ATF2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF2.H12INVIVO.0.PSM.A
Gene (human)	ATF2 (GeneCards)
Gene synonyms (human)	CREB2, CREBP1
Gene (mouse)	Atf2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nRTGAYGTCAY
GC content	44.69%
Information content (bits; total / per base)	15.126 / 1.375
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	981

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	5 (35)	0.984	0.996	0.946	0.984	0.992	0.999	6.699	7.875	811.237	1230.921
Mouse	2 (12)	0.84	0.905	0.772	0.863	0.816	0.884	3.437	4.197	228.974	288.553

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.978	0.965	0.942	0.922	0.848	0.834
Overall, 4 experiments	best	0.997	0.995	0.989	0.985	0.929	0.924
Methyl HT-SELEX, 2 experiments	median	0.991	0.985	0.971	0.961	0.894	0.886
Methyl HT-SELEX, 2 experiments	best	0.997	0.995	0.989	0.985	0.929	0.924
Non-Methyl HT-SELEX, 2 experiments	median	0.959	0.936	0.916	0.886	0.824	0.803
Non-Methyl HT-SELEX, 2 experiments	best	0.971	0.954	0.93	0.906	0.836	0.819

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	28.563	57.113	0.341	0.343

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.836	0.58	0.876	0.604
batch 2	0.842	0.717	0.866	0.654

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	Jun-related {1.1.1} (TFClass)
TF subfamily	ATF2 {1.1.1.3} (TFClass)
TFClass ID	TFClass: 1.1.1.3.1
HGNC	HGNC:784
MGI	MGI:109349
EntrezGene (human)	GeneID:1386 (SSTAR profile)
EntrezGene (mouse)	GeneID:11909 (SSTAR profile)
UniProt ID (human)	ATF2_HUMAN
UniProt ID (mouse)	ATF2_MOUSE
UniProt AC (human)	P15336 (TFClass)
UniProt AC (mouse)	P16951 (TFClass)
GRECO-DB-TF	yes

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

PCM	ATF2.H12INVIVO.0.PSM.A.pcm
PWM	ATF2.H12INVIVO.0.PSM.A.pwm
PFM	ATF2.H12INVIVO.0.PSM.A.pfm
Alignment	ATF2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	ATF2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	ATF2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	ATF2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	ATF2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	ATF2.H12INVIVO.0.PSM.A_homer_format_0.001.txt ATF2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt ATF2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	288.0	85.0	523.0	85.0
02	638.0	9.0	329.0	5.0
03	3.0	1.0	2.0	975.0
04	1.0	1.0	970.0	9.0
05	972.0	1.0	1.0	7.0
06	1.0	643.0	35.0	302.0
07	1.0	3.0	976.0	1.0
08	6.0	12.0	2.0	961.0
09	198.0	772.0	7.0	4.0
10	949.0	3.0	16.0	13.0
11	29.0	264.0	168.0	520.0

PFM

	A	C	G	T
01	0.294	0.087	0.533	0.087
02	0.65	0.009	0.335	0.005
03	0.003	0.001	0.002	0.994
04	0.001	0.001	0.989	0.009
05	0.991	0.001	0.001	0.007
06	0.001	0.655	0.036	0.308
07	0.001	0.003	0.995	0.001
08	0.006	0.012	0.002	0.98
09	0.202	0.787	0.007	0.004
10	0.967	0.003	0.016	0.013
11	0.03	0.269	0.171	0.53

PWM

	A	C	G	T
01	0.16	-1.047	0.754	-1.047
02	0.952	-3.137	0.292	-3.604
03	-3.957	-4.508	-4.195	1.375
04	-4.508	-4.508	1.37	-3.137
05	1.372	-4.508	-4.508	-3.343
06	-4.508	0.96	-1.906	0.207
07	-4.508	-3.957	1.376	-4.508
08	-3.465	-2.89	-4.195	1.36
09	-0.212	1.142	-3.343	-3.765
10	1.348	-3.957	-2.634	-2.82
11	-2.084	0.073	-0.375	0.748

Standard thresholds

P-value	Threshold
0.001	1.925425
0.0005	3.445525
0.0001	6.212805