NFIX.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIX.H12INVITRO.0.SM.B
Gene (human)	NFIX (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfix
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	19
Consensus	nYTGGCdnndWGCCAAndn
GC content	49.56%
Information content (bits; total / per base)	18.186 / 0.957
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9872

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	1.0	1.0	1.0	1.0	0.999	0.999
Overall, 6 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0
Methyl HT-SELEX, 1 experiments	median	1.0	1.0	1.0	0.999	0.999	0.999
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	1.0	0.999	0.999	0.999
Non-Methyl HT-SELEX, 5 experiments	median	1.0	1.0	1.0	1.0	1.0	0.999
Non-Methyl HT-SELEX, 5 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.981	0.893	0.948	0.581
batch 2	0.717	0.589	0.716	0.472

TF superclass	beta-Hairpin exposed by an alpha/beta-scaffold {7} (TFClass)
TF class	SMAD/NF-1 DNA-binding domain factors {7.1} (TFClass)
TF family	NF-1 {7.1.2} (TFClass)
TF subfamily	{7.1.2.0} (TFClass)
TFClass ID	TFClass: 7.1.2.0.4
HGNC	HGNC:7788
MGI	MGI:97311
EntrezGene (human)	GeneID:4784 (SSTAR profile)
EntrezGene (mouse)	GeneID:18032 (SSTAR profile)
UniProt ID (human)	NFIX_HUMAN
UniProt ID (mouse)	NFIX_MOUSE
UniProt AC (human)	Q14938 (TFClass)
UniProt AC (mouse)	P70257 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	NFIX.H12INVITRO.0.SM.B.pcm
PWM	NFIX.H12INVITRO.0.SM.B.pwm
PFM	NFIX.H12INVITRO.0.SM.B.pfm
Alignment	NFIX.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	NFIX.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	NFIX.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	NFIX.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	NFIX.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	NFIX.H12INVITRO.0.SM.B_homer_format_0.001.txt NFIX.H12INVITRO.0.SM.B_homer_format_0.0005.txt NFIX.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2183.75	1960.75	2307.75	3419.75
02	857.25	1535.25	585.25	6894.25
03	53.0	35.0	176.0	9608.0
04	38.0	22.0	9786.0	26.0
05	85.0	34.0	9710.0	43.0
06	1485.0	8269.0	58.0	60.0
07	5181.0	647.0	1815.0	2229.0
08	2701.0	2987.0	1308.0	2876.0
09	2720.0	1982.0	2075.0	3095.0
10	2426.0	1125.0	3400.0	2921.0
11	1134.0	1054.0	135.0	7549.0
12	3.0	0.0	9523.0	346.0
13	4.0	9840.0	20.0	8.0
14	2.0	9856.0	5.0	9.0
15	9854.0	6.0	0.0	12.0
16	7925.0	21.0	1863.0	63.0
17	2799.0	2445.0	2405.0	2223.0
18	4131.25	940.25	1316.25	3484.25
19	3331.25	1992.25	1728.25	2820.25

PFM

	A	C	G	T
01	0.221	0.199	0.234	0.346
02	0.087	0.156	0.059	0.698
03	0.005	0.004	0.018	0.973
04	0.004	0.002	0.991	0.003
05	0.009	0.003	0.984	0.004
06	0.15	0.838	0.006	0.006
07	0.525	0.066	0.184	0.226
08	0.274	0.303	0.132	0.291
09	0.276	0.201	0.21	0.314
10	0.246	0.114	0.344	0.296
11	0.115	0.107	0.014	0.765
12	0.0	0.0	0.965	0.035
13	0.0	0.997	0.002	0.001
14	0.0	0.998	0.001	0.001
15	0.998	0.001	0.0	0.001
16	0.803	0.002	0.189	0.006
17	0.284	0.248	0.244	0.225
18	0.418	0.095	0.133	0.353
19	0.337	0.202	0.175	0.286

PWM

	A	C	G	T
01	-0.122	-0.23	-0.067	0.326
02	-1.056	-0.474	-1.436	1.027
03	-3.799	-4.193	-2.629	1.358
04	-4.116	-4.622	1.377	-4.469
05	-3.343	-4.22	1.369	-3.999
06	-0.507	1.208	-3.713	-3.68
07	0.741	-1.336	-0.307	-0.102
08	0.09	0.191	-0.634	0.153
09	0.097	-0.219	-0.173	0.226
10	-0.017	-0.785	0.32	0.168
11	-0.777	-0.85	-2.89	1.117
12	-6.145	-6.979	1.35	-1.959
13	-5.972	1.382	-4.708	-5.48
14	-6.354	1.384	-5.824	-5.387
15	1.384	-5.696	-6.979	-5.152
16	1.166	-4.664	-0.281	-3.633
17	0.126	-0.009	-0.026	-0.104
18	0.515	-0.964	-0.628	0.345
19	0.3	-0.214	-0.356	0.133

Standard thresholds

P-value	Threshold
0.001	-0.85099
0.0005	0.86526
0.0001	4.50501