FIRE

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Clustered stress microarray dataset (Gasch et al, 2000)

Summary

FIRE has discovered 23 motifs from the query data, consisting of 17 from DNA and 6 from RNA.

Combined DNA and RNA results

Figures
FIRE p-value matrix PDF PNG EPS
FIRE density matrix PDF PNG EPS
FIRE motif interaction matrix PDF PNG EPS
Motif maps
Motif Location    Position   
bias		 Orientation
bias		 Maps
[CGT]CTCATC[GT][AC]5'Y PDF PNG EPS
.UGUA[ACU]AUA3'UTRYY PDF PNG EPS
.CCCCT.[AGT][ACT]5'Y PDF PNG EPS
A[CT]CC[AG]T[AG]C[AC]5'YY PDF PNG EPS
.AAAAATT[CGT]5'Y PDF PNG EPS
[AT]T[CT]GCCAC[CT]5'Y PDF PNG EPS
.UGUA[CU][AU][ACU]U3'UTRYY PDF PNG EPS
.C[CGT]CCG[CG].[CGT]5'Y PDF PNG EPS
.[AT]CGCGT[CT][AGT]5' PDF PNG EPS
[AG]CCAAT[CG][AG].5'YY PDF PNG EPS
[CGT]GCA[CG][ACG]G[AC].5' PDF PNG EPS
.U[ACG][GU]AAUU[AGU]3'UTRYY PDF PNG EPS
.UU[AU]AUUU[AU]3'UTRY PDF PNG EPS
.[CT]CTCGA[AG][CG]5' PDF PNG EPS
[ACG][AC]CG[ACG]GCG[ACT]5' PDF PNG EPS
[AGT]TGACTC[AC][CGT]5'YY PDF PNG EPS
[ACG]C[AGT]CGTGA[ACG]5'Y PDF PNG EPS
[CGT]C[AC][AG][CG]GGC[ACG]5' PDF PNG EPS
[AU]UAUAUUC.3'UTRY PDF PNG EPS
.T[CT]AAT[CT]C[ACT]5' PDF PNG EPS
[CGU]U[AU][AG]CG[AU]A[ACU]3'UTRY PDF PNG EPS
[CT]TTTTCG[ACG].5' PDF PNG EPS
.C[AG][CG]GTAA.5' PDF PNG EPS
Combined motif maps for co-localizing motifs
Motif 1 Motif 2   Location   Maps
[CGT]CTCATC[GT][AC].AAAAATT[CGT]5' PDF PNG EPS
[AT]T[CT]GCCAC[CT].C[AG][CG]GTAA.5' PDF PNG EPS
[AG]CCAAT[CG][AG].[ACG][AC]CG[ACG]GCG[ACT]5' PDF PNG EPS
.UGUA[CU][AU][ACU]U.U[ACG][GU]AAUU[AGU]3'UTR PDF PNG EPS
.C[CGT]CCG[CG].[CGT][AG]CCAAT[CG][AG].5' PDF PNG EPS

Additional information for DNA motifs

Best GO enrichments for motifs
All GO enrichments for motifs
All motif occurrences of motifs predicted by FIRE, sorted by putative functionality

Additional information for RNA motifs

Best GO enrichments for motifs
All GO enrichments for motifs
All motif occurrences of motifs predicted by FIRE, sorted by putative functionality

Reference

FIRE is a motif discovery and characterization program based on mutual information.