NFKB1.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFKB1.H12INVITRO.0.PS.A
Gene (human)	NFKB1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfkb1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	16
Consensus	nnvGGGGAAYCMCCbn
GC content	62.97%
Information content (bits; total / per base)	15.7 / 0.981
Data sources	ChIP-Seq + HT-SELEX
Aligned words	2457

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	7 (37)	0.88	0.918	0.796	0.839	0.848	0.867	2.74	2.993	420.456	632.854
Mouse	7 (35)	0.712	0.85	0.644	0.758	0.624	0.773	1.975	2.429	93.481	362.658

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.664	0.68	0.575	0.592	0.533	0.552
Non-Methyl HT-SELEX, 2 experiments	best	0.757	0.775	0.618	0.643	0.553	0.58

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.263	0.107	0.055	0.047

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	Rel homology region (RHR) factors {6.1} (TFClass)
TF family	NFkappaB-related {6.1.1} (TFClass)
TF subfamily	NFkappaB p50-like {6.1.1.1} (TFClass)
TFClass ID	TFClass: 6.1.1.1.1
HGNC	HGNC:7794
MGI	MGI:97312
EntrezGene (human)	GeneID:4790 (SSTAR profile)
EntrezGene (mouse)	GeneID:18033 (SSTAR profile)
UniProt ID (human)	NFKB1_HUMAN
UniProt ID (mouse)	NFKB1_MOUSE
UniProt AC (human)	P19838 (TFClass)
UniProt AC (mouse)	P25799 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	7 human, 7 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	NFKB1.H12INVITRO.0.PS.A.pcm
PWM	NFKB1.H12INVITRO.0.PS.A.pwm
PFM	NFKB1.H12INVITRO.0.PS.A.pfm
Alignment	NFKB1.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	NFKB1.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	NFKB1.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	NFKB1.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	NFKB1.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	NFKB1.H12INVITRO.0.PS.A_homer_format_0.001.txt NFKB1.H12INVITRO.0.PS.A_homer_format_0.0005.txt NFKB1.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	752.5	538.5	609.5	556.5
02	880.0	496.0	599.0	482.0
03	1076.0	576.0	508.0	297.0
04	64.0	31.0	2310.0	52.0
05	26.0	18.0	2399.0	14.0
06	10.0	31.0	2399.0	17.0
07	14.0	0.0	2441.0	2.0
08	2416.0	0.0	40.0	1.0
09	2393.0	0.0	55.0	9.0
10	59.0	567.0	198.0	1633.0
11	107.0	2044.0	256.0	50.0
12	468.0	1697.0	193.0	99.0
13	131.0	1996.0	232.0	98.0
14	123.0	2001.0	193.0	140.0
15	353.5	475.5	711.5	916.5
16	559.75	499.75	638.75	758.75

PFM

	A	C	G	T
01	0.306	0.219	0.248	0.226
02	0.358	0.202	0.244	0.196
03	0.438	0.234	0.207	0.121
04	0.026	0.013	0.94	0.021
05	0.011	0.007	0.976	0.006
06	0.004	0.013	0.976	0.007
07	0.006	0.0	0.993	0.001
08	0.983	0.0	0.016	0.0
09	0.974	0.0	0.022	0.004
10	0.024	0.231	0.081	0.665
11	0.044	0.832	0.104	0.02
12	0.19	0.691	0.079	0.04
13	0.053	0.812	0.094	0.04
14	0.05	0.814	0.079	0.057
15	0.144	0.194	0.29	0.373
16	0.228	0.203	0.26	0.309

PWM

	A	C	G	T
01	0.202	-0.131	-0.008	-0.098
02	0.359	-0.213	-0.025	-0.242
03	0.559	-0.064	-0.189	-0.723
04	-2.235	-2.929	1.322	-2.435
05	-3.093	-3.43	1.36	-3.654
06	-3.943	-2.929	1.36	-3.482
07	-3.654	-5.755	1.377	-5.049
08	1.367	-5.755	-2.687	-5.341
09	1.358	-5.755	-2.381	-4.03
10	-2.313	-0.08	-1.125	0.976
11	-1.733	1.2	-0.871	-2.473
12	-0.271	1.014	-1.151	-1.809
13	-1.534	1.176	-0.968	-1.819
14	-1.596	1.179	-1.151	-1.468
15	-0.55	-0.255	0.147	0.399
16	-0.093	-0.206	0.039	0.211

Standard thresholds

P-value	Threshold
0.001	2.25771
0.0005	3.56166
0.0001	6.26966