Feedback enrichment analysis for transcription factor-target genes in signaling pathways
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[1] A. Barabasi,et al. Network biology: understanding the cell's functional organization , 2004, Nature Reviews Genetics.
[2] J. Ferrell,et al. Ultrasensitivity part II: multisite phosphorylation, stoichiometric inhibitors, and positive feedback. , 2014, Trends in biochemical sciences.
[3] A. Hoffmann,et al. The I (cid:1) B –NF-(cid:1) B Signaling Module: Temporal Control and Selective Gene Activation , 2022 .
[4] Daniel Marbach,et al. Tissue-specific regulatory circuits reveal variable modular perturbations across complex diseases , 2016, Nature Methods.
[5] K. Tan,et al. Understanding transcriptional regulatory networks using computational models. , 2016, Current opinion in genetics & development.
[6] Boris N. Kholodenko,et al. Feedback regulation in cell signalling: Lessons for cancer therapeutics. , 2016, Seminars in cell & developmental biology.
[7] Michio Hiroshima,et al. Positive Feedback Within a Kinase Signaling Complex Functions as a Switch Mechanism for NF-κB Activation , 2014, Science.
[8] Ryan Miller,et al. WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research , 2017, Nucleic Acids Res..
[9] Shining Ma,et al. Constructing tissue-specific transcriptional regulatory networks via a Markov random field , 2018, BMC Genomics.
[10] Cesare Furlanello,et al. A promoter-level mammalian expression atlas , 2015 .
[12] Susumu Goto,et al. KEGG: Kyoto Encyclopedia of Genes and Genomes , 2000, Nucleic Acids Res..
[13] A. Ma,et al. A20: linking a complex regulator of ubiquitylation to immunity and human disease , 2012, Nature Reviews Immunology.
[14] J E Ferrell,et al. The biochemical basis of an all-or-none cell fate switch in Xenopus oocytes. , 1998, Science.
[15] T. Meehan,et al. An atlas of active enhancers across human cell types and tissues , 2014, Nature.
[16] S. Shen-Orr,et al. Network motifs: simple building blocks of complex networks. , 2002, Science.
[17] Jin He,et al. Direct, noncatalytic mechanism of IKK inhibition by A20. , 2011, Molecular cell.
[18] H. Kurata,et al. Long negative feedback loop enhances period tunability of biological oscillators. , 2018, Journal of theoretical biology.
[19] M. Ashburner,et al. Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.
[20] Jeff Hasty,et al. Dual Delayed Feedback Provides Sensitivity and Robustness to the NF-κB Signaling Module , 2013, PLoS Comput. Biol..
[21] Stefan Wiemann,et al. KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor , 2009, Bioinform..
[22] Israel Steinfeld,et al. BMC Bioinformatics BioMed Central , 2008 .
[23] T. Mikkelsen,et al. Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay. , 2013, Genome research.
[24] B. Kholodenko,et al. Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades. , 2000, European journal of biochemistry.
[25] Henning Hermjakob,et al. The Reactome pathway Knowledgebase , 2015, Nucleic acids research.
[26] U. Alon. Network motifs: theory and experimental approaches , 2007, Nature Reviews Genetics.
[27] A. Blais,et al. Constructing transcriptional regulatory networks. , 2005, Genes & development.
[28] Olga G. Troyanskaya,et al. GOLEM: an interactive graph-based gene-ontology navigation and analysis tool , 2006, BMC Bioinformatics.
[29] M. Kool,et al. A20/Tumor Necrosis Factor α-Induced Protein 3 in Immune Cells Controls Development of Autoinflammation and Autoimmunity: Lessons from Mouse Models , 2018, Front. Immunol..
[30] Kentaro Inoue,et al. Stimulus-Dependent Inhibitor of Apoptosis Protein Expression Prolongs the Duration of B Cell Signalling , 2016, Scientific Reports.
[31] D. Baltimore. NF-κB is 25 , 2011, Nature Immunology.
[32] Gary D Bader,et al. Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap , 2019, Nature Protocols.
[33] Manolis Kellis,et al. Systematic discovery and characterization of regulatory motifs in ENCODE TF binding experiments , 2013, Nucleic acids research.
[34] J. Tyson,et al. Design principles of biochemical oscillators , 2008, Nature Reviews Molecular Cell Biology.