SP140.H14RSNP.0.PSGIB.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP140.H14RSNP.0.PSGIB.D
Gene (human)	SP140 (GeneCards)
Gene synonyms (human)	LYSP100
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	11
Consensus	hRhCGKMRYWd
GC content	54.32%
Information content (bits; total / per base)	9.48 / 0.862
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	8602
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	1 (1)	0.659	0.659	0.467	0.467	0.433	0.433	3.62	3.62

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
GFPIVT, 2 experiments	median	0.871	0.832	0.825	0.785	0.772	0.738
GFPIVT, 2 experiments	best	0.958	0.936	0.928	0.897	0.885	0.848

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
GFPIVT, 1 experiments	median	117.839	0.556	0.77	0.622
GFPIVT, 1 experiments	best	159.678	0.581	0.782	0.657

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.776	0.713	0.725	0.671	0.672	0.632
Overall, 1 experiments	best	0.776	0.713	0.725	0.671	0.672	0.632

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 8 experiments	median	0.818	0.012	0.75	0.018
Overall, 8 experiments	best	0.9	0.031	0.775	0.024

TF superclass	alpha-Helices exposed by beta-structures {5} (TFClass)
TF class	SAND domain factors {5.3} (TFClass)
TF family	Sp140-Sp100 {5.3.5} (TFClass)
TF subfamily	Sp140 {5.3.5.1} (TFClass)
TFClass ID	TFClass: 5.3.5.1.1
HGNC	HGNC:17133
MGI
EntrezGene (human)	GeneID:11262 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	SP140_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q13342 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	2 overall: 0 Lysate, 0 IVT, 2 GFPIVT
Genomic HT-SELEX	1 overall: 0 Lysate, 0 IVT, 1 GFPIVT
SMiLE-Seq	1
PBM	8

PCM	SP140.H14RSNP.0.PSGIB.D.pcm
PWM	SP140.H14RSNP.0.PSGIB.D.pwm
PFM	SP140.H14RSNP.0.PSGIB.D.pfm
Threshold to P-value map	SP140.H14RSNP.0.PSGIB.D.thr
Motif in other formats
JASPAR format	SP140.H14RSNP.0.PSGIB.D_jaspar_format.txt
MEME format	SP140.H14RSNP.0.PSGIB.D_meme_format.meme
Transfac format	SP140.H14RSNP.0.PSGIB.D_transfac_format.txt
Homer format	SP140.H14RSNP.0.PSGIB.D_homer_format_0.001.txt SP140.H14RSNP.0.PSGIB.D_homer_format_0.0005.txt SP140.H14RSNP.0.PSGIB.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1184.0	1946.0	783.0	4689.0
02	1071.0	527.0	5985.0	1019.0
03	1249.0	2752.0	603.0	3998.0
04	1.0	8601.0	0.0	0.0
05	0.0	0.0	8599.0	3.0
06	8.0	519.0	3704.0	4371.0
07	1832.0	6152.0	137.0	481.0
08	5804.0	587.0	2120.0	91.0
09	179.0	4335.0	829.0	3259.0
10	1380.75	214.75	446.75	6559.75
11	5060.5	814.5	1739.5	987.5

PFM

	A	C	G	T
01	0.138	0.226	0.091	0.545
02	0.125	0.061	0.696	0.118
03	0.145	0.32	0.07	0.465
04	0.0	1.0	0.0	0.0
05	0.0	0.0	1.0	0.0
06	0.001	0.06	0.431	0.508
07	0.213	0.715	0.016	0.056
08	0.675	0.068	0.246	0.011
09	0.021	0.504	0.096	0.379
10	0.161	0.025	0.052	0.763
11	0.588	0.095	0.202	0.115

PWM

	A	C	G	T
01	-0.596	-0.1	-1.008	0.779
02	-0.696	-1.403	1.023	-0.746
03	-0.543	0.246	-1.269	0.62
04	-6.491	1.385	-6.857	-6.857
05	-6.857	-6.857	1.385	-6.013
06	-5.346	-1.418	0.543	0.709
07	-0.16	1.05	-2.738	-1.494
08	0.992	-1.296	-0.014	-3.139
09	-2.475	0.7	-0.952	0.415
10	-0.442	-2.295	-1.567	1.115
11	0.855	-0.969	-0.212	-0.777

Standard thresholds

P-value	Threshold
0.001	5.00021
0.0005	5.80037
0.0001	7.334165