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Items: 1 to 20 of 133


TFClass: expanding the classification of human transcription factors to their mammalian orthologs.

Wingender E, Schoeps T, Haubrock M, Krull M, Dönitz J.

Nucleic Acids Res. 2018 Jan 4;46(D1):D343-D347. doi: 10.1093/nar/gkx987.


mirTrans: a resource of transcriptional regulation on microRNAs for human cell lines.

Hua X, Tang R, Xu X, Wang Z, Xu Q, Chen L, Wingender E, Li J, Zhang C, Wang J.

Nucleic Acids Res. 2018 Jan 4;46(D1):D168-D174. doi: 10.1093/nar/gkx996.


Defined Engineered Human Myocardium With Advanced Maturation for Applications in Heart Failure Modeling and Repair.

Tiburcy M, Hudson JE, Balfanz P, Schlick S, Meyer T, Chang Liao ML, Levent E, Raad F, Zeidler S, Wingender E, Riegler J, Wang M, Gold JD, Kehat I, Wettwer E, Ravens U, Dierickx P, van Laake LW, Goumans MJ, Khadjeh S, Toischer K, Hasenfuss G, Couture LA, Unger A, Linke WA, Araki T, Neel B, Keller G, Gepstein L, Wu JC, Zimmermann WH.

Circulation. 2017 May 9;135(19):1832-1847. doi: 10.1161/CIRCULATIONAHA.116.024145. Epub 2017 Feb 6.


NF-Y Binding Site Architecture Defines a C-Fos Targeted Promoter Class.

Haubrock M, Hartmann F, Wingender E.

PLoS One. 2016 Aug 12;11(8):e0160803. doi: 10.1371/journal.pone.0160803. eCollection 2016.


Editorial: Systems Biology of Transcription Regulation.

Shelest E, Wingender E.

Front Genet. 2016 Jul 6;7:124. doi: 10.3389/fgene.2016.00124. eCollection 2016. No abstract available.


Identifying cell-specific microRNA transcriptional start sites.

Hua X, Chen L, Wang J, Li J, Wingender E.

Bioinformatics. 2016 Aug 15;32(16):2403-10. doi: 10.1093/bioinformatics/btw171. Epub 2016 Apr 19.


Computational Identification of Key Regulators in Two Different Colorectal Cancer Cell Lines.

Wlochowitz D, Haubrock M, Arackal J, Bleckmann A, Wolff A, Beißbarth T, Wingender E, Gültas M.

Front Genet. 2016 Apr 5;7:42. doi: 10.3389/fgene.2016.00042. eCollection 2016.


Computational Detection of Stage-Specific Transcription Factor Clusters during Heart Development.

Zeidler S, Meckbach C, Tacke R, Raad FS, Roa A, Uchida S, Zimmermann WH, Wingender E, Gültas M.

Front Genet. 2016 Mar 23;7:33. doi: 10.3389/fgene.2016.00033. eCollection 2016.


PC-TraFF: identification of potentially collaborating transcription factors using pointwise mutual information.

Meckbach C, Tacke R, Hua X, Waack S, Wingender E, Gültas M.

BMC Bioinformatics. 2015 Dec 1;16:400. doi: 10.1186/s12859-015-0827-2.


Multiobjective triclustering of time-series transcriptome data reveals key genes of biological processes.

Bhar A, Haubrock M, Mukhopadhyay A, Wingender E.

BMC Bioinformatics. 2015 Jun 26;16:200. doi: 10.1186/s12859-015-0635-8.


"Upstream Analysis": An Integrated Promoter-Pathway Analysis Approach to Causal Interpretation of Microarray Data.

Koschmann J, Bhar A, Stegmaier P, Kel AE, Wingender E.

Microarrays (Basel). 2015 May 21;4(2):270-86. doi: 10.3390/microarrays4020270.


TFClass: a classification of human transcription factors and their rodent orthologs.

Wingender E, Schoeps T, Haubrock M, Dönitz J.

Nucleic Acids Res. 2015 Jan;43(Database issue):D97-102. doi: 10.1093/nar/gku1064. Epub 2014 Oct 31.


EndoNet: an information resource about the intercellular signaling network.

Dönitz J, Wingender E.

BMC Syst Biol. 2014 Apr 24;8:49. doi: 10.1186/1752-0509-8-49.


Quantum coupled mutation finder: predicting functionally or structurally important sites in proteins using quantum Jensen-Shannon divergence and CUDA programming.

Gültas M, Düzgün G, Herzog S, Jäger SJ, Meckbach C, Wingender E, Waack S.

BMC Bioinformatics. 2014 Apr 3;15:96. doi: 10.1186/1471-2105-15-96.


MatrixCatch--a novel tool for the recognition of composite regulatory elements in promoters.

Deyneko IV, Kel AE, Kel-Margoulis OV, Deineko EV, Wingender E, Weiss S.

BMC Bioinformatics. 2013 Aug 8;14:241. doi: 10.1186/1471-2105-14-241.


Connecting high-dimensional mRNA and miRNA expression data for binary medical classification problems.

Fuchs M, Beißbarth T, Wingender E, Jung K.

Comput Methods Programs Biomed. 2013 Sep;111(3):592-601. doi: 10.1016/j.cmpb.2013.05.013. Epub 2013 Jul 10.


A discriminative approach for unsupervised clustering of DNA sequence motifs.

Stegmaier P, Kel A, Wingender E, Borlak J.

PLoS Comput Biol. 2013;9(3):e1002958. doi: 10.1371/journal.pcbi.1002958. Epub 2013 Mar 21.


Coexpression and coregulation analysis of time-series gene expression data in estrogen-induced breast cancer cell.

Bhar A, Haubrock M, Mukhopadhyay A, Maulik U, Bandyopadhyay S, Wingender E.

Algorithms Mol Biol. 2013 Mar 23;8(1):9. doi: 10.1186/1748-7188-8-9.


Criteria for an updated classification of human transcription factor DNA-binding domains.

Wingender E.

J Bioinform Comput Biol. 2013 Feb;11(1):1340007. doi: 10.1142/S0219720013400076. Epub 2013 Jan 16.


Using potential master regulator sites and paralogous expansion to construct tissue-specific transcriptional networks.

Haubrock M, Li J, Wingender E.

BMC Syst Biol. 2012;6 Suppl 2:S15. doi: 10.1186/1752-0509-6-S2-S15. Epub 2012 Dec 12.

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