, 6(1):308

Reference 39

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.114978Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:146eabf1ee378d998058d81d0b54e1c530f4bd984d8143ad1785a375f97b90c5

Observation bb93baa1-4c36-4e20-9748-d31a5efc3c91 · outbound

This paper cites Determination of growth-coupling strategies and their underlying principles.BMC bioinformatics, 20(1):447.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Determination of growth-coupling strategies and their underlying principles.BMC bioinformatics, 20(1):447

Reference 40

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.112983Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:5bd5db86a1261af43504b1c643283acd085eafb7190de8a2670fc66b708789f9

Observation 9ac839de-452c-4ad1-b146-04f11d2bf175 · outbound

This paper cites Straindesign: a comprehensive python package for computational design of metabolic networks.Bioinformatics, 38(21):4981–4983.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Straindesign: a comprehensive python package for computational design of metabolic networks.Bioinformatics, 38(21):4981–4983

Reference 41

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.110702Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:f53349fbebdc1cd28d52254ddc28ad1a2a67836bf8fbddc6101b76477fcc4cb0

Observation 1889b1e5-ffb2-4f70-80ff-e1a7fcb23453 · outbound

This paper cites Grid-basedcomputationalmethodsforthedesignofconstraint- basedparsimoniouschemicalreactionnetworkstosimulatemetaboliteproduction: Gridprod.BMC bioinformatics, 19(1):325.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Grid-basedcomputationalmethodsforthedesignofconstraint- basedparsimoniouschemicalreactionnetworkstosimulatemetaboliteproduction: Gridprod.BMC bioinformatics, 19(1):325

Reference 42

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.107512Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:a8124fac7fdfd6c7e0f36acb705c35165954fbf0ce375b49691a086c58dd9b6a

Observation 0fd50909-d56e-4d26-a760-5791482d663f · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 43

Resolution
unresolved
raw_fallback, observed 2026-05-21T20:24:22.104935Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:11d0c0ae9c25022779fc55f4914200886487f33244242b1e4b0f85fd2bcbc5b8

Observation 4bc43b03-8726-44d0-96e0-300df760b2b9 · outbound

This paper cites an unresolved cited work.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Unresolved cited work

Reference 44

Resolution
unresolved
raw_fallback, observed 2026-05-21T20:24:22.102290Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:e6c934cedb346655353d7e81efa6a4680b98ec3ef13345951ae388f3f95ce1fe

Observation ab00ef0d-ed9e-4d83-907a-8743098dc47c · outbound

This paper cites Optstrain: a computa- tionalframeworkforredesignofmicrobialproductionsystems.Genome research, 14(11):2367–2376.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits Optstrain: a computa- tionalframeworkforredesignofmicrobialproductionsystems.Genome research, 14(11):2367–2376

Reference 45

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.099127Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:e0e367383645c74186a92adad7b7d98c7f2d350e6df18e46c587156874a43c87

Observation 533370f9-5d8a-4e60-9252-74f1d95810fa · outbound

This paper cites An in-silico approach to predict and exploit synthetic lethality in cancer metabolism.Nature communications, 8(1):459.

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits An in-silico approach to predict and exploit synthetic lethality in cancer metabolism.Nature communications, 8(1):459

Reference 46

Resolution
verified fuzzy
raw_fallback, observed 2026-05-21T20:24:22.096988Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.

source=pdf_text observed=2026-05-21T20:21:59.434912Z digest=sha256:7e726d96eeeba106e7085c9cba2db0f3aa7c1faadbb94f5f87417fff1d259d28

Pith citing papers

No inbound Pith citation observations are available.