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Items: 26

1.

Pathways of aging: comparative analysis of gene signatures in replicative senescence and stress induced premature senescence.

Kural KC, Tandon N, Skoblov M, Kel-Margoulis OV, Baranova AV.

BMC Genomics. 2016 Dec 28;17(Suppl 14):1030. doi: 10.1186/s12864-016-3352-4.

2.

Multi-omics "upstream analysis" of regulatory genomic regions helps identifying targets against methotrexate resistance of colon cancer.

Kel AE, Stegmaier P, Valeev T, Koschmann J, Poroikov V, Kel-Margoulis OV, Wingender E.

EuPA Open Proteom. 2016 Sep 9;13:1-13. doi: 10.1016/j.euprot.2016.09.002. eCollection 2016 Dec.

3.

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.

4.

Building a knowledge base for systems pathology.

Michael H, Hogan J, Kel A, Kel-Margoulis O, Schacherer F, Voss N, Wingender E.

Brief Bioinform. 2008 Nov;9(6):518-31. doi: 10.1093/bib/bbn038. Epub 2008 Dec 10. Review.

PMID:
19073714
5.

ExPlain: finding upstream drug targets in disease gene regulatory networks.

Kel A, Voss N, Valeev T, Stegmaier P, Kel-Margoulis O, Wingender E.

SAR QSAR Environ Res. 2008;19(5-6):481-94. doi: 10.1080/10629360802083806.

PMID:
18853298
6.

TRANSPATH--a high quality database focused on signal transduction.

Choi C, Krull M, Kel A, Kel-Margoulis O, Pistor S, Potapov A, Voss N, Wingender E.

Comp Funct Genomics. 2004;5(2):163-8. doi: 10.1002/cfg.386.

7.

Identification of dominant signaling pathways from proteomics expression data.

Zubarev RA, Nielsen ML, Fung EM, Savitski MM, Kel-Margoulis O, Wingender E, Kel A.

J Proteomics. 2008 Apr 30;71(1):89-96. doi: 10.1016/j.jprot.2008.01.004. Epub 2008 Jan 17.

PMID:
18541477
8.

Integrating pathway data for systems pathology.

Wingender E, Hogan J, Schacherer F, Potapov AP, Kel-Margoulis O.

In Silico Biol. 2007;7(2 Suppl):S17-25.

PMID:
17822386
9.

Integrative content-driven concepts for bioinformatics "beyond the cell".

Wingender E, Crass T, Hogan JD, Kel AE, Kel-Margoulis OV, Potapov AP.

J Biosci. 2007 Jan;32(1):169-80. Erratum in: J Biosci. 2007 Jun;32(4):805.

10.

Beyond microarrays: find key transcription factors controlling signal transduction pathways.

Kel A, Voss N, Jauregui R, Kel-Margoulis O, Wingender E.

BMC Bioinformatics. 2006 Sep 6;7 Suppl 2:S13.

11.

Aberrant intestinal expression and allelic variants of mucin genes associated with inflammatory bowel disease.

Moehle C, Ackermann N, Langmann T, Aslanidis C, Kel A, Kel-Margoulis O, Schmitz-Madry A, Zahn A, Stremmel W, Schmitz G.

J Mol Med (Berl). 2006 Dec;84(12):1055-66. Epub 2006 Oct 21.

PMID:
17058067
12.

Composite Module Analyst: identification of transcription factor binding site combinations using genetic algorithm.

Waleev T, Shtokalo D, Konovalova T, Voss N, Cheremushkin E, Stegmaier P, Kel-Margoulis O, Wingender E, Kel A.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W541-5.

13.

Composite Module Analyst: a fitness-based tool for identification of transcription factor binding site combinations.

Kel A, Konovalova T, Waleev T, Cheremushkin E, Kel-Margoulis O, Wingender E.

Bioinformatics. 2006 May 15;22(10):1190-7. Epub 2006 Feb 10.

PMID:
16473870
14.

TRANSPATH: an information resource for storing and visualizing signaling pathways and their pathological aberrations.

