NFIB.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIB.H12INVIVO.0.PSM.A
Gene (human)	NFIB (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfib
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	17
Consensus	nYTGGCdnCdhGCCARn
GC content	58.57%
Information content (bits; total / per base)	17.718 / 1.042
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9999

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)	0.981	0.999	0.979	0.998	0.975	0.998	6.923	7.436	834.927	1269.108
Mouse	4 (28)	0.86	0.979	0.794	0.967	0.826	0.972	3.126	5.672	151.142	418.523

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.868	0.88	0.801	0.816	0.774	0.787
Overall, 4 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	1.0	1.0	1.0
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0
Non-Methyl HT-SELEX, 3 experiments	median	0.736	0.761	0.602	0.631	0.548	0.574
Non-Methyl HT-SELEX, 3 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 2	0.609	0.08	-0.175	-0.11

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.0.PSM.A.pcm
PWM	NFIB.H12INVIVO.0.PSM.A.pwm
PFM	NFIB.H12INVIVO.0.PSM.A.pfm
Alignment	NFIB.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	NFIB.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	NFIB.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	NFIB.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	NFIB.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	NFIB.H12INVIVO.0.PSM.A_homer_format_0.001.txt NFIB.H12INVIVO.0.PSM.A_homer_format_0.0005.txt NFIB.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1720.0	3303.0	2893.0	2083.0
02	349.75	2791.75	296.75	6560.75
03	22.0	34.0	260.0	9683.0
04	11.0	16.0	9953.0	19.0
05	19.0	23.0	9937.0	20.0
06	1005.0	8881.0	52.0	61.0
07	5496.0	1335.0	1648.0	1520.0
08	2754.0	2917.0	1699.0	2629.0
09	3703.0	6296.0	0.0	0.0
10	1768.0	1722.0	4586.0	1923.0
11	1844.0	1842.0	971.0	5342.0
12	56.0	42.0	8864.0	1037.0
13	12.0	9958.0	1.0	28.0
14	4.0	9970.0	12.0	13.0
15	9724.0	207.0	34.0	34.0
16	6839.25	288.25	2550.25	321.25
17	2098.25	3204.25	2979.25	1717.25

PFM

	A	C	G	T
01	0.172	0.33	0.289	0.208
02	0.035	0.279	0.03	0.656
03	0.002	0.003	0.026	0.968
04	0.001	0.002	0.995	0.002
05	0.002	0.002	0.994	0.002
06	0.101	0.888	0.005	0.006
07	0.55	0.134	0.165	0.152
08	0.275	0.292	0.17	0.263
09	0.37	0.63	0.0	0.0
10	0.177	0.172	0.459	0.192
11	0.184	0.184	0.097	0.534
12	0.006	0.004	0.886	0.104
13	0.001	0.996	0.0	0.003
14	0.0	0.997	0.001	0.001
15	0.972	0.021	0.003	0.003
16	0.684	0.029	0.255	0.032
17	0.21	0.32	0.298	0.172

PWM

	A	C	G	T
01	-0.373	0.278	0.146	-0.182
02	-1.961	0.11	-2.124	0.964
03	-4.634	-4.233	-2.255	1.353
04	-5.237	-4.918	1.381	-4.766
05	-4.766	-4.594	1.379	-4.72
06	-0.91	1.267	-3.83	-3.677
07	0.787	-0.626	-0.416	-0.497
08	0.097	0.154	-0.386	0.05
09	0.393	0.923	-6.991	-6.991
10	-0.346	-0.372	0.606	-0.262
11	-0.304	-0.305	-0.944	0.759
12	-3.759	-4.034	1.265	-0.879
13	-5.164	1.381	-6.63	-4.414
14	-5.984	1.383	-5.164	-5.097
15	1.358	-2.481	-4.233	-4.233
16	1.006	-2.153	0.02	-2.046
17	-0.175	0.248	0.175	-0.375

Standard thresholds

P-value	Threshold
0.001	-0.36979
0.0005	1.29626
0.0001	4.81511