PO5F1.H12RSNP.2.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PO5F1.H12RSNP.2.SM.D
Gene (human)	POU5F1 (GeneCards)
Gene synonyms (human)	OCT3, OCT4, OTF3
Gene (mouse)	Pou5f1
Gene synonyms (mouse)	Oct-3, Oct-4, Otf-3, Otf3
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	D

Motif length	17
Consensus	vdWTATGCTAATKARbn
GC content	30.29%
Information content (bits; total / per base)	21.397 / 1.259
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8781

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	27 (161)	0.688	0.785	0.553	0.689	0.728	0.846	2.316	3.194	42.398	98.658
Mouse	124 (789)	0.676	0.769	0.538	0.672	0.707	0.808	2.167	3.211	47.678	176.569

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	1.0	1.0	1.0	1.0	0.971	0.975
Overall, 2 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0
Methyl HT-SELEX, 1 experiments	median	1.0	1.0	1.0	1.0	0.942	0.949
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	1.0	1.0	0.942	0.949
Non-Methyl HT-SELEX, 1 experiments	median	1.0	1.0	1.0	1.0	1.0	1.0
Non-Methyl HT-SELEX, 1 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	POU {3.1.10} (TFClass)
TF subfamily	POU5 {3.1.10.5} (TFClass)
TFClass ID	TFClass: 3.1.10.5.1
HGNC	HGNC:9221
MGI	MGI:101893
EntrezGene (human)	GeneID:5460 (SSTAR profile)
EntrezGene (mouse)	GeneID:18999 (SSTAR profile)
UniProt ID (human)	PO5F1_HUMAN
UniProt ID (mouse)	PO5F1_MOUSE
UniProt AC (human)	Q01860 (TFClass)
UniProt AC (mouse)	P20263 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	27 human, 124 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	PO5F1.H12RSNP.2.SM.D.pcm
PWM	PO5F1.H12RSNP.2.SM.D.pwm
PFM	PO5F1.H12RSNP.2.SM.D.pfm
Alignment	PO5F1.H12RSNP.2.SM.D.words.tsv
Threshold to P-value map	PO5F1.H12RSNP.2.SM.D.thr
Motif in other formats
JASPAR format	PO5F1.H12RSNP.2.SM.D_jaspar_format.txt
MEME format	PO5F1.H12RSNP.2.SM.D_meme_format.meme
Transfac format	PO5F1.H12RSNP.2.SM.D_transfac_format.txt
Homer format	PO5F1.H12RSNP.2.SM.D_homer_format_0.001.txt PO5F1.H12RSNP.2.SM.D_homer_format_0.0005.txt PO5F1.H12RSNP.2.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3145.75	2016.75	2600.75	1017.75
02	4565.5	1044.5	1781.5	1389.5
03	1494.0	36.0	521.0	6730.0
04	1.0	4.0	2.0	8774.0
05	8778.0	2.0	1.0	0.0
06	5.0	0.0	10.0	8766.0
07	0.0	15.0	8766.0	0.0
08	12.0	7548.0	0.0	1221.0
09	1709.0	0.0	4.0	7068.0
10	8775.0	1.0	2.0	3.0
11	8780.0	0.0	0.0	1.0
12	0.0	1.0	0.0	8780.0
13	4.0	12.0	3698.0	5067.0
14	7983.0	55.0	399.0	344.0
15	3617.0	645.0	4290.0	229.0
16	397.0	2150.0	4565.0	1669.0
17	1102.0	2607.0	2438.0	2634.0

PFM

	A	C	G	T
01	0.358	0.23	0.296	0.116
02	0.52	0.119	0.203	0.158
03	0.17	0.004	0.059	0.766
04	0.0	0.0	0.0	0.999
05	1.0	0.0	0.0	0.0
06	0.001	0.0	0.001	0.998
07	0.0	0.002	0.998	0.0
08	0.001	0.86	0.0	0.139
09	0.195	0.0	0.0	0.805
10	0.999	0.0	0.0	0.0
11	1.0	0.0	0.0	0.0
12	0.0	0.0	0.0	1.0
13	0.0	0.001	0.421	0.577
14	0.909	0.006	0.045	0.039
15	0.412	0.073	0.489	0.026
16	0.045	0.245	0.52	0.19
17	0.125	0.297	0.278	0.3

PWM

	A	C	G	T
01	0.359	-0.085	0.169	-0.768
02	0.732	-0.742	-0.209	-0.457
03	-0.384	-4.05	-1.435	1.12
04	-6.51	-5.859	-6.243	1.385
05	1.385	-6.243	-6.51	-6.875
06	-5.711	-6.875	-5.188	1.384
07	-6.875	-4.846	1.384	-6.875
08	-5.037	1.234	-6.875	-0.586
09	-0.25	-6.875	-5.859	1.169
10	1.385	-6.51	-6.243	-6.033
11	1.385	-6.875	-6.875	-6.51
12	-6.875	-6.51	-6.875	1.385
13	-5.859	-5.037	0.521	0.836
14	1.29	-3.647	-1.7	-1.848
15	0.499	-1.222	0.669	-2.251
16	-1.705	-0.021	0.732	-0.274
17	-0.688	0.172	0.105	0.182

Standard thresholds

P-value	Threshold
0.001	-6.79589
0.0005	-4.49259
0.0001	0.32606