TRANSFAC Publications

  • Kaplun A, Krull M, Lakshman K, Matys V, Lewicki B, Hogan J (2016) Establishing and validating regulatory regions for variant annotation and expression analysis. BMC Genomics 17 Suppl. 2:393. [Full text]

  • Wingender, E (2008) The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation. Brief. Bioinform. 9:326-332. [Abstract]

  • 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. (2006) TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes. Nuc Ac Res 34(Database issue):D108-110.  [Abstract]

  • Kel-Margoulis O, Matys V, Choi C, Reuter I, Krull M, Potapov, AP, Voss N, Liebich I, Kel A, Wingender E. (2005) "Databases on Gene Regulation." Chap. 11 in Information Processing And Living Systems. Singapore: World Scientific Publishing Co. Pte. Ltd. ISBN 978-1-86094-563-2.

  • Kel AE, Gößling E, Reuter I, Cheremushkin E, Kel-Margoulis OV, Wingender E. (2003) MATCH: A tool for searching transcription factor binding sites in DNA sequences. Nuc Ac Res 31:3576-3579.  [Abstract]

  • 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. (2003) TRANSFAC: transcriptional regulation, from patterns to profiles. Nuc Ac Res 31:374-378.  [Abstract]

  • Kloos DU, Choi C, Wingender E. (2002) The TGF-beta--Smad network: introducing bioinformatic tools. Trends Genet 18:96-103.  [Abstract]

  • Wingender E, Chen X, Fricke E, Geffers R, Hehl R, Liebich I, Krull M, Matys V, Michael H, Ohnhäuser R, Prüß M, Schacherer F, Thiele S, Urbach S. (2001) The TRANSFAC system on gene expression regulation. Nuc Ac Res 29:281-283.  [Abstract]

  • Wingender E, Chen X, Hehl R, Karas H, Liebich I, Matys V, Meinhardt T, Prüß M, Reuter I, Schacherer F. (2000) TRANSFAC: an integrated system for gene expression regulation. Nuc Ac Res 28:316-319.  [Abstract]

  • Heinemeyer T, Chen X, Karas H, Kel AE, Kel OV, Liebich I, Meinhardt T, Reuter I, Schacherer F, Wingender E. (1999) Expanding the TRANSFAC database towards an expert system of regulatory molecular mechanisms. Nuc Ac Res 27:318-322.  [Abstract]

  • Knüppel R, Dietze P, Lehnberg W, Frech K, Wingender E. (1994) TRANSFAC retrieval program: a network model database of eukaryotic transcription regulating sequences and proteins. J Comput Biol 1:191-198.  [Abstract]

  • Wingender E. (1988) Compilation of transcription regulating proteins. Nuc Ac Res 16:1879-1902.  [Abstract]



TRANSCompel Publications

  • Kel-Margoulis O, Kel AE, Reuter I, Deineko IV, Wingender E. (2002) TRANSCompel® - a database on composite regulatory elements in eukaryotic genes, Nucleic Acids Res 30:332-334. [Abstract]

  • Kel-Margoulis O, Deineko IV, Reuter I, Wingender E, Kel AE (2001) TRANSCompel® - a professional database on composite regulatory elements in eukaryotic genes. Proceedings of the German Conference on Bioinformatics GCB'01. Braunschweig, Germany, October 7-10, 185-187.

  • Kel-Margoulis OV, Romaschenko AG, Kolchanov NA, Wingender E, and Kel AE. (2000) COMPEL: a database on composite regulatory elements providing combinatorial transcriptional regulation. Nucleic Acids Res 28:311-315. [Abstract]

  • Kel-Margoulis OV, Kel AE, Frisch M, Romaschenko AG, Kolchanov NA, and Wingender E. (1998) COMPEL - a database on composite regulatory elements" Proceedings of the First International Conference on Bioinformatics of Genome Regulation and Structure, ICG, Novosibirsk, Vol. 1:54-57.

  • Heinemeyer T, Wingender E, Reuter I, Hermjakob H, Kel AE, Kel OV, Ignatieva EV, Ananko EA, Podkolodnaya OA, Kolpakov FA, Podkolodny NL, and Kolchanov NA. (1998) Databases on transcription regulation: TRANSFAC, TRRD and COMPEL. Nucleic Acids Res 26:362-367. [Abstract]

  • Kel OV, Kel AE, Romaschenko AG, Wingender E, and Kolchanov NA. (1997) Composite regulatory elements: classification and description in the COMPEL database. Mol Biol (Mosk). 31:498-512. [Abstract]

  • Wingender E, Kel AE, Kel OV, Karas H, Heinemeyer T, Dietze P, Knüppel R, Romaschenko AG, and Kolchanov NA. (1997) TRANSFAC, TRRD and COMPEL: Towards a federated database system on transcriptional regulation. Nucleic Acids Res 25:265-268 [Abstract]

  • Kel OV, Romaschenko AG, Kel AE, Wingender E, and Kolchanov NA. (1995) A compilation of composite regulatory elements affecting gene transcription in vertebrates. Nucleic Acids Res 23:4097-4103 [Abstract]
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