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Some facts about MatInspector's matrix library


Rel. 11.3
Jan 2021
Rel. 11.2
Jan 2020
Rel. 11.1
Feb 2019
Rel. 11.0
Sep 2017
Rel. 10.0
Oct 2016
Rel. 9.4
Nov 2015
Rel. 9.3
Mar 2015
Rel. 9.2
Oct 2014
Rel. 9.1
Sep 2013
Rel. 9.0
Aug 2012
# matrices 2,181 2,142 2,071 2,029 1,679 1,601 1,578 1,574 1,424 1,381
# families 542 532 500 482 456 447 444 440 418 411
# TFs described 12,700 12,430 12,164 11,634 10,892 10,733 10,947 9,780 10,120 9,367

The current matrix library (Matrix Family Library Version 11.3) contains 2,181 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 157 68 --- ---
Insects 92 52 --- ---
Plants 627 122 431 323
Vertebrates 1,266 272 --- ---
Miscellaneous 21 17 --- ---
General Core Promoter Elements 18 11 --- ---
Total 2,181 542431 323

The vertebrate group represents binding site descriptions of 11,001 transcription factors. The plant group represents binding site descriptions of 1,213 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.