MACRO-APE
Compare two motifs
Find similar motif
Description
PERFECTOS-APE
rSNP TFBS annotation
Description
ChIPMunk
Motif discovery
Dinucleotide motif discovery
Description
Databases
HOCOMOCO – collection of TFBS motifs
EpiFactors – database for epigenetic regulators
ADASTRA – database of allele-specific TF binding sites
Contacts
Ticket number:
Toy examples for the
PCM
,
PWM
and
PPM
scanning.
Data model:
PWM
PCM
PPM
Query matrix:
>motif_1 0.308 -2.254 0.135 0.328 -1.227 -4.814 1.305 -4.908 -2.443 -4.648 1.358 -4.441 -2.717 -3.807 1.356 -3.504 -0.556 0.534 -3.614 0.527 -1.868 -4.381 1.337 -3.815 -2.045 -2.384 0.719 0.544 -1.373 -3.006 1.285 -2.502 -2.103 -1.894 1.249 -1.428 -1.327 0.898 -0.808 -0.181
Collection:
HOCOMOCO-12 (H12CORE)
HOCOMOCO-12 (H12RSNP)
HOCOMOCO-12 (H12RSNP-HQ)
HOCOMOCO-12 (H12INVIVO)
HOCOMOCO-12 (H12INVITRO)
HOCOMOCO-11 (human)
HOCOMOCO-11 (mouse)
JASPAR
HT-SELEX
SwissRegulon
HOMER
Advanced options:
[+]
Query background:
None: exact word counts
GC-content
Frequencies
GC-content:
A:
C:
G:
T:
*
P-value:
P-value boundary:
Lower
Upper
*
Similarity cutoff:
*
Minimal similarity to recalculate in precise mode:
Pseudocount:
Effective count:
Reset
Scan a collection for TFBS models (motifs) similar to a given query.
Click a field in the form on the left to get a hint
