NKX61.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX61.H12INVITRO.0.PS.A
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	0
Quality	A

Motif length	20
Consensus	nhTAATTASbhhWWWWWdnn
GC content	22.7%
Information content (bits; total / per base)	16.089 / 0.804
Data sources	ChIP-Seq + HT-SELEX
Aligned words	740

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)	0.7	0.731	0.49	0.523	0.732	0.782	2.17	2.557	50.921	79.125

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 6 experiments	median	0.865	0.833	0.734	0.721	0.618	0.634
Non-Methyl HT-SELEX, 6 experiments	best	0.985	0.974	0.971	0.956	0.934	0.914

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.H12INVITRO.0.PS.A.pcm
PWM	NKX61.H12INVITRO.0.PS.A.pwm
PFM	NKX61.H12INVITRO.0.PS.A.pfm
Alignment	NKX61.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	NKX61.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	NKX61.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	NKX61.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	NKX61.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	NKX61.H12INVITRO.0.PS.A_homer_format_0.001.txt NKX61.H12INVITRO.0.PS.A_homer_format_0.0005.txt NKX61.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	191.75	163.75	150.75	233.75
02	106.0	112.0	99.0	423.0
03	0.0	6.0	0.0	734.0
04	724.0	6.0	4.0	6.0
05	740.0	0.0	0.0	0.0
06	0.0	0.0	0.0	740.0
07	10.0	0.0	214.0	516.0
08	620.0	2.0	118.0	0.0
09	50.0	401.0	244.0	45.0
10	80.0	278.0	159.0	223.0
11	114.0	147.0	71.0	408.0
12	219.0	120.0	24.0	377.0
13	268.0	31.0	22.0	419.0
14	340.0	14.0	6.0	380.0
15	440.0	8.0	6.0	286.0
16	372.0	4.0	2.0	362.0
17	267.0	7.0	62.0	404.0
18	325.0	34.0	125.0	256.0
19	224.75	152.75	185.75	176.75
20	166.5	198.5	181.5	193.5

PFM

	A	C	G	T
01	0.259	0.221	0.204	0.316
02	0.143	0.151	0.134	0.572
03	0.0	0.008	0.0	0.992
04	0.978	0.008	0.005	0.008
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.014	0.0	0.289	0.697
08	0.838	0.003	0.159	0.0
09	0.068	0.542	0.33	0.061
10	0.108	0.376	0.215	0.301
11	0.154	0.199	0.096	0.551
12	0.296	0.162	0.032	0.509
13	0.362	0.042	0.03	0.566
14	0.459	0.019	0.008	0.514
15	0.595	0.011	0.008	0.386
16	0.503	0.005	0.003	0.489
17	0.361	0.009	0.084	0.546
18	0.439	0.046	0.169	0.346
19	0.304	0.206	0.251	0.239
20	0.225	0.268	0.245	0.261

PWM

	A	C	G	T
01	0.036	-0.121	-0.203	0.232
02	-0.55	-0.496	-0.618	0.822
03	-4.727	-3.194	-4.727	1.372
04	1.358	-3.194	-3.497	-3.194
05	1.38	-4.727	-4.727	-4.727
06	-4.727	-4.727	-4.727	1.38
07	-2.774	-4.727	0.144	1.02
08	1.203	-3.934	-0.445	-4.727
09	-1.285	0.769	0.275	-1.387
10	-0.827	0.404	-0.15	0.185
11	-0.479	-0.228	-0.944	0.786
12	0.167	-0.428	-1.985	0.707
13	0.368	-1.743	-2.066	0.813
14	0.605	-2.479	-3.194	0.715
15	0.861	-2.962	-3.194	0.433
16	0.694	-3.497	-3.934	0.667
17	0.364	-3.071	-1.076	0.776
18	0.56	-1.655	-0.388	0.322
19	0.193	-0.19	0.004	-0.045
20	-0.104	0.07	-0.019	0.045

Standard thresholds

P-value	Threshold
0.001	1.76036
0.0005	3.18761
0.0001	6.10656