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 1234 93 1037 1258 264 5 3348 5 76 7 3530 9 58 18 3521 25 518 1547 22 1535 138 9 3457 18 115 82 1862 1563 228 43 3279 72 110 134 3163 215 239 2226 402 755
Collection:
HOCOMOCO-12 (H12CORE)
HOCOMOCO-12 (H12RSNP)
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
