NFIC.H14CORE.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIC.H14CORE.1.PSM.A
Gene (human)	NFIC (GeneCards)
Gene synonyms (human)	NFI
Gene (mouse)	Nfic
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	8
Consensus	nWGCCARv
GC content	56.64%
Information content (bits; total / per base)	7.494 / 0.937
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	999
Previous names	NFIC.H12CORE.1.PSM.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	6 (41)	0.823	0.852	0.706	0.739	0.701	0.725	1.596	1.705	85.886	385.481
Mouse	2 (6)	0.756	0.804	0.646	0.68	0.633	0.654	1.372	1.438	4.495	15.699

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.983	0.972	0.969	0.951	0.959	0.936
Overall, 2 experiments	best	0.987	0.979	0.975	0.96	0.966	0.947
Methyl HT-SELEX, 1 experiments	median	0.987	0.979	0.975	0.96	0.966	0.947
Methyl HT-SELEX, 1 experiments	best	0.987	0.979	0.975	0.96	0.966	0.947
Non-Methyl HT-SELEX, 1 experiments	median	0.978	0.965	0.964	0.942	0.951	0.924
Non-Methyl HT-SELEX, 1 experiments	best	0.978	0.965	0.964	0.942	0.951	0.924

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	6.774	17.549	0.137	0.068

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.857	0.457	0.855	0.565
batch 2	0.821	0.529	0.869	0.669

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: 7.1.2.0.3
HGNC	HGNC:7786
MGI	MGI:109591
EntrezGene (human)	GeneID:4782 (SSTAR profile)
EntrezGene (mouse)	GeneID:18029 (SSTAR profile)
UniProt ID (human)	NFIC_HUMAN
UniProt ID (mouse)	NFIC_MOUSE
UniProt AC (human)	P08651 (TFClass)
UniProt AC (mouse)	P70255 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	6 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	NFIC.H14CORE.1.PSM.A.pcm
PWM	NFIC.H14CORE.1.PSM.A.pwm
PFM	NFIC.H14CORE.1.PSM.A.pfm
Threshold to P-value map	NFIC.H14CORE.1.PSM.A.thr
Motif in other formats
JASPAR format	NFIC.H14CORE.1.PSM.A_jaspar_format.txt
MEME format	NFIC.H14CORE.1.PSM.A_meme_format.meme
Transfac format	NFIC.H14CORE.1.PSM.A_transfac_format.txt
Homer format	NFIC.H14CORE.1.PSM.A_homer_format_0.001.txt NFIC.H14CORE.1.PSM.A_homer_format_0.0005.txt NFIC.H14CORE.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	217.0	321.0	253.0	208.0
02	320.0	20.0	104.0	555.0
03	16.0	32.0	841.0	110.0
04	11.0	937.0	4.0	47.0
05	21.0	966.0	1.0	11.0
06	946.0	19.0	5.0	29.0
07	467.0	35.0	445.0	52.0
08	357.0	172.0	372.0	98.0

PFM

	A	C	G	T
01	0.217	0.321	0.253	0.208
02	0.32	0.02	0.104	0.556
03	0.016	0.032	0.842	0.11
04	0.011	0.938	0.004	0.047
05	0.021	0.967	0.001	0.011
06	0.947	0.019	0.005	0.029
07	0.467	0.035	0.445	0.052
08	0.357	0.172	0.372	0.098

PWM

	A	C	G	T
01	-0.14	0.249	0.013	-0.182
02	0.246	-2.449	-0.866	0.795
03	-2.652	-2.009	1.209	-0.811
04	-2.984	1.317	-3.782	-1.641
05	-2.404	1.348	-4.524	-2.984
06	1.327	-2.496	-3.621	-2.102
07	0.623	-1.924	0.575	-1.543
08	0.355	-0.37	0.396	-0.925

Standard thresholds

P-value	Threshold
0.001	5.26418
0.0005	6.23751
0.0001	6.961355