Krull M, Pistor S, Voss N, Kel A, Reuter I, Kronenberg D, Michael H, Schwarzer K, Potapov A, Choi C, Kel-Margoulis O, Wingender E.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D546-51.

15.

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes.

Matys V, Kel-Margoulis OV, Fricke E, Liebich I, Land S, Barre-Dirrie A, Reuter I, Chekmenev D, Krull M, Hornischer K, Voss N, Stegmaier P, Lewicki-Potapov B, Saxel H, Kel AE, Wingender E.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D108-10.

16.

Consistent re-modeling of signaling pathways and its implementation in the TRANSPATH database.

Choi C, Crass T, Kel A, Kel-Margoulis O, Krull M, Pistor S, Potapov A, Voss N, Wingender E.

Genome Inform. 2004;15(2):244-54.

PMID:
15706510
17.

Composition-sensitive analysis of the human genome for regulatory signals.

Kel-Margoulis OV, Tchekmenev D, Kel AE, Goessling E, Hornischer K, Lewicki-Potapov B, Wingender E.

In Silico Biol. 2003;3(1-2):145-71. Epub 2003 Jun 27.

PMID:
12954097
18.

MATCH: A tool for searching transcription factor binding sites in DNA sequences.

Kel AE, Gössling E, Reuter I, Cheremushkin E, Kel-Margoulis OV, Wingender E.

Nucleic Acids Res. 2003 Jul 1;31(13):3576-9.

19.

TRANSFAC: transcriptional regulation, from patterns to profiles.

Matys V, Fricke E, Geffers R, Gössling E, Haubrock M, Hehl R, Hornischer K, Karas D, Kel AE, Kel-Margoulis OV, Kloos DU, Land S, Lewicki-Potapov B, Michael H, Münch R, Reuter I, Rotert S, Saxel H, Scheer M, Thiele S, Wingender E.

Nucleic Acids Res. 2003 Jan 1;31(1):374-8.

20.

Automatic annotation of genomic regulatory sequences by searching for composite clusters.

Kel-Margoulis OV, Ivanova TG, Wingender E, Kel AE.

Pac Symp Biocomput. 2002:187-98.

21.

TRANSCompel: a database on composite regulatory elements in eukaryotic genes.

Kel-Margoulis OV, Kel AE, Reuter I, Deineko IV, Wingender E.

Nucleic Acids Res. 2002 Jan 1;30(1):332-4.

22.

Computer-assisted identification of cell cycle-related genes: new targets for E2F transcription factors.

Kel AE, Kel-Margoulis OV, Farnham PJ, Bartley SM, Wingender E, Zhang MQ.

J Mol Biol. 2001 May 25;309(1):99-120.

PMID:
11491305
23.

COMPEL: a database on composite regulatory elements providing combinatorial transcriptional regulation.

Kel-Margoulis OV, Romashchenko AG, Kolchanov NA, Wingender E, Kel AE.

Nucleic Acids Res. 2000 Jan 1;28(1):311-5.

24.

Transcription regulatory regions database (TRRD): its status in 2000.

Kolchanov NA, Podkolodnaya OA, Ananko EA, Ignatieva EV, Stepanenko IL, Kel-Margoulis OV, Kel AE, Merkulova TI, Goryachkovskaya TN, Busygina TV, Kolpakov FA, Podkolodny NL, Naumochkin AN, Korostishevskaya IM, Romashchenko AG, Overton GC.

Nucleic Acids Res. 2000 Jan 1;28(1):298-301.

25.

Recognition of NFATp/AP-1 composite elements within genes induced upon the activation of immune cells.

Kel A, Kel-Margoulis O, Babenko V, Wingender E.

J Mol Biol. 1999 May 7;288(3):353-76.

PMID:
10329147
26.

Transcription Regulatory Regions Database (TRRD):its status in 1999.

Kolchanov NA, Ananko EA, Podkolodnaya OA, Ignatieva EV, Stepanenko IL, Kel-Margoulis OV, Kel AE, Merkulova TI, Goryachkovskaya TN, Busygina TV, Kolpakov FA, Podkolodny NL, Naumochkin AN, Romashchenko AG.

Nucleic Acids Res. 1999 Jan 1;27(1):303-6.

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