USF2.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	USF2.H12CORE.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	18
Consensus	nnnnndGTCACGTGvbvn
GC content	59.9%
Information content (bits; total / per base)	15.549 / 0.864
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	823

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)	0.984	0.995	0.966	0.988	0.978	0.994	6.069	6.92	695.638	847.215
Mouse	5 (33)	0.971	0.993	0.95	0.979	0.967	0.994	5.993	6.702	515.699	870.149

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.999	0.998	0.997	0.995	0.949	0.951
Overall, 4 experiments	best	0.999	0.999	0.998	0.997	0.997	0.995
Methyl HT-SELEX, 2 experiments	median	0.999	0.998	0.997	0.995	0.949	0.951
Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.998	0.997	0.997	0.995
Non-Methyl HT-SELEX, 2 experiments	median	0.999	0.998	0.954	0.957	0.862	0.879
Non-Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.998	0.997	0.997	0.995

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.678	3.672	0.173	0.12

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.928	0.589	0.847	0.62

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.H12CORE.0.PSM.A.pcm
PWM	USF2.H12CORE.0.PSM.A.pwm
PFM	USF2.H12CORE.0.PSM.A.pfm
Alignment	USF2.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	USF2.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	USF2.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	USF2.H12CORE.0.PSM.A_meme_format.meme
Transfac format	USF2.H12CORE.0.PSM.A_transfac_format.txt
Homer format	USF2.H12CORE.0.PSM.A_homer_format_0.001.txt USF2.H12CORE.0.PSM.A_homer_format_0.0005.txt USF2.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	174.0	202.0	295.0	152.0
02	152.0	243.0	258.0	170.0
03	129.0	270.0	238.0	186.0
04	136.0	274.0	239.0	174.0
05	165.0	222.0	291.0	145.0
06	257.0	65.0	362.0	139.0
07	84.0	10.0	728.0	1.0
08	6.0	10.0	13.0	794.0
09	0.0	823.0	0.0	0.0
10	820.0	0.0	1.0	2.0
11	1.0	781.0	7.0	34.0
12	70.0	1.0	752.0	0.0
13	3.0	1.0	2.0	817.0
14	0.0	0.0	822.0	1.0
15	388.0	95.0	272.0	68.0
16	39.0	348.0	167.0	269.0
17	112.0	379.0	247.0	85.0
18	198.0	247.0	208.0	170.0

PFM

	A	C	G	T
01	0.211	0.245	0.358	0.185
02	0.185	0.295	0.313	0.207
03	0.157	0.328	0.289	0.226
04	0.165	0.333	0.29	0.211
05	0.2	0.27	0.354	0.176
06	0.312	0.079	0.44	0.169
07	0.102	0.012	0.885	0.001
08	0.007	0.012	0.016	0.965
09	0.0	1.0	0.0	0.0
10	0.996	0.0	0.001	0.002
11	0.001	0.949	0.009	0.041
12	0.085	0.001	0.914	0.0
13	0.004	0.001	0.002	0.993
14	0.0	0.0	0.999	0.001
15	0.471	0.115	0.33	0.083
16	0.047	0.423	0.203	0.327
17	0.136	0.461	0.3	0.103
18	0.241	0.3	0.253	0.207

PWM

	A	C	G	T
01	-0.166	-0.018	0.358	-0.3
02	-0.3	0.165	0.225	-0.189
03	-0.462	0.27	0.145	-0.1
04	-0.41	0.284	0.149	-0.166
05	-0.219	0.075	0.344	-0.347
06	0.221	-1.135	0.561	-0.388
07	-0.884	-2.877	1.258	-4.35
08	-3.296	-2.877	-2.648	1.344
09	-4.817	1.38	-4.817	-4.817
10	1.377	-4.817	-4.35	-4.032
11	-4.35	1.328	-3.174	-1.76
12	-1.063	-4.35	1.29	-4.817
13	-3.792	-4.35	-4.032	1.373
14	-4.817	-4.817	1.379	-4.35
15	0.631	-0.763	0.277	-1.091
16	-1.629	0.522	-0.207	0.266
17	-0.601	0.607	0.181	-0.873
18	-0.038	0.181	0.011	-0.189

Standard thresholds

P-value	Threshold
0.001	1.83116
0.0005	3.30381
0.0001	6.17401