ATF4.H13INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF4.H13INVIVO.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	41.35%
Information content (bits; total / per base)	15.967 / 1.228
Data sources	ChIP-Seq
Aligned words	1000
Previous names	ATF4.H12INVIVO.0.P.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	7 (42)	0.983	0.994	0.972	0.987	0.981	0.995	5.804	6.915	775.757	1046.222
Mouse	2 (9)	0.95	0.985	0.933	0.978	0.922	0.978	4.345	5.137	537.409	726.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.752	0.716	0.647	0.63	0.578	0.58
Overall, 6 experiments	best	0.92	0.834	0.925	0.853	0.952	0.881
Methyl HT-SELEX, 1 experiments	median	0.92	0.834	0.92	0.853	0.83	0.791
Methyl HT-SELEX, 1 experiments	best	0.92	0.834	0.92	0.853	0.83	0.791
Non-Methyl HT-SELEX, 5 experiments	median	0.727	0.697	0.612	0.626	0.561	0.575
Non-Methyl HT-SELEX, 5 experiments	best	0.868	0.766	0.925	0.834	0.952	0.881

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	14.974	10.33	0.314	0.258

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

PCM	ATF4.H13INVIVO.0.P.B.pcm
PWM	ATF4.H13INVIVO.0.P.B.pwm
PFM	ATF4.H13INVIVO.0.P.B.pfm
Threshold to P-value map	ATF4.H13INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	ATF4.H13INVIVO.0.P.B_jaspar_format.txt
MEME format	ATF4.H13INVIVO.0.P.B_meme_format.meme
Transfac format	ATF4.H13INVIVO.0.P.B_transfac_format.txt
Homer format	ATF4.H13INVIVO.0.P.B_homer_format_0.001.txt ATF4.H13INVIVO.0.P.B_homer_format_0.0005.txt ATF4.H13INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	361.0	94.0	422.0	123.0
02	241.0	146.0	490.0	123.0
03	575.0	301.0	122.0	2.0
04	4.0	3.0	0.0	993.0
05	2.0	9.0	982.0	7.0
06	976.0	5.0	10.0	9.0
07	3.0	69.0	12.0	916.0
08	2.0	5.0	992.0	1.0
09	108.0	817.0	0.0	75.0
10	993.0	5.0	0.0	2.0
11	997.0	1.0	2.0	0.0
12	16.0	298.0	93.0	593.0
13	373.0	377.0	120.0	130.0

PFM

	A	C	G	T
01	0.361	0.094	0.422	0.123
02	0.241	0.146	0.49	0.123
03	0.575	0.301	0.122	0.002
04	0.004	0.003	0.0	0.993
05	0.002	0.009	0.982	0.007
06	0.976	0.005	0.01	0.009
07	0.003	0.069	0.012	0.916
08	0.002	0.005	0.992	0.001
09	0.108	0.817	0.0	0.075
10	0.993	0.005	0.0	0.002
11	0.997	0.001	0.002	0.0
12	0.016	0.298	0.093	0.593
13	0.373	0.377	0.12	0.13

PWM

	A	C	G	T
01	0.365	-0.967	0.521	-0.702
02	-0.036	-0.533	0.67	-0.702
03	0.829	0.184	-0.71	-4.213
04	-3.783	-3.975	-4.982	1.374
05	-4.213	-3.156	1.363	-3.362
06	1.357	-3.622	-3.066	-3.156
07	-3.975	-1.27	-2.909	1.294
08	-4.213	-3.622	1.373	-4.525
09	-0.83	1.179	-4.982	-1.188
10	1.374	-3.622	-4.982	-4.213
11	1.378	-4.525	-4.213	-4.982
12	-2.653	0.175	-0.977	0.86
13	0.398	0.408	-0.727	-0.648

Standard thresholds

P-value	Threshold
0.001	1.57691
0.0005	3.04841
0.0001	5.99698