USF2.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	USF2.H12INVITRO.0.PSM.A
Gene (human)	USF2 (GeneCards)
Gene synonyms (human)	BHLHB12
Gene (mouse)	Usf2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	14
Consensus	nddGTCACGTGdbn
GC content	51.54%
Information content (bits; total / per base)	14.602 / 1.043
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9929

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	14 (93)	0.977	0.992	0.95	0.979	0.973	0.993	5.626	6.527	668.796	806.77
Mouse	5 (33)	0.968	0.991	0.945	0.977	0.971	0.994	5.946	6.632	478.585	869.208

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.999	0.999	0.997	0.996	0.95	0.953
Overall, 4 experiments	best	1.0	1.0	0.999	0.998	0.998	0.997
Methyl HT-SELEX, 2 experiments	median	0.999	0.999	0.998	0.997	0.951	0.954
Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.999	0.998	0.998	0.997
Non-Methyl HT-SELEX, 2 experiments	median	0.999	0.999	0.954	0.957	0.861	0.879
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	0.998	0.997	0.997	0.995

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.766	3.662	0.124	0.078

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.865	0.452	0.813	0.605

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	bHLH-ZIP {1.2.6} (TFClass)
TF subfamily	USF {1.2.6.2} (TFClass)
TFClass ID	TFClass: 1.2.6.2.2
HGNC	HGNC:12594
MGI	MGI:99961
EntrezGene (human)	GeneID:7392 (SSTAR profile)
EntrezGene (mouse)	GeneID:22282 (SSTAR profile)
UniProt ID (human)	USF2_HUMAN
UniProt ID (mouse)	USF2_MOUSE
UniProt AC (human)	Q15853 (TFClass)
UniProt AC (mouse)	Q64705 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	14 human, 5 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	USF2.H12INVITRO.0.PSM.A.pcm
PWM	USF2.H12INVITRO.0.PSM.A.pwm
PFM	USF2.H12INVITRO.0.PSM.A.pfm
Alignment	USF2.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	USF2.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	USF2.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	USF2.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	USF2.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	USF2.H12INVITRO.0.PSM.A_homer_format_0.001.txt USF2.H12INVITRO.0.PSM.A_homer_format_0.0005.txt USF2.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2193.5	2670.5	2631.5	2433.5
02	3167.5	1079.5	2515.5	3166.5
03	2203.0	1288.0	4761.0	1677.0
04	3136.0	86.0	6679.0	28.0
05	44.0	197.0	96.0	9592.0
06	0.0	9927.0	2.0	0.0
07	9929.0	0.0	0.0	0.0
08	0.0	9758.0	31.0	140.0
09	2901.0	57.0	6971.0	0.0
10	13.0	28.0	3.0	9885.0
11	7.0	2.0	9885.0	35.0
12	5551.0	1131.0	1841.0	1406.0
13	484.5	4193.5	1143.5	4107.5
14	2726.75	2627.75	2036.75	2537.75

PFM

	A	C	G	T
01	0.221	0.269	0.265	0.245
02	0.319	0.109	0.253	0.319
03	0.222	0.13	0.48	0.169
04	0.316	0.009	0.673	0.003
05	0.004	0.02	0.01	0.966
06	0.0	1.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.983	0.003	0.014
09	0.292	0.006	0.702	0.0
10	0.001	0.003	0.0	0.996
11	0.001	0.0	0.996	0.004
12	0.559	0.114	0.185	0.142
13	0.049	0.422	0.115	0.414
14	0.275	0.265	0.205	0.256

PWM

	A	C	G	T
01	-0.124	0.073	0.058	-0.02
02	0.244	-0.831	0.013	0.243
03	-0.119	-0.655	0.651	-0.392
04	0.234	-3.337	0.989	-4.407
05	-3.983	-2.523	-3.23	1.351
06	-6.985	1.385	-6.359	-6.985
07	1.386	-6.985	-6.985	-6.985
08	-6.985	1.368	-4.312	-2.86
09	0.156	-3.735	1.032	-6.985
10	-5.09	-4.407	-6.15	1.381
11	-5.588	-6.359	1.381	-4.199
12	0.804	-0.785	-0.299	-0.568
13	-1.63	0.524	-0.774	0.503
14	0.094	0.057	-0.198	0.022

Standard thresholds

P-value	Threshold
0.001	1.14441
0.0005	2.90086
0.0001	6.010365