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License: MIT License
Variational Auto Encoders for learning binding signatures of transcription factors
License: MIT License
There are some motifs that I could not find from jolma_selex_pwms_converted_all.meme that I would like to manually add. Where can I find PWM for motifs? I checked existing motifs' PWMs in jolma_selex_pwms_converted_all.meme to check if they match with HOMER PWMs but they don't. For example,
MOTIF
RUNX2_JOLMA
letter-probability matrix: alength= 4 w= 16 nsites= 1 E= 0
0.3274 0.1526 0.0999 0.4202
0.5230 0.0805 0.2794 0.1171
0.7760 0.0633 0.1316 0.0291
0.0121 0.9321 0.0388 0.0170
0.0104 0.9424 0.0313 0.0159
0.1641 0.0147 0.8016 0.0197
0.0123 0.9537 0.0099 0.0241
0.8497 0.0067 0.0347 0.1089
0.7364 0.0395 0.2000 0.0241
0.8122 0.0528 0.0974 0.0376
0.0565 0.8585 0.0669 0.0181
0.0430 0.8650 0.0407 0.0513
0.2151 0.0502 0.7016 0.0331
0.0554 0.8002 0.0622 0.0822
0.6446 0.0835 0.1859 0.0860
0.3991 0.1165 0.3222 0.1622
is different from
runx2.motif in HOMER motifs:
NWAACCACADNN RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer 7.672200 -948.877602 0 T:737.0(60.36%),B:143.0(9.82%),P:1e-412 Tpos:100.7,Tstd:46.4,Bpos:97.8,Bstd:80.1,StrandBias:0.0,Multiplicity:1.56
0.293 0.299 0.206 0.203
0.393 0.225 0.098 0.284
0.468 0.175 0.244 0.113
0.796 0.104 0.099 0.001
0.001 0.997 0.001 0.001
0.001 0.997 0.001 0.001
0.997 0.001 0.001 0.001
0.001 0.997 0.001 0.001
0.997 0.001 0.001 0.001
0.332 0.146 0.324 0.198
0.352 0.213 0.211 0.224
0.249 0.303 0.207 0.241
I am looking to manually add RUNX1 and RBPJ.
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