ATF4.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF4.H12RSNP.0.P.B
Gene (human)	ATF4 (GeneCards)
Gene synonyms (human)	CREB2, TXREB
Gene (mouse)	Atf4
Gene synonyms (mouse)	Creb2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	dvMTGATGMAAYh
GC content	44.81%
Information content (bits; total / per base)	14.748 / 1.134
Data sources	ChIP-Seq
Aligned words	303

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	7 (42)	0.977	0.991	0.967	0.984	0.976	0.993	5.629	6.418	768.168	1027.602
Mouse	2 (9)	0.928	0.976	0.912	0.961	0.912	0.969	4.287	5.05	524.921	697.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.743	0.705	0.644	0.625	0.575	0.577
Overall, 6 experiments	best	0.923	0.836	0.921	0.854	0.943	0.859
Methyl HT-SELEX, 1 experiments	median	0.923	0.836	0.921	0.854	0.831	0.793
Methyl HT-SELEX, 1 experiments	best	0.923	0.836	0.921	0.854	0.831	0.793
Non-Methyl HT-SELEX, 5 experiments	median	0.723	0.693	0.611	0.623	0.56	0.574
Non-Methyl HT-SELEX, 5 experiments	best	0.834	0.73	0.909	0.803	0.943	0.859

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	15.332	10.481	0.328	0.272

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	ATF4-related {1.1.6} (TFClass)
TF subfamily	{1.1.6.0} (TFClass)
TFClass ID	TFClass: 1.1.6.0.1
HGNC	HGNC:786
MGI	MGI:88096
EntrezGene (human)	GeneID:468 (SSTAR profile)
EntrezGene (mouse)	GeneID:11911 (SSTAR profile)
UniProt ID (human)	ATF4_HUMAN
UniProt ID (mouse)	ATF4_MOUSE
UniProt AC (human)	P18848 (TFClass)
UniProt AC (mouse)	Q06507 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	7 human, 2 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	ATF4.H12RSNP.0.P.B.pcm
PWM	ATF4.H12RSNP.0.P.B.pwm
PFM	ATF4.H12RSNP.0.P.B.pfm
Alignment	ATF4.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	ATF4.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	ATF4.H12RSNP.0.P.B_jaspar_format.txt
MEME format	ATF4.H12RSNP.0.P.B_meme_format.meme
Transfac format	ATF4.H12RSNP.0.P.B_transfac_format.txt
Homer format	ATF4.H12RSNP.0.P.B_homer_format_0.001.txt ATF4.H12RSNP.0.P.B_homer_format_0.0005.txt ATF4.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	95.0	28.0	124.0	56.0
02	49.0	46.0	168.0	40.0
03	116.0	138.0	48.0	1.0
04	3.0	0.0	0.0	300.0
05	0.0	1.0	298.0	4.0
06	276.0	21.0	6.0	0.0
07	3.0	20.0	2.0	278.0
08	1.0	1.0	300.0	1.0
09	57.0	224.0	3.0	19.0
10	296.0	6.0	1.0	0.0
11	289.0	5.0	8.0	1.0
12	6.0	104.0	40.0	153.0
13	82.0	135.0	38.0	48.0

PFM

	A	C	G	T
01	0.314	0.092	0.409	0.185
02	0.162	0.152	0.554	0.132
03	0.383	0.455	0.158	0.003
04	0.01	0.0	0.0	0.99
05	0.0	0.003	0.983	0.013
06	0.911	0.069	0.02	0.0
07	0.01	0.066	0.007	0.917
08	0.003	0.003	0.99	0.003
09	0.188	0.739	0.01	0.063
10	0.977	0.02	0.003	0.0
11	0.954	0.017	0.026	0.003
12	0.02	0.343	0.132	0.505
13	0.271	0.446	0.125	0.158

PWM

	A	C	G	T
01	0.223	-0.964	0.486	-0.296
02	-0.426	-0.487	0.786	-0.622
03	0.42	0.591	-0.446	-3.459
04	-2.858	-3.99	-3.99	1.362
05	-3.99	-3.459	1.356	-2.654
06	1.279	-1.236	-2.341	-3.99
07	-2.858	-1.281	-3.114	1.287
08	-3.459	-3.459	1.362	-3.459
09	-0.278	1.072	-2.858	-1.329
10	1.349	-2.341	-3.459	-3.99
11	1.325	-2.485	-2.102	-3.459
12	-2.341	0.312	-0.622	0.694
13	0.078	0.57	-0.672	-0.446

Standard thresholds

P-value	Threshold
0.001	3.05786
0.0005	4.259465
0.0001	6.74257