ATF4.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF4.H12INVITRO.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	dvMTGATGCAAYh
GC content	39.38%
Information content (bits; total / per base)	17.435 / 1.341
Data sources	ChIP-Seq
Aligned words	1000

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)	0.979	0.995	0.969	0.988	0.98	0.995	5.757	6.976	768.56	1049.745
Mouse	2 (9)	0.927	0.981	0.914	0.974	0.916	0.977	4.254	5.095	533.678	708.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.761	0.719	0.651	0.635	0.583	0.584
Overall, 6 experiments	best	0.936	0.857	0.933	0.873	0.958	0.891
Methyl HT-SELEX, 1 experiments	median	0.936	0.857	0.933	0.873	0.841	0.808
Methyl HT-SELEX, 1 experiments	best	0.936	0.857	0.933	0.873	0.841	0.808
Non-Methyl HT-SELEX, 5 experiments	median	0.729	0.7	0.617	0.628	0.567	0.578
Non-Methyl HT-SELEX, 5 experiments	best	0.884	0.78	0.932	0.846	0.958	0.891

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	15.375	10.494	0.308	0.261

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.H12INVITRO.0.P.B.pcm
PWM	ATF4.H12INVITRO.0.P.B.pwm
PFM	ATF4.H12INVITRO.0.P.B.pfm
Alignment	ATF4.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	ATF4.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	ATF4.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	ATF4.H12INVITRO.0.P.B_meme_format.meme
Transfac format	ATF4.H12INVITRO.0.P.B_transfac_format.txt
Homer format	ATF4.H12INVITRO.0.P.B_homer_format_0.001.txt ATF4.H12INVITRO.0.P.B_homer_format_0.0005.txt ATF4.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	392.0	98.0	400.0	110.0
02	309.0	136.0	456.0	99.0
03	698.0	201.0	101.0	0.0
04	0.0	3.0	1.0	996.0
05	0.0	0.0	997.0	3.0
06	995.0	0.0	3.0	2.0
07	0.0	42.0	4.0	954.0
08	2.0	2.0	996.0	0.0
09	62.0	899.0	0.0	39.0
10	997.0	3.0	0.0	0.0
11	998.0	1.0	1.0	0.0
12	3.0	229.0	60.0	708.0
13	408.0	391.0	96.0	105.0

PFM

	A	C	G	T
01	0.392	0.098	0.4	0.11
02	0.309	0.136	0.456	0.099
03	0.698	0.201	0.101	0.0
04	0.0	0.003	0.001	0.996
05	0.0	0.0	0.997	0.003
06	0.995	0.0	0.003	0.002
07	0.0	0.042	0.004	0.954
08	0.002	0.002	0.996	0.0
09	0.062	0.899	0.0	0.039
10	0.997	0.003	0.0	0.0
11	0.998	0.001	0.001	0.0
12	0.003	0.229	0.06	0.708
13	0.408	0.391	0.096	0.105

PWM

	A	C	G	T
01	0.447	-0.926	0.467	-0.812
02	0.211	-0.603	0.598	-0.916
03	1.022	-0.216	-0.896	-4.982
04	-4.982	-3.975	-4.525	1.377
05	-4.982	-4.982	1.378	-3.975
06	1.376	-4.982	-3.975	-4.213
07	-4.982	-1.75	-3.783	1.334
08	-4.213	-4.213	1.377	-4.982
09	-1.374	1.275	-4.982	-1.821
10	1.378	-3.975	-4.982	-4.982
11	1.379	-4.525	-4.525	-4.982
12	-3.975	-0.087	-1.406	1.037
13	0.487	0.445	-0.946	-0.858

Standard thresholds

P-value	Threshold
0.001	0.115165
0.0005	1.71136
0.0001	5.153805