Genomatix Software GmbH - GEMS Launcher

Some facts about MatInspector's matrix library

	Rel. 8.2 Jan 2010	Rel. 8.1 Jun 2009	Rel. 8.0 Dec 2008	Rel. 7.1 Jun 2008	Rel. 7.0 Oct 2007	Rel. 6.3 Mar 2007	Rel. 6.2 Oct 2006	Rel. 6.1 Jun 2006	Rel. 6.0 Nov 2005
# matrices	1166	1106	974	799	773	737	713	705	664
# families	386	364	325	314	306	301	296	294	284
# TFs described	6,814	6,448	5,967	5,372	4,707	3,744	3,298	3,297	2,069

The current matrix library (Matrix Family Library Version 8.2) contains 1166 weight matrices in six groups (transcription factor binding sites from species fungi, insects, plants, vertebrates, and miscellaneous as well as general core promoter elements).

Group	# matrices	# matrix families	# IUPACs	# IUPAC families
Fungi	149	67	---	---
Insects	88	50	---	---
Plants	165	72	431	323
Vertebrates	727	170	---	---
Miscellaneous	21	17	---	---
General Core Promoter Elements	16	10	---	---
Total	1166	386	431	323

The vertebrate group represents binding site descriptions of 5747 transcription factors. The plant group represents binding site descriptions of 927 transcription factors from several plant species. The fungi group represents binding site descriptions of 140 transcription factors from Saccharomyces cerevisiae and Schizosaccharomyces pombe.

For plants, a IUPAC library containing individual plant transcription factor binding sites is available in addition to the matrix library. The IUPAC library is based on PLACE). Identical and similar TF binding sites of PLACE have been grouped into IUPAC families and very unspecific binding sites (e.g. CANNTG) have been removed.