CEBPD.H13INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	CEBPD.H13INVITRO.1.SM.B
Gene (human)	CEBPD (GeneCards)
Gene synonyms (human)
Gene (mouse)	Cebpd
Gene synonyms (mouse)	Crp3
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	12
Consensus	nRTTGCGYAAbn
GC content	47.51%
Information content (bits; total / per base)	15.101 / 1.258
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	5817
Previous names	CEBPD.H12INVITRO.1.SM.B

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)	0.793	0.901	0.758	0.876	0.811	0.949	3.016	3.872	341.756	725.481
Mouse	7 (49)	0.812	0.829	0.791	0.813	0.898	0.916	3.194	3.351	405.444	506.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.996	0.993	0.993	0.989	0.964	0.96
Overall, 4 experiments	best	0.997	0.996	0.994	0.992	0.988	0.983
Methyl HT-SELEX, 1 experiments	median	0.997	0.995	0.994	0.991	0.988	0.983
Methyl HT-SELEX, 1 experiments	best	0.997	0.995	0.994	0.991	0.988	0.983
Non-Methyl HT-SELEX, 3 experiments	median	0.995	0.992	0.992	0.987	0.946	0.945
Non-Methyl HT-SELEX, 3 experiments	best	0.997	0.996	0.994	0.992	0.983	0.976

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

PCM	CEBPD.H13INVITRO.1.SM.B.pcm
PWM	CEBPD.H13INVITRO.1.SM.B.pwm
PFM	CEBPD.H13INVITRO.1.SM.B.pfm
Threshold to P-value map	CEBPD.H13INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	CEBPD.H13INVITRO.1.SM.B_jaspar_format.txt
MEME format	CEBPD.H13INVITRO.1.SM.B_meme_format.meme
Transfac format	CEBPD.H13INVITRO.1.SM.B_transfac_format.txt
Homer format	CEBPD.H13INVITRO.1.SM.B_homer_format_0.001.txt CEBPD.H13INVITRO.1.SM.B_homer_format_0.0005.txt CEBPD.H13INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	926.0	1350.0	1837.0	1704.0
02	3377.0	300.0	2140.0	0.0
03	0.0	0.0	0.0	5817.0
04	0.0	0.0	0.0	5817.0
05	28.0	0.0	5789.0	0.0
06	0.0	5817.0	0.0	0.0
07	17.0	0.0	5800.0	0.0
08	588.0	2339.0	0.0	2890.0
09	5054.0	763.0	0.0	0.0
10	5816.0	0.0	1.0	0.0
11	286.0	2308.0	1375.0	1848.0
12	1179.0	1473.0	1872.0	1293.0

PFM

	A	C	G	T
01	0.159	0.232	0.316	0.293
02	0.581	0.052	0.368	0.0
03	0.0	0.0	0.0	1.0
04	0.0	0.0	0.0	1.0
05	0.005	0.0	0.995	0.0
06	0.0	1.0	0.0	0.0
07	0.003	0.0	0.997	0.0
08	0.101	0.402	0.0	0.497
09	0.869	0.131	0.0	0.0
10	1.0	0.0	0.0	0.0
11	0.049	0.397	0.236	0.318
12	0.203	0.253	0.322	0.222

PWM

	A	C	G	T
01	-0.451	-0.074	0.233	0.158
02	0.842	-1.573	0.386	-6.51
03	-6.51	-6.51	-6.51	1.385
04	-6.51	-6.51	-6.51	1.385
05	-3.877	-6.51	1.38	-6.51
06	-6.51	1.385	-6.51	-6.51
07	-4.331	-6.51	1.382	-6.51
08	-0.903	0.475	-6.51	0.686
09	1.245	-0.644	-6.51	-6.51
10	1.385	-6.51	-6.131	-6.51
11	-1.62	0.461	-0.056	0.239
12	-0.209	0.013	0.252	-0.117

Standard thresholds

P-value	Threshold
0.001	-0.28989
0.0005	1.587765
0.0001	4.193195