Ab initio identification of putative human transcription factor binding sites by comparative genomics

doi:10.1186/1471-2105-6-110

BMC Bioinformatics
Volume 6

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Corà D
Herrmann C
Dieterich C
Di Cunto F
Provero P
Caselle M

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Herrmann C
Dieterich C
Di Cunto F
Provero P
Caselle M
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Research article

Ab initio identification of putative human transcription factor binding sites by comparative genomics

D Corà¹ , C Herrmann² , C Dieterich³ , F Di Cunto⁴ , P Provero⁴ and M Caselle¹

¹Dipartimento di Fisica Teorica dell'Università degli Studi di Torino and INFN, Via P. Giuria 1 – I 10125 Torino, Italy

²LGPD-IBDM, Université de la Méditerranée / CNRS, Campus de Luminy Case 907 – F-13288 Marseille Cedex 9, France

³Max-Planck-Institute for Molecular Genetics, Ihnestrasse 73 – D-14195 Berlin, Germany

⁴Dipartimento di Genetica, Biologia e Biochimica dell'Università di Torino, Via Santena 5 bis – I-10126 Torino, Italy

author email corresponding author email

BMC Bioinformatics 2005, 6:110doi:10.1186/1471-2105-6-110


Published:	2 May 2005

Additional files

Additional File 1:

The complete list of significant motif/GO term and motif/microarray time-point associations. The first column is the motif (to be considered coinciding with its reverse complement); the second column is the scoring matrix; the third is the type of filter ("GO" for Gene Ontology or "MA" for microarray); the fourth is the GO term or the microarray experiment; for GO terms, the fifth column contains the GO branch ("C": cellular component; "F": molecular function; "P": biological process); the sixth column is -log₁₀of the P-value of the test determining the significativit of the motif (Fisher's test for Gene Ontology, Kolmogorov-Smirnov for microarrays).

Format: TXT Size: 26KB Download file

Additional File 2:

The complete list of sets corresponding to the significant motifs. Each gene in each significant set is represented by its EnsEmbl ID.

Format: TXT Size: 615KB Download file