NFIB.H13RSNP.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIB.H13RSNP.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	nWGCCARv
GC content	59.61%
Information content (bits; total / per base)	7.42 / 0.928
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1002
Previous names	NFIB.H12RSNP.1.PS.A

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)	0.859	0.89	0.746	0.779	0.717	0.744	1.632	1.707	352.063	527.854
Mouse	4 (28)	0.84	0.908	0.736	0.841	0.741	0.79	1.773	1.956	73.549	127.125

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.844	0.818	0.788	0.774	0.758	0.747
Overall, 4 experiments	best	0.978	0.964	0.97	0.952	0.961	0.938
Methyl HT-SELEX, 1 experiments	median	0.978	0.964	0.97	0.952	0.961	0.938
Methyl HT-SELEX, 1 experiments	best	0.978	0.964	0.97	0.952	0.961	0.938
Non-Methyl HT-SELEX, 3 experiments	median	0.715	0.679	0.609	0.603	0.558	0.563
Non-Methyl HT-SELEX, 3 experiments	best	0.973	0.956	0.967	0.945	0.958	0.932

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.72	0.31	-0.058	-0.093

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	NFIB.H13RSNP.1.PS.A.pcm
PWM	NFIB.H13RSNP.1.PS.A.pwm
PFM	NFIB.H13RSNP.1.PS.A.pfm
Threshold to P-value map	NFIB.H13RSNP.1.PS.A.thr
Motif in other formats
JASPAR format	NFIB.H13RSNP.1.PS.A_jaspar_format.txt
MEME format	NFIB.H13RSNP.1.PS.A_meme_format.meme
Transfac format	NFIB.H13RSNP.1.PS.A_transfac_format.txt
Homer format	NFIB.H13RSNP.1.PS.A_homer_format_0.001.txt NFIB.H13RSNP.1.PS.A_homer_format_0.0005.txt NFIB.H13RSNP.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	163.0	352.0	282.0	205.0
02	355.0	23.0	61.0	563.0
03	8.0	30.0	874.0	90.0
04	63.0	922.0	12.0	5.0
05	33.0	946.0	6.0	17.0
06	898.0	76.0	9.0	19.0
07	453.0	19.0	472.0	58.0
08	240.0	222.0	472.0	68.0

PFM

	A	C	G	T
01	0.163	0.351	0.281	0.205
02	0.354	0.023	0.061	0.562
03	0.008	0.03	0.872	0.09
04	0.063	0.92	0.012	0.005
05	0.033	0.944	0.006	0.017
06	0.896	0.076	0.009	0.019
07	0.452	0.019	0.471	0.058
08	0.24	0.222	0.471	0.068

PWM

	A	C	G	T
01	-0.426	0.338	0.118	-0.199
02	0.347	-2.322	-1.392	0.806
03	-3.255	-2.073	1.245	-1.012
04	-1.36	1.298	-2.911	-3.624
05	-1.983	1.324	-3.486	-2.6
06	1.272	-1.177	-3.158	-2.499
07	0.589	-2.499	0.63	-1.441
08	-0.043	-0.12	0.63	-1.286

Standard thresholds

P-value	Threshold
0.001	5.05242
0.0005	6.17357
0.0001	6.989885