2020
DiNeR: a Differential graphical model for analysis of co-regulation Network Rewiring
Zhang J, Liu J, Lee D, Lou S, Chen Z, Gürsoy G, Gerstein M. DiNeR: a Differential graphical model for analysis of co-regulation Network Rewiring. BMC Bioinformatics 2020, 21: 281. PMID: 32615918, PMCID: PMC7333332, DOI: 10.1186/s12859-020-03605-3.Peer-Reviewed Original ResearchConceptsCo-regulation networkCo-regulatory networkNetwork rewiringDisease regulatorsGenome-wide binding profilesGM12878 cell lineRNA polymerase IITumor suppressor BRCA1Transcription factor bindsChIP-seq dataDifferential graphical modelsBinding profileComplete binding profilesKey TFsPolymerase IIHub regulatorsPhenotypic variationFactor bindsGene expressionExpression changesCancerous stateRisk genesRegulatorCell linesCoordinated manner
2012
Understanding transcriptional regulation by integrative analysis of transcription factor binding data
Cheng C, Alexander R, Min R, Leng J, Yip KY, Rozowsky J, Yan KK, Dong X, Djebali S, Ruan Y, Davis CA, Carninci P, Lassman T, Gingeras TR, Guigó R, Birney E, Weng Z, Snyder M, Gerstein M. Understanding transcriptional regulation by integrative analysis of transcription factor binding data. Genome Research 2012, 22: 1658-1667. PMID: 22955978, PMCID: PMC3431483, DOI: 10.1101/gr.136838.111.Peer-Reviewed Original ResearchConceptsTranscription start siteTranscriptional regulationCpG contentTranscription factor binding signalsAlternative transcription start sitesDownstream transcription start siteExpression levelsHigh CpG contentLow CpG contentChromatin featuresHistone modificationsTF bindingENCODE projectSpecific TFsTranscription factorsStart siteGene expressionIntegrative analysisDifferential expressionCell linesCoordinated mannerBinding signalsExpressionRNA extractionRegulation
1987
Molecular Organization of the Cell Membrane in Normal and Pathological Axons: Relation to Glial Contact
Waxman S. Molecular Organization of the Cell Membrane in Normal and Pathological Axons: Relation to Glial Contact. NATO ASI Series 1987, 709-736. DOI: 10.1007/978-3-642-71381-1_43.Peer-Reviewed Original ResearchCell membraneMolecular organizationMolecular differentiationCell recognition moleculesVoltage-sensitive sodium channelsVoltage-sensitive potassium channelsIon channel organizationIon channel populationsCell typesAdult mammalsRecognition moleculesCoordinated mannerMyelin-forming cellsPotassium channelsChannel populationsGlial cellsMembraneSodium channelsDifferentiationCellsRecent studiesAxon membraneChannel organizationGlial contactMammals
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