NFIB.H12INVIVO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIB.H12INVIVO.1.PS.A
Gene (human)	NFIB (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfib
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	9
Consensus	vTGCCARvh
GC content	57.82%
Information content (bits; total / per base)	10.908 / 1.212
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1001

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
Human	2 (14)	0.89	0.928	0.805	0.839	0.787	0.824	2.212	2.328	443.539	675.77
Mouse	4 (28)	0.826	0.88	0.674	0.767	0.736	0.8	1.842	2.16	86.416	143.553

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.852	0.832	0.792	0.783	0.76	0.755
Overall, 4 experiments	best	0.986	0.978	0.979	0.966	0.972	0.955
Methyl HT-SELEX, 1 experiments	median	0.986	0.978	0.979	0.966	0.972	0.955
Methyl HT-SELEX, 1 experiments	best	0.986	0.978	0.979	0.966	0.972	0.955
Non-Methyl HT-SELEX, 3 experiments	median	0.723	0.694	0.609	0.609	0.553	0.564
Non-Methyl HT-SELEX, 3 experiments	best	0.982	0.97	0.974	0.958	0.966	0.945

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.641	0.107	0.051	-0.037

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: 7.1.2.0.2
HGNC	HGNC:7785
MGI	MGI:103188
EntrezGene (human)	GeneID:4781 (SSTAR profile)
EntrezGene (mouse)	GeneID:18028 (SSTAR profile)
UniProt ID (human)	NFIB_HUMAN
UniProt ID (mouse)	NFIB_MOUSE
UniProt AC (human)	O00712 (TFClass)
UniProt AC (mouse)	P97863 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 4 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	NFIB.H12INVIVO.1.PS.A.pcm
PWM	NFIB.H12INVIVO.1.PS.A.pwm
PFM	NFIB.H12INVIVO.1.PS.A.pfm
Alignment	NFIB.H12INVIVO.1.PS.A.words.tsv
Threshold to P-value map	NFIB.H12INVIVO.1.PS.A.thr
Motif in other formats
JASPAR format	NFIB.H12INVIVO.1.PS.A_jaspar_format.txt
MEME format	NFIB.H12INVIVO.1.PS.A_meme_format.meme
Transfac format	NFIB.H12INVIVO.1.PS.A_transfac_format.txt
Homer format	NFIB.H12INVIVO.1.PS.A_homer_format_0.001.txt NFIB.H12INVIVO.1.PS.A_homer_format_0.0005.txt NFIB.H12INVIVO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	144.0	264.0	499.0	94.0
02	97.0	6.0	23.0	875.0
03	2.0	0.0	998.0	1.0
04	1.0	1000.0	0.0	0.0
05	0.0	1001.0	0.0	0.0
06	999.0	1.0	1.0	0.0
07	539.0	1.0	460.0	1.0
08	246.0	243.0	434.0	78.0
09	307.0	192.0	86.0	416.0

PFM

	A	C	G	T
01	0.144	0.264	0.499	0.094
02	0.097	0.006	0.023	0.874
03	0.002	0.0	0.997	0.001
04	0.001	0.999	0.0	0.0
05	0.0	1.0	0.0	0.0
06	0.998	0.001	0.001	0.0
07	0.538	0.001	0.46	0.001
08	0.246	0.243	0.434	0.078
09	0.307	0.192	0.086	0.416

PWM

	A	C	G	T
01	-0.548	0.053	0.687	-0.968
02	-0.937	-3.485	-2.321	1.247
03	-4.214	-4.983	1.378	-4.526
04	-4.526	1.38	-4.983	-4.983
05	-4.983	1.381	-4.983	-4.983
06	1.379	-4.526	-4.526	-4.983
07	0.764	-4.526	0.606	-4.526
08	-0.017	-0.029	0.548	-1.151
09	0.203	-0.263	-1.055	0.505

Standard thresholds

P-value	Threshold
0.001	4.022935
0.0005	5.759725
0.0001	7.82783