CREB1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	CREB1.H12RSNP.0.PSM.A
Gene (human)	CREB1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Creb1
Gene synonyms (mouse)	Creb-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nRTGACGTMRb
GC content	50.79%
Information content (bits; total / per base)	14.179 / 1.289
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	5716

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	26 (166)	0.848	0.897	0.809	0.899	0.86	0.908	3.8	5.717	306.011	796.824
Mouse	25 (157)	0.843	0.929	0.811	0.91	0.869	0.949	3.88	4.82	199.409	521.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.98	0.97	0.966	0.948	0.905	0.889
Overall, 4 experiments	best	0.996	0.994	0.99	0.985	0.963	0.955
Methyl HT-SELEX, 2 experiments	median	0.965	0.952	0.92	0.898	0.816	0.804
Methyl HT-SELEX, 2 experiments	best	0.972	0.96	0.95	0.927	0.861	0.844
Non-Methyl HT-SELEX, 2 experiments	median	0.992	0.987	0.986	0.977	0.956	0.945
Non-Methyl HT-SELEX, 2 experiments	best	0.996	0.994	0.99	0.985	0.963	0.955

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	12.64	67.988	0.462	0.34

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.984	0.872	0.956	0.604
batch 2	0.805	0.687	0.818	0.584

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	CREB-related {1.1.7} (TFClass)
TF subfamily	CREB-like {1.1.7.1} (TFClass)
TFClass ID	TFClass: 1.1.7.1.1
HGNC	HGNC:2345
MGI	MGI:88494
EntrezGene (human)	GeneID:1385 (SSTAR profile)
EntrezGene (mouse)	GeneID:12912 (SSTAR profile)
UniProt ID (human)	CREB1_HUMAN
UniProt ID (mouse)	CREB1_MOUSE
UniProt AC (human)	P16220 (TFClass)
UniProt AC (mouse)	Q01147 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	26 human, 25 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	CREB1.H12RSNP.0.PSM.A.pcm
PWM	CREB1.H12RSNP.0.PSM.A.pwm
PFM	CREB1.H12RSNP.0.PSM.A.pfm
Alignment	CREB1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	CREB1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	CREB1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	CREB1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	CREB1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	CREB1.H12RSNP.0.PSM.A_homer_format_0.001.txt CREB1.H12RSNP.0.PSM.A_homer_format_0.0005.txt CREB1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1179.0	1876.0	1706.0	955.0
02	2980.0	60.0	2676.0	0.0
03	0.0	0.0	0.0	5716.0
04	0.0	0.0	5716.0	0.0
05	5716.0	0.0	0.0	0.0
06	0.0	5716.0	0.0	0.0
07	0.0	0.0	5716.0	0.0
08	0.0	32.0	0.0	5684.0
09	2635.0	2463.0	516.0	102.0
10	3730.25	325.25	1145.25	515.25
11	807.25	2135.25	1852.25	921.25

PFM

	A	C	G	T
01	0.206	0.328	0.298	0.167
02	0.521	0.01	0.468	0.0
03	0.0	0.0	0.0	1.0
04	0.0	0.0	1.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	1.0	0.0	0.0
07	0.0	0.0	1.0	0.0
08	0.0	0.006	0.0	0.994
09	0.461	0.431	0.09	0.018
10	0.653	0.057	0.2	0.09
11	0.141	0.374	0.324	0.161

PWM

	A	C	G	T
01	-0.192	0.272	0.177	-0.402
02	0.734	-3.136	0.627	-6.495
03	-6.495	-6.495	-6.495	1.385
04	-6.495	-6.495	1.385	-6.495
05	1.385	-6.495	-6.495	-6.495
06	-6.495	1.385	-6.495	-6.495
07	-6.495	-6.495	1.385	-6.495
08	-6.495	-3.735	-6.495	1.38
09	0.611	0.544	-1.016	-2.62
10	0.959	-1.475	-0.221	-1.017
11	-0.57	0.401	0.259	-0.438

Standard thresholds

P-value	Threshold
0.001	0.74402
0.0005	2.026735
0.0001	6.392685