Inferring gene regulatory networks by integrating ChIP-seq/chip and transcriptome data via LASSO-type regularization methods

Jing Qin; Yaohua Hu; Feng Xu; Hari Krishna Yalamanchili; Junwen Wang

doi:10.1016/j.ymeth.2014.03.006

Inferring gene regulatory networks by integrating ChIP-seq/chip and transcriptome data via LASSO-type regularization methods

Methods ◽

10.1016/j.ymeth.2014.03.006 ◽

2014 ◽

Vol 67 (3) ◽

pp. 294-303 ◽

Cited By ~ 31

Author(s):

Jing Qin ◽

Yaohua Hu ◽

Feng Xu ◽

Hari Krishna Yalamanchili ◽

Junwen Wang

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Regularization Methods ◽

Transcriptome Data ◽

Gene Regulatory

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Gene regulatory networks applied to transcriptome data to detect differences in adaptation to herbivory of twoSpodoptera frugiperdastrains focusing on peptidases

10.1603/ice.2016.114679 ◽

2016 ◽

Author(s):

Natalia Faraj Murad

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Transcriptome Data ◽

Gene Regulatory

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Meta-Analysis of Transcriptome Data Related to Hippocampus Biopsies and iPSC-Derived Neuronal Cells from Alzheimer’s Disease Patients Reveals an Association with FOXA1 and FOXA2 Gene Regulatory Networks

Journal of Alzheimer s Disease ◽

10.3233/jad-150733 ◽

2016 ◽

Vol 50 (4) ◽

pp. 1065-1082 ◽

Cited By ~ 11

Author(s):

Wasco Wruck ◽

Friederike Schröter ◽

James Adjaye

Keyword(s):

Alzheimer’S Disease ◽

Alzheimer's Disease ◽

Gene Regulatory Networks ◽

Regulatory Networks ◽

Meta Analysis ◽

Neuronal Cells ◽

Transcriptome Data ◽

Gene Regulatory

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Predicting gene regulatory networks of soybean nodulation from RNA-Seq transcriptome data

BMC Bioinformatics ◽

10.1186/1471-2105-14-278 ◽

2013 ◽

Vol 14 (1) ◽

pp. 278 ◽

Cited By ~ 18

Author(s):

Mingzhu Zhu ◽

Jeremy L Dahmen ◽

Gary Stacey ◽

Jianlin Cheng

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Transcriptome Data ◽

Rna Seq ◽

Gene Regulatory ◽

Soybean Nodulation

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Guaranteed Cost Control for Uncertain Gene Regulatory Networks with Interval Time-Varying Discrete Delays and Constant Distributed Delays

2020 39th Chinese Control Conference (CCC) ◽

10.23919/ccc50068.2020.9189156 ◽

2020 ◽

Author(s):

Zhiwei Zhang ◽

Heng Liu ◽

Xinyue Zhang ◽

Yantao Wang ◽

Xian Zhang

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Cost Control ◽

Guaranteed Cost Control ◽

Distributed Delays ◽

Time Varying ◽

Interval Time ◽

Guaranteed Cost ◽

Discrete Delays ◽

Gene Regulatory

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Gene regulatory networks

Physics Subject Headings (PhySH) ◽

10.29172/b42c75b9b89345c3bf012539026851d0 ◽

2018 ◽

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Gene Regulatory

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Faculty Opinions recommendation of A common set of gene regulatory networks links metabolism and growth inhibition.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1019244.254628 ◽

2004 ◽

Author(s):

Cheng-Ming Chiang

Keyword(s):

Growth Inhibition ◽

Gene Regulatory Networks ◽

Regulatory Networks ◽

Gene Regulatory

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Faculty Opinions recommendation of Evolution of evolvability in gene regulatory networks.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1118830.574921 ◽

2008 ◽

Author(s):

Panayiotis Benos

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Gene Regulatory

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Faculty Opinions recommendation of Comparing different ODE modelling approaches for gene regulatory networks.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1168106.630230 ◽

2009 ◽

Author(s):

Philip Maini ◽

Alexander Fletcher

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Gene Regulatory ◽

Modelling Approaches

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Faculty Opinions recommendation of How difficult is inference of mammalian causal gene regulatory networks?

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.725223355.793502741 ◽

2015 ◽

Author(s):

Mark Ragan

Keyword(s):

Gene Regulatory Networks ◽

Regulatory Networks ◽

Causal Gene ◽

Gene Regulatory

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Faculty Opinions recommendation of Specific functions of the Wnt signaling system in gene regulatory networks throughout the early sea urchin embryo.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.725231801.793514586 ◽

2016 ◽

Author(s):

David McClay

Keyword(s):

Wnt Signaling ◽

Sea Urchin ◽

Gene Regulatory Networks ◽

Regulatory Networks ◽

Signaling System ◽

Sea Urchin Embryo ◽

Gene Regulatory

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