NKX32.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX32.H12INVITRO.1.S.B
Gene (human)	NKX3-2 (GeneCards)
Gene synonyms (human)	BAPX1, NKX3B
Gene (mouse)	Nkx3-2
Gene synonyms (mouse)	Bapx1, Nkx-3.2, Nkx3b
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	20
Consensus	nYTAAGTGShhhYWWRdddn
GC content	41.03%
Information content (bits; total / per base)	16.767 / 0.838
Data sources	HT-SELEX
Aligned words	1560

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	2 (13)	0.835	0.954	0.764	0.908	0.761	0.915	2.526	3.858	197.638	375.292

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.949	0.931	0.862	0.843	0.735	0.741
Overall, 4 experiments	best	0.993	0.991	0.938	0.932	0.851	0.823
Methyl HT-SELEX, 1 experiments	median	0.894	0.857	0.798	0.766	0.69	0.681
Methyl HT-SELEX, 1 experiments	best	0.894	0.857	0.798	0.766	0.69	0.681
Non-Methyl HT-SELEX, 3 experiments	median	0.961	0.942	0.922	0.893	0.78	0.797
Non-Methyl HT-SELEX, 3 experiments	best	0.993	0.991	0.938	0.932	0.851	0.823

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	NK3 {3.1.2.16} (TFClass)
TFClass ID	TFClass: 3.1.2.16.2
HGNC	HGNC:951
MGI	MGI:108015
EntrezGene (human)	GeneID:579 (SSTAR profile)
EntrezGene (mouse)	GeneID:12020 (SSTAR profile)
UniProt ID (human)	NKX32_HUMAN
UniProt ID (mouse)	NKX32_MOUSE
UniProt AC (human)	P78367 (TFClass)
UniProt AC (mouse)	P97503 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	NKX32.H12INVITRO.1.S.B.pcm
PWM	NKX32.H12INVITRO.1.S.B.pwm
PFM	NKX32.H12INVITRO.1.S.B.pfm
Alignment	NKX32.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	NKX32.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	NKX32.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	NKX32.H12INVITRO.1.S.B_meme_format.meme
Transfac format	NKX32.H12INVITRO.1.S.B_transfac_format.txt
Homer format	NKX32.H12INVITRO.1.S.B_homer_format_0.001.txt NKX32.H12INVITRO.1.S.B_homer_format_0.0005.txt NKX32.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	280.25	605.25	339.25	335.25
02	186.0	249.0	101.0	1024.0
03	24.0	44.0	31.0	1461.0
04	1553.0	0.0	7.0	0.0
05	1559.0	0.0	0.0	1.0
06	0.0	0.0	1559.0	1.0
07	3.0	0.0	3.0	1554.0
08	57.0	0.0	1503.0	0.0
09	13.0	456.0	1034.0	57.0
10	174.0	876.0	156.0	354.0
11	651.0	502.0	73.0	334.0
12	555.0	695.0	76.0	234.0
13	273.0	385.0	23.0	879.0
14	226.0	32.0	108.0	1194.0
15	929.0	39.0	81.0	511.0
16	955.0	56.0	319.0	230.0
17	314.0	201.0	681.0	364.0
18	249.0	176.0	561.0	574.0
19	322.75	247.75	697.75	291.75
20	387.5	351.5	532.5	288.5

PFM

	A	C	G	T
01	0.18	0.388	0.217	0.215
02	0.119	0.16	0.065	0.656
03	0.015	0.028	0.02	0.937
04	0.996	0.0	0.004	0.0
05	0.999	0.0	0.0	0.001
06	0.0	0.0	0.999	0.001
07	0.002	0.0	0.002	0.996
08	0.037	0.0	0.963	0.0
09	0.008	0.292	0.663	0.037
10	0.112	0.562	0.1	0.227
11	0.417	0.322	0.047	0.214
12	0.356	0.446	0.049	0.15
13	0.175	0.247	0.015	0.563
14	0.145	0.021	0.069	0.765
15	0.596	0.025	0.052	0.328
16	0.612	0.036	0.204	0.147
17	0.201	0.129	0.437	0.233
18	0.16	0.113	0.36	0.368
19	0.207	0.159	0.447	0.187
20	0.248	0.225	0.341	0.185

PWM

	A	C	G	T
01	-0.329	0.438	-0.139	-0.151
02	-0.735	-0.446	-1.338	0.962
03	-2.719	-2.146	-2.479	1.317
04	1.378	-5.362	-3.792	-5.362
05	1.382	-5.362	-5.362	-4.928
06	-5.362	-5.362	1.382	-4.928
07	-4.394	-5.362	-4.394	1.379
08	-1.896	-5.362	1.346	-5.362
09	-3.274	0.156	0.972	-1.896
10	-0.801	0.807	-0.909	-0.096
11	0.51	0.251	-1.656	-0.154
12	0.351	0.576	-1.616	-0.508
13	-0.355	-0.013	-2.758	0.81
14	-0.542	-2.449	-1.272	1.116
15	0.865	-2.261	-1.554	0.269
16	0.893	-1.913	-0.2	-0.525
17	-0.216	-0.658	0.555	-0.069
18	-0.446	-0.79	0.362	0.385
19	-0.188	-0.451	0.58	-0.289
20	-0.006	-0.103	0.31	-0.3

Standard thresholds

P-value	Threshold
0.001	1.23306
0.0005	2.72656
0.0001	5.81651