Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks (Q28727977)

2

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Douglas A. Lauffenburger

5

object named as

Douglas A Lauffenburger

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author name string

Daniel C Kirouac

1

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Jennifer Swantek

3

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John M Burke

describes a project that uses

4

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language of work or name

English

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publication date

1 May 2012

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published in

BMC Systems Biology

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volume

6

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issue

1

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page(s)

29

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Cytoscape

object named as

Cytoscape

2 references

Europe PubMed Central

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

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17 March 2017

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Untangling the ErbB signalling network

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Ultrasensitivity in the mitogen-activated protein kinase cascade

17 March 2017

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Emergent decision-making in biological signal transduction networks

17 March 2017

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From molecular to modular cell biology

23 March 2017

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7 April 2017

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Elementary signaling modes predict the essentiality of signal transduction network components

9 May 2017

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Protein-protein interactions: Interactome under construction

3 June 2018

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Extending pathways and processes using molecular interaction networks to analyse cancer genome data

3 June 2018

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Dynamic interaction networks in a hierarchically organized tissue

3 June 2018

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EGF-induced MAPK signaling inhibits hemidesmosome formation through phosphorylation of the integrin {beta}4.

3 June 2018

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Event extraction for systems biology by text mining the literature

3 June 2018

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Construction of a large scale integrated map of macrophage pathogen recognition and effector systems

3 June 2018

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Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes

3 June 2018

1 reference

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Logic-based models for the analysis of cell signaling networks

3 June 2018

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Integrated cellular network of transcription regulations and protein-protein interactions

3 June 2018

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Towards genome-scale signalling network reconstructions

3 June 2018

1 reference

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Automated network analysis identifies core pathways in glioblastoma

3 June 2018

1 reference

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Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction

3 June 2018

1 reference

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The logic of EGFR/ErbB signaling: theoretical properties and analysis of high-throughput data

3 June 2018

1 reference

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Cell-cell interaction networks regulate blood stem and progenitor cell fate

3 June 2018

1 reference

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Integrating proteomic, transcriptional, and interactome data reveals hidden components of signaling and regulatory networks

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

BowTieBuilder: modeling signal transduction pathways

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Caveolin-1 regulates EGFR signaling in MCF-7 breast cancer cells and enhances gefitinib-induced tumor cell inhibition

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Input-output behavior of ErbB signaling pathways as revealed by a mass action model trained against dynamic data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

G-protein coupled receptor signaling architecture of mammalian immune cells

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Literature-curated protein interaction datasets.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Pathways connecting inflammation and cancer

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Protein networking: insights into global functional organization of proteomes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Evolution of complex modular biological networks

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

3 June 2018

The road to modularity.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Ligand-dependent responses of the ErbB signaling network: experimental and modeling analyses

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Computational analysis of human protein interaction networks.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Systems biology--an engineering perspective.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Oncogenic re-wiring of cellular signaling pathways

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Comparison of human protein-protein interaction maps.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Modular organization of protein interaction networks

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Physicochemical modelling of cell signalling pathways.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Collecting and organizing systematic sets of protein data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

A comprehensive map of the toll-like receptor signaling network

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

The response of human epithelial cells to TNF involves an inducible autocrine cascade

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Spontaneous evolution of modularity and network motifs

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Identification and characterization of ERK MAP kinase phosphorylation sites in Smad3.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Functional cartography of complex metabolic networks

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Online predicted human interaction database

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Building with a scaffold: emerging strategies for high- to low-level cellular modeling

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

Protein molecules as computational elements in living cells

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

A global pathway crosstalk network

3 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186/1752-0509-6-29

On the basic computational structure of gene regulatory networks

21 January 2018

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Crossref

https://api.crossref.org/works/10.1186/1752-0509-6-29

Community detection algorithms: a comparative analysis

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3436686

27 November 2018

Identifiers

DOI

10.1186/1752-0509-6-29

1 reference

journals/bmcsb/KirouacSSBLS12

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

1022478656

0 references

1 reference

1 reference

PubMed publication ID

22548703

1 reference