NFIB.H12INVITRO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIB.H12INVITRO.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	8
Consensus	nWGCCARn
GC content	57.14%
Information content (bits; total / per base)	9.147 / 1.143
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9371

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)	0.896	0.932	0.811	0.844	0.746	0.778	1.846	1.938	438.914	679.444
Mouse	4 (28)	0.843	0.898	0.724	0.809	0.693	0.759	1.582	1.886	75.81	142.009

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.858	0.844	0.798	0.793	0.768	0.764
Overall, 4 experiments	best	0.992	0.988	0.987	0.98	0.98	0.969
Methyl HT-SELEX, 1 experiments	median	0.992	0.988	0.987	0.98	0.98	0.969
Methyl HT-SELEX, 1 experiments	best	0.992	0.988	0.987	0.98	0.98	0.969
Non-Methyl HT-SELEX, 3 experiments	median	0.73	0.709	0.615	0.617	0.563	0.571
Non-Methyl HT-SELEX, 3 experiments	best	0.987	0.978	0.981	0.968	0.973	0.957

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.731	0.105	-0.354	-0.224

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.H12INVITRO.1.PS.A.pcm
PWM	NFIB.H12INVITRO.1.PS.A.pwm
PFM	NFIB.H12INVITRO.1.PS.A.pfm
Alignment	NFIB.H12INVITRO.1.PS.A.words.tsv
Threshold to P-value map	NFIB.H12INVITRO.1.PS.A.thr
Motif in other formats
JASPAR format	NFIB.H12INVITRO.1.PS.A_jaspar_format.txt
MEME format	NFIB.H12INVITRO.1.PS.A_meme_format.meme
Transfac format	NFIB.H12INVITRO.1.PS.A_transfac_format.txt
Homer format	NFIB.H12INVITRO.1.PS.A_homer_format_0.001.txt NFIB.H12INVITRO.1.PS.A_homer_format_0.0005.txt NFIB.H12INVITRO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2229.25	2004.25	3125.25	2012.25
02	1441.25	1340.25	264.25	6325.25
03	9.0	126.0	9174.0	62.0
04	0.0	9371.0	0.0	0.0
05	0.0	9369.0	2.0	0.0
06	9280.0	65.0	7.0	19.0
07	6306.25	557.25	2142.25	365.25
08	2293.25	3015.25	2271.25	1791.25

PFM

	A	C	G	T
01	0.238	0.214	0.334	0.215
02	0.154	0.143	0.028	0.675
03	0.001	0.013	0.979	0.007
04	0.0	1.0	0.0	0.0
05	0.0	1.0	0.0	0.0
06	0.99	0.007	0.001	0.002
07	0.673	0.059	0.229	0.039
08	0.245	0.322	0.242	0.191

PWM

	A	C	G	T
01	-0.05	-0.156	0.288	-0.152
02	-0.485	-0.558	-2.175	0.993
03	-5.336	-2.906	1.364	-3.597
04	-6.933	1.386	-6.933	-6.933
05	-6.933	1.385	-6.305	-6.933
06	1.376	-3.551	-5.532	-4.702
07	0.99	-1.433	-0.089	-1.853
08	-0.021	0.252	-0.031	-0.268

Standard thresholds

P-value	Threshold
0.001	5.446495
0.0005	6.223875
0.0001	7.476565