GATA6.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA6.H12INVITRO.0.PSM.A
Gene (human)	GATA6 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata6
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	nWGATAASvhnn
GC content	37.08%
Information content (bits; total / per base)	11.705 / 0.975
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9697

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	29 (190)	0.924	0.97	0.844	0.931	0.913	0.951	3.138	3.797	174.318	415.886
Mouse	7 (47)	0.914	0.937	0.813	0.863	0.886	0.906	2.969	3.174	220.824	422.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.979	0.965	0.972	0.954	0.952	0.93
Overall, 2 experiments	best	0.986	0.976	0.979	0.965	0.963	0.945
Methyl HT-SELEX, 1 experiments	median	0.986	0.976	0.979	0.965	0.963	0.945
Methyl HT-SELEX, 1 experiments	best	0.986	0.976	0.979	0.965	0.963	0.945
Non-Methyl HT-SELEX, 1 experiments	median	0.972	0.953	0.966	0.942	0.941	0.915
Non-Methyl HT-SELEX, 1 experiments	best	0.972	0.953	0.966	0.942	0.941	0.915

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.983	1.997	0.469	0.233

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.701	0.389	0.747	0.574

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Other C4 zinc finger-type factors {2.2} (TFClass)
TF family	C4-GATA-related {2.2.1} (TFClass)
TF subfamily	GATA double {2.2.1.1} (TFClass)
TFClass ID	TFClass: 2.2.1.1.6
HGNC	HGNC:4174
MGI	MGI:107516
EntrezGene (human)	GeneID:2627 (SSTAR profile)
EntrezGene (mouse)	GeneID:14465 (SSTAR profile)
UniProt ID (human)	GATA6_HUMAN
UniProt ID (mouse)	GATA6_MOUSE
UniProt AC (human)	Q92908 (TFClass)
UniProt AC (mouse)	Q61169 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	29 human, 7 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	GATA6.H12INVITRO.0.PSM.A.pcm
PWM	GATA6.H12INVITRO.0.PSM.A.pwm
PFM	GATA6.H12INVITRO.0.PSM.A.pfm
Alignment	GATA6.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	GATA6.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA6.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	GATA6.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	GATA6.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	GATA6.H12INVITRO.0.PSM.A_homer_format_0.001.txt GATA6.H12INVITRO.0.PSM.A_homer_format_0.0005.txt GATA6.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2549.5	2958.5	2594.5	1594.5
02	5666.0	702.0	104.0	3225.0
03	0.0	6.0	9690.0	1.0
04	9693.0	1.0	2.0	1.0
05	0.0	1.0	0.0	9696.0
06	9551.0	95.0	0.0	51.0
07	9584.0	24.0	25.0	64.0
08	338.0	4194.0	4906.0	259.0
09	4070.0	1329.0	3947.0	351.0
10	2530.0	1855.0	1268.0	4044.0
11	1818.75	3330.75	1735.75	2811.75
12	2729.75	2498.75	1884.75	2583.75

PFM

	A	C	G	T
01	0.263	0.305	0.268	0.164
02	0.584	0.072	0.011	0.333
03	0.0	0.001	0.999	0.0
04	1.0	0.0	0.0	0.0
05	0.0	0.0	0.0	1.0
06	0.985	0.01	0.0	0.005
07	0.988	0.002	0.003	0.007
08	0.035	0.433	0.506	0.027
09	0.42	0.137	0.407	0.036
10	0.261	0.191	0.131	0.417
11	0.188	0.343	0.179	0.29
12	0.282	0.258	0.194	0.266

PWM

	A	C	G	T
01	0.05	0.199	0.068	-0.418
02	0.848	-1.237	-3.128	0.285
03	-6.964	-5.679	1.385	-6.602
04	1.385	-6.602	-6.337	-6.602
05	-6.964	-6.602	-6.964	1.385
06	1.37	-3.216	-6.964	-3.818
07	1.374	-4.525	-4.488	-3.6
08	-1.964	0.548	0.704	-2.229
09	0.518	-0.6	0.487	-1.927
10	0.043	-0.267	-0.647	0.511
11	-0.287	0.317	-0.334	0.148
12	0.119	0.03	-0.251	0.064

Standard thresholds

P-value	Threshold
0.001	3.30341
0.0005	4.86433
0.0001	8.009495