ATF4.H12INVIVO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF4.H12INVIVO.1.S.B
Gene (human)	ATF4 (GeneCards)
Gene synonyms (human)	CREB2, TXREB
Gene (mouse)	Atf4
Gene synonyms (mouse)	Creb2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	12
Consensus	nMTGAYGYAAYn
GC content	44.78%
Information content (bits; total / per base)	11.868 / 0.989
Data sources	HT-SELEX
Aligned words	1945

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	0.995	0.973	0.989	0.975	0.992	5.5	6.523	756.4	1028.347
Mouse	2 (9)	0.949	0.983	0.924	0.962	0.909	0.967	4.042	4.674	529.398	720.143

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.79	0.758	0.657	0.654	0.586	0.594
Overall, 6 experiments	best	0.959	0.902	0.973	0.931	0.982	0.952
Methyl HT-SELEX, 1 experiments	median	0.919	0.836	0.935	0.869	0.833	0.8
Methyl HT-SELEX, 1 experiments	best	0.919	0.836	0.935	0.869	0.833	0.8
Non-Methyl HT-SELEX, 5 experiments	median	0.72	0.732	0.608	0.623	0.561	0.574
Non-Methyl HT-SELEX, 5 experiments	best	0.959	0.902	0.973	0.931	0.982	0.952

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.14	4.983	0.269	0.199

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.H12INVIVO.1.S.B.pcm
PWM	ATF4.H12INVIVO.1.S.B.pwm
PFM	ATF4.H12INVIVO.1.S.B.pfm
Alignment	ATF4.H12INVIVO.1.S.B.words.tsv
Threshold to P-value map	ATF4.H12INVIVO.1.S.B.thr
Motif in other formats
JASPAR format	ATF4.H12INVIVO.1.S.B_jaspar_format.txt
MEME format	ATF4.H12INVIVO.1.S.B_meme_format.meme
Transfac format	ATF4.H12INVIVO.1.S.B_transfac_format.txt
Homer format	ATF4.H12INVIVO.1.S.B_homer_format_0.001.txt ATF4.H12INVIVO.1.S.B_homer_format_0.0005.txt ATF4.H12INVIVO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	395.75	515.75	667.75	365.75
02	1019.5	591.5	258.5	75.5
03	82.0	76.0	57.0	1730.0
04	88.0	64.0	1685.0	108.0
05	1839.0	39.0	25.0	42.0
06	4.0	1052.0	1.0	888.0
07	4.0	2.0	1936.0	3.0
08	73.0	1458.0	18.0	396.0
09	1785.0	63.0	52.0	45.0
10	1754.0	41.0	81.0	69.0
11	75.0	567.0	273.0	1030.0
12	691.75	570.75	356.75	325.75

PFM

	A	C	G	T
01	0.203	0.265	0.343	0.188
02	0.524	0.304	0.133	0.039
03	0.042	0.039	0.029	0.889
04	0.045	0.033	0.866	0.056
05	0.946	0.02	0.013	0.022
06	0.002	0.541	0.001	0.457
07	0.002	0.001	0.995	0.002
08	0.038	0.75	0.009	0.204
09	0.918	0.032	0.027	0.023
10	0.902	0.021	0.042	0.035
11	0.039	0.292	0.14	0.53
12	0.356	0.293	0.183	0.167

PWM

	A	C	G	T
01	-0.205	0.059	0.316	-0.283
02	0.738	0.195	-0.628	-1.842
03	-1.761	-1.835	-2.115	1.266
04	-1.692	-2.003	1.24	-1.491
05	1.327	-2.48	-2.899	-2.409
06	-4.417	0.77	-5.128	0.6
07	-4.417	-4.831	1.379	-4.603
08	-1.875	1.096	-3.2	-0.204
09	1.298	-2.018	-2.204	-2.343
10	1.28	-2.432	-1.773	-1.929
11	-1.848	0.153	-0.574	0.749
12	0.351	0.16	-0.308	-0.399

Standard thresholds

P-value	Threshold
0.001	4.10987
0.0005	5.124715
0.0001	7.20602