CREB1.H13INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	CREB1.H13INVIVO.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	ndRTGACGYvv
GC content	54.44%
Information content (bits; total / per base)	9.201 / 0.836
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	947
Previous names	CREB1.H12INVIVO.0.PSM.A

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)	0.918	0.98	0.86	0.96	0.876	0.935	3.76	5.565	365.741	753.77
Mouse	25 (157)	0.914	0.981	0.858	0.964	0.878	0.96	3.84	4.867	217.481	562.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.978	0.965	0.964	0.945	0.907	0.889
Overall, 4 experiments	best	0.993	0.99	0.984	0.977	0.952	0.941
Methyl HT-SELEX, 2 experiments	median	0.96	0.943	0.915	0.891	0.817	0.803
Methyl HT-SELEX, 2 experiments	best	0.968	0.953	0.95	0.925	0.872	0.851
Non-Methyl HT-SELEX, 2 experiments	median	0.99	0.983	0.981	0.971	0.947	0.934
Non-Methyl HT-SELEX, 2 experiments	best	0.993	0.99	0.984	0.977	0.952	0.941

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	10.227	59.122	0.443	0.322

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.971	0.807	0.924	0.533
batch 2	0.812	0.66	0.783	0.577

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	CREB1.H13INVIVO.0.PSM.A.pcm
PWM	CREB1.H13INVIVO.0.PSM.A.pwm
PFM	CREB1.H13INVIVO.0.PSM.A.pfm
Threshold to P-value map	CREB1.H13INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	CREB1.H13INVIVO.0.PSM.A_jaspar_format.txt
MEME format	CREB1.H13INVIVO.0.PSM.A_meme_format.meme
Transfac format	CREB1.H13INVIVO.0.PSM.A_transfac_format.txt
Homer format	CREB1.H13INVIVO.0.PSM.A_homer_format_0.001.txt CREB1.H13INVIVO.0.PSM.A_homer_format_0.0005.txt CREB1.H13INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	229.0	284.0	180.0	254.0
02	281.0	142.0	357.0	167.0
03	330.0	92.0	505.0	20.0
04	21.0	65.0	13.0	848.0
05	9.0	6.0	897.0	35.0
06	879.0	10.0	29.0	29.0
07	15.0	867.0	22.0	43.0
08	22.0	13.0	891.0	21.0
09	73.0	339.0	39.0	496.0
10	305.0	403.0	162.0	77.0
11	474.0	155.0	200.0	118.0

PFM

	A	C	G	T
01	0.242	0.3	0.19	0.268
02	0.297	0.15	0.377	0.176
03	0.348	0.097	0.533	0.021
04	0.022	0.069	0.014	0.895
05	0.01	0.006	0.947	0.037
06	0.928	0.011	0.031	0.031
07	0.016	0.916	0.023	0.045
08	0.023	0.014	0.941	0.022
09	0.077	0.358	0.041	0.524
10	0.322	0.426	0.171	0.081
11	0.501	0.164	0.211	0.125

PWM

	A	C	G	T
01	-0.033	0.181	-0.272	0.07
02	0.17	-0.506	0.408	-0.346
03	0.33	-0.934	0.754	-2.396
04	-2.351	-1.274	-2.785	1.271
05	-3.103	-3.431	1.327	-1.871
06	1.307	-3.013	-2.05	-2.05
07	-2.658	1.293	-2.308	-1.674
08	-2.308	-2.785	1.32	-2.351
09	-1.161	0.357	-1.768	0.736
10	0.252	0.529	-0.376	-1.108
11	0.691	-0.42	-0.167	-0.689

Standard thresholds

P-value	Threshold
0.001	4.828495
0.0005	5.60098
0.0001	7.5015