CEBPD.H12RSNP.1.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	CEBPD.H12RSNP.1.SM.D
Gene (human)	CEBPD (GeneCards)
Gene synonyms (human)
Gene (mouse)	Cebpd
Gene synonyms (mouse)	Crp3
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	13
Consensus	ndRTTGCGhAAbn
GC content	44.66%
Information content (bits; total / per base)	13.187 / 1.014
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9828

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	2 (14)	0.867	0.98	0.823	0.95	0.813	0.956	3.058	4.022	355.569	753.319
Mouse	7 (49)	0.966	0.972	0.926	0.943	0.904	0.921	3.261	3.419	423.481	530.481

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.996	0.992	0.993	0.989	0.963	0.958
Overall, 4 experiments	best	0.997	0.995	0.994	0.991	0.986	0.98
Methyl HT-SELEX, 1 experiments	median	0.997	0.994	0.994	0.991	0.986	0.98
Methyl HT-SELEX, 1 experiments	best	0.997	0.994	0.994	0.991	0.986	0.98
Non-Methyl HT-SELEX, 3 experiments	median	0.995	0.991	0.992	0.986	0.944	0.943
Non-Methyl HT-SELEX, 3 experiments	best	0.997	0.995	0.994	0.991	0.981	0.973

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	C/EBP-related {1.1.8} (TFClass)
TF subfamily	CEBP {1.1.8.1} (TFClass)
TFClass ID	TFClass: 1.1.8.1.4
HGNC	HGNC:1835
MGI	MGI:103573
EntrezGene (human)	GeneID:1052 (SSTAR profile)
EntrezGene (mouse)	GeneID:12609 (SSTAR profile)
UniProt ID (human)	CEBPD_HUMAN
UniProt ID (mouse)	CEBPD_MOUSE
UniProt AC (human)	P49716 (TFClass)
UniProt AC (mouse)	Q00322 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 7 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	CEBPD.H12RSNP.1.SM.D.pcm
PWM	CEBPD.H12RSNP.1.SM.D.pwm
PFM	CEBPD.H12RSNP.1.SM.D.pfm
Alignment	CEBPD.H12RSNP.1.SM.D.words.tsv
Threshold to P-value map	CEBPD.H12RSNP.1.SM.D.thr
Motif in other formats
JASPAR format	CEBPD.H12RSNP.1.SM.D_jaspar_format.txt
MEME format	CEBPD.H12RSNP.1.SM.D_meme_format.meme
Transfac format	CEBPD.H12RSNP.1.SM.D_transfac_format.txt
Homer format	CEBPD.H12RSNP.1.SM.D_homer_format_0.001.txt CEBPD.H12RSNP.1.SM.D_homer_format_0.0005.txt CEBPD.H12RSNP.1.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2388.25	2113.25	2997.25	2329.25
02	1702.75	1189.75	3422.75	3512.75
03	4817.0	633.0	4338.0	40.0
04	13.0	29.0	37.0	9749.0
05	31.0	10.0	26.0	9761.0
06	750.0	11.0	9027.0	40.0
07	31.0	9653.0	79.0	65.0
08	427.0	22.0	9292.0	87.0
09	1908.0	3110.0	150.0	4660.0
10	7952.0	1492.0	173.0	211.0
11	9256.0	110.0	216.0	246.0
12	528.5	2512.5	1825.5	4961.5
13	2431.0	2364.0	2227.0	2806.0

PFM

	A	C	G	T
01	0.243	0.215	0.305	0.237
02	0.173	0.121	0.348	0.357
03	0.49	0.064	0.441	0.004
04	0.001	0.003	0.004	0.992
05	0.003	0.001	0.003	0.993
06	0.076	0.001	0.918	0.004
07	0.003	0.982	0.008	0.007
08	0.043	0.002	0.945	0.009
09	0.194	0.316	0.015	0.474
10	0.809	0.152	0.018	0.021
11	0.942	0.011	0.022	0.025
12	0.054	0.256	0.186	0.505
13	0.247	0.241	0.227	0.286

PWM

	A	C	G	T
01	-0.028	-0.151	0.199	-0.053
02	-0.366	-0.724	0.331	0.357
03	0.673	-1.354	0.568	-4.063
04	-5.08	-4.364	-4.136	1.378
05	-4.302	-5.298	-4.465	1.379
06	-1.184	-5.22	1.301	-4.063
07	-4.302	1.368	-3.41	-3.598
08	-1.745	-4.617	1.33	-3.316
09	-0.253	0.235	-2.782	0.64
10	1.174	-0.498	-2.641	-2.445
11	1.326	-3.086	-2.422	-2.293
12	-1.533	0.022	-0.297	0.702
13	-0.011	-0.039	-0.098	0.133

Standard thresholds

P-value	Threshold
0.001	3.20441
0.0005	4.45581
0.0001	6.958035