NKX61.H12INVIVO.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX61.H12INVIVO.1.P.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	1
Quality	B

Motif length	8
Consensus	hTAATGRb
GC content	30.23%
Information content (bits; total / per base)	9.229 / 1.154
Data sources	ChIP-Seq
Aligned words	997

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)	0.755	0.813	0.585	0.687	0.685	0.789	1.694	2.223	62.854	123.721

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 6 experiments	median	0.861	0.815	0.775	0.739	0.667	0.66
Non-Methyl HT-SELEX, 6 experiments	best	0.983	0.974	0.96	0.944	0.931	0.906

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.1.P.B.pcm
PWM	NKX61.H12INVIVO.1.P.B.pwm
PFM	NKX61.H12INVIVO.1.P.B.pfm
Alignment	NKX61.H12INVIVO.1.P.B.words.tsv
Threshold to P-value map	NKX61.H12INVIVO.1.P.B.thr
Motif in other formats
JASPAR format	NKX61.H12INVIVO.1.P.B_jaspar_format.txt
MEME format	NKX61.H12INVIVO.1.P.B_meme_format.meme
Transfac format	NKX61.H12INVIVO.1.P.B_transfac_format.txt
Homer format	NKX61.H12INVIVO.1.P.B_homer_format_0.001.txt NKX61.H12INVIVO.1.P.B_homer_format_0.0005.txt NKX61.H12INVIVO.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	131.0	224.0	68.0	574.0
02	80.0	17.0	11.0	889.0
03	843.0	15.0	126.0	13.0
04	989.0	1.0	3.0	4.0
05	4.0	3.0	3.0	987.0
06	1.0	9.0	899.0	88.0
07	623.0	16.0	298.0	60.0
08	124.0	300.0	418.0	155.0

PFM

	A	C	G	T
01	0.131	0.225	0.068	0.576
02	0.08	0.017	0.011	0.892
03	0.846	0.015	0.126	0.013
04	0.992	0.001	0.003	0.004
05	0.004	0.003	0.003	0.99
06	0.001	0.009	0.902	0.088
07	0.625	0.016	0.299	0.06
08	0.124	0.301	0.419	0.155

PWM

	A	C	G	T
01	-0.637	-0.106	-1.281	0.83
02	-1.122	-2.595	-2.982	1.267
03	1.214	-2.708	-0.675	-2.836
04	1.373	-4.522	-3.972	-3.78
05	-3.78	-3.972	-3.972	1.371
06	-4.522	-3.153	1.278	-1.029
07	0.912	-2.65	0.178	-1.403
08	-0.691	0.184	0.514	-0.471

Standard thresholds

P-value	Threshold
0.001	4.98607
0.0005	5.930035
0.0001	7.533245