NKX61.H12INVIVO.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX61.H12INVIVO.2.S.B
Gene (human)	NKX6-1 (GeneCards)
Gene synonyms (human)	NKX6A
Gene (mouse)	Nkx6-1
Gene synonyms (mouse)	Nkx6.1, Nkx6a
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	14
Consensus	nnnnTTAATGASbn
GC content	31.79%
Information content (bits; total / per base)	13.534 / 0.967
Data sources	HT-SELEX
Aligned words	7785

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
Mouse	3 (19)	0.74	0.784	0.562	0.625	0.701	0.785	1.903	2.367	59.444	126.398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 6 experiments	median	0.906	0.868	0.799	0.774	0.671	0.677
Non-Methyl HT-SELEX, 6 experiments	best	0.982	0.969	0.972	0.955	0.947	0.925

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	NK6 {3.1.2.19} (TFClass)
TFClass ID	TFClass: 3.1.2.19.1
HGNC	HGNC:7839
MGI	MGI:1206039
EntrezGene (human)	GeneID:4825 (SSTAR profile)
EntrezGene (mouse)	GeneID:18096 (SSTAR profile)
UniProt ID (human)	NKX61_HUMAN
UniProt ID (mouse)	NKX61_MOUSE
UniProt AC (human)	P78426 (TFClass)
UniProt AC (mouse)	Q99MA9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	6
Methyl-HT-SELEX	0

PCM	NKX61.H12INVIVO.2.S.B.pcm
PWM	NKX61.H12INVIVO.2.S.B.pwm
PFM	NKX61.H12INVIVO.2.S.B.pfm
Alignment	NKX61.H12INVIVO.2.S.B.words.tsv
Threshold to P-value map	NKX61.H12INVIVO.2.S.B.thr
Motif in other formats
JASPAR format	NKX61.H12INVIVO.2.S.B_jaspar_format.txt
MEME format	NKX61.H12INVIVO.2.S.B_meme_format.meme
Transfac format	NKX61.H12INVIVO.2.S.B_transfac_format.txt
Homer format	NKX61.H12INVIVO.2.S.B_homer_format_0.001.txt NKX61.H12INVIVO.2.S.B_homer_format_0.0005.txt NKX61.H12INVIVO.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2278.75	1612.75	1970.75	1922.75
02	1433.5	2670.5	1429.5	2251.5
03	2748.0	2315.0	1422.0	1300.0
04	4655.0	878.0	1126.0	1126.0
05	365.0	92.0	197.0	7131.0
06	0.0	5.0	0.0	7780.0
07	7775.0	0.0	10.0	0.0
08	7785.0	0.0	0.0	0.0
09	1.0	0.0	0.0	7784.0
10	1.0	2.0	4430.0	3352.0
11	7395.0	0.0	388.0	2.0
12	103.0	4161.0	3001.0	520.0
13	823.5	3125.5	2390.5	1445.5
14	1741.75	2100.75	1325.75	2616.75

PFM

	A	C	G	T
01	0.293	0.207	0.253	0.247
02	0.184	0.343	0.184	0.289
03	0.353	0.297	0.183	0.167
04	0.598	0.113	0.145	0.145
05	0.047	0.012	0.025	0.916
06	0.0	0.001	0.0	0.999
07	0.999	0.0	0.001	0.0
08	1.0	0.0	0.0	0.0
09	0.0	0.0	0.0	1.0
10	0.0	0.0	0.569	0.431
11	0.95	0.0	0.05	0.0
12	0.013	0.534	0.385	0.067
13	0.106	0.401	0.307	0.186
14	0.224	0.27	0.17	0.336

PWM

	A	C	G	T
01	0.158	-0.188	0.012	-0.012
02	-0.305	0.316	-0.308	0.146
03	0.345	0.173	-0.313	-0.403
04	0.871	-0.795	-0.546	-0.546
05	-1.669	-3.029	-2.28	1.298
06	-6.768	-5.595	-6.768	1.385
07	1.384	-6.768	-5.07	-6.768
08	1.385	-6.768	-6.768	-6.768
09	-6.399	-6.768	-6.768	1.385
10	-6.399	-6.13	0.822	0.543
11	1.334	-6.768	-1.608	-6.13
12	-2.919	0.759	0.433	-1.317
13	-0.859	0.473	0.205	-0.297
14	-0.111	0.076	-0.383	0.296

Standard thresholds

P-value	Threshold
0.001	1.67901
0.0005	3.41786
0.0001	7.03872