Matrix Family Library Version 6.2

Matrix Family Library Version 6.2 (October 2006) contains 713 weight matrices in 296 families classified into the following groups:

Fungi (47 matrices in 35 families)
Insects (43 matrices in 30 families)
Plants (136 matrices in 62 families)
Vertebrates (464 matrices in 151 families)
Miscellaneous (12 matrices in 11 families)
Other Functional Elements (11 matrices in 7 families)

The vertebrate group represents binding site descriptions of 2690 transcription factors:

The plant group represents binding site descriptions of 558 transcription factors from several plant species.

New weight matrices

Family	Family Information	Matrix Name	Matrix Information
V$GLIF	GLI zinc=finger family	V$GLI1.02	Glioma-associated oncogene homolog 1
		V$GLI2.01	GLI-Kruppel family member GLI2
		V$GLI3.01	GLI-Kruppel family member GLI3
V$GRHL	Grainyhead-like transcription factors	V$GRHL3.01	Grainyhead-like 3 (sister-of-mammalian grainyhead - SOM)
V$HOXF	Factors with moderate activity to homeo domain consensus sequence	V$PCE1.01	Photoreceptor conserved element 1
V$NF1F	Nuclear factor 1	V$NF1.03	Non-palindromic nuclear factor I binding sites
V$RXRF	RXR heterodimer binding sites	V$LXRE.02	Highly conserved DR1 element selected by LXRbeta/RXR heterodimers

Family	Family Information	Matrix Name	Matrix Information
I$DGLI	Drosophila GLI ortholog factors	I$CI.01	Drosophila GLI ortholog cubitus interruptus

The following weight matrices have been renamed because of the previously incorrect naming:

The following weight matrices have been replaced by better matrices: