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Part 1: Document Description
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Citation |
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Title: |
Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation |
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Identification Number: |
doi:10.21979/N9/SO9VRB |
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Distributor: |
DR-NTU (Data) |
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Date of Distribution: |
2017-09-19 |
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Version: |
1 |
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Bibliographic Citation: |
Zheng, Jie, 2017, "Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation", https://doi.org/10.21979/N9/SO9VRB, DR-NTU (Data), V1 |
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Citation |
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Title: |
Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation |
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Identification Number: |
doi:10.21979/N9/SO9VRB |
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Authoring Entity: |
Zheng, Jie (Nanyang Technological University) |
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Software used in Production: |
(To be provided) |
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Grant Number: |
AcRF Tier 2 Grant ARC39/13 (MOE2013-T2-1-079) |
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Grant Number: |
AcRF Tier 1 seed grant on complexity RGC2/13 |
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Distributor: |
DR-NTU (Data) |
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Access Authority: |
Zheng, Jie |
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Depositor: |
Cheng, Wei Yeow |
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Date of Deposit: |
2017-08-26 |
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Holdings Information: |
https://doi.org/10.21979/N9/SO9VRB |
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Study Scope |
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Keywords: |
Computer and Information Science, Computer and Information Science, Computational system biology, Modeling cellular dynamics, Signaling pathways, Gene regulatory network |
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Abstract: |
<p>Sig2GRN is a software tool which links the models of signaling pathway with gene regulatory networks (GRNs).</p> <p>A generalized logical model, Sign2GRN is used in modeling the upstream signaling pathways. Then a Boolean model and a thermodynamics-based model are employed to predict the downstream changes in gene expression based on the simulated dynamics of transcription factors in signaling pathways.</p> <p>Sign2GRN is a Java plugin for Cytoscape (version 2.8.3) which is able to simulate the dynamics of the signaling pathways and the subsequent time-series gene expression data.</p> |
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Kind of Data: |
Plugin |
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Methodology and Processing |
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Sources Statement |
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Data Access |
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Other Study Description Materials |
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Related Materials |
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Cytoscape (version 2.8.3) |
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Related Publications |
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Citation |
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Identification Number: |
10.1186/s12918-016-0365-1 |
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Bibliographic Citation: |
Zhang, Fan, Liu, Runsheng, & Zheng, Jie. (2016). Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation. BMC Systems Biology, 10(4), 123. |
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Citation |
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Identification Number: |
10356/80431 |
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Bibliographic Citation: |
Zhang, F., Liu, R., & Zheng, J. (2016). Sig2GRN : a software tool linking signaling pathway with gene regulatory network for dynamic simulation. BMC Systems Biology, 10(S4), 123-. |
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Label: |
Readme.txt |
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Notes: |
text/plain; charset=UTF-8 |
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Label: |
Sig2GRN.jar |
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Notes: |
application/java-archive |
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Label: |
Sig2GRN_lib.jar |
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Notes: |
application/java-archive |
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Label: |
src.zip |
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Notes: |
application/zip |
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Label: |
TestingNetwork.txt |
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Notes: |
text/plain; charset=US-ASCII |