SP140.H13INVIVO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP140.H13INVIVO.0.PSGIB.A
Gene (human)	SP140 (GeneCards)
Gene synonyms (human)	LYSP100
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nYCGKhdbWhn
GC content	49.74%
Information content (bits; total / per base)	7.44 / 0.676
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	672
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)	0.664	0.664	0.472	0.472	0.467	0.467	4.26	4.26

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
GFPIVT, 2 experiments	median	0.859	0.815	0.811	0.771	0.756	0.724
GFPIVT, 2 experiments	best	0.949	0.919	0.924	0.886	0.879	0.839

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
GFPIVT, 1 experiments	median	67.028	0.508	0.724	0.551
GFPIVT, 1 experiments	best	97.056	0.529	0.747	0.588

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.775	0.708	0.727	0.669	0.681	0.635
Overall, 1 experiments	best	0.775	0.708	0.727	0.669	0.681	0.635

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 7 experiments	median	0.831	0.019	0.793	0.037
Overall, 7 experiments	best	0.92	0.026	0.816	0.039

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	7

PCM	SP140.H13INVIVO.0.PSGIB.A.pcm
PWM	SP140.H13INVIVO.0.PSGIB.A.pwm
PFM	SP140.H13INVIVO.0.PSGIB.A.pfm
Threshold to P-value map	SP140.H13INVIVO.0.PSGIB.A.thr
Motif in other formats
JASPAR format	SP140.H13INVIVO.0.PSGIB.A_jaspar_format.txt
MEME format	SP140.H13INVIVO.0.PSGIB.A_meme_format.meme
Transfac format	SP140.H13INVIVO.0.PSGIB.A_transfac_format.txt
Homer format	SP140.H13INVIVO.0.PSGIB.A_homer_format_0.001.txt SP140.H13INVIVO.0.PSGIB.A_homer_format_0.0005.txt SP140.H13INVIVO.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	124.0	149.0	234.0	165.0
02	17.0	364.0	23.0	268.0
03	0.0	672.0	0.0	0.0
04	0.0	0.0	672.0	0.0
05	0.0	86.0	184.0	402.0
06	234.0	232.0	58.0	148.0
07	351.0	52.0	173.0	96.0
08	75.0	241.0	81.0	275.0
09	263.0	2.0	2.0	405.0
10	379.0	83.0	64.0	146.0
11	176.0	157.0	148.0	191.0

PFM

	A	C	G	T
01	0.185	0.222	0.348	0.246
02	0.025	0.542	0.034	0.399
03	0.0	1.0	0.0	0.0
04	0.0	0.0	1.0	0.0
05	0.0	0.128	0.274	0.598
06	0.348	0.345	0.086	0.22
07	0.522	0.077	0.257	0.143
08	0.112	0.359	0.121	0.409
09	0.391	0.003	0.003	0.603
10	0.564	0.124	0.095	0.217
11	0.262	0.234	0.22	0.284

PWM

	A	C	G	T
01	-0.3	-0.119	0.329	-0.018
02	-2.209	0.768	-1.93	0.463
03	-4.647	1.379	-4.647	-4.647
04	-4.647	-4.647	1.379	-4.647
05	-4.647	-0.661	0.09	0.867
06	0.329	0.32	-1.045	-0.125
07	0.732	-1.152	0.029	-0.552
08	-0.795	0.358	-0.719	0.489
09	0.445	-3.845	-3.845	0.874
10	0.808	-0.695	-0.95	-0.139
11	0.046	-0.067	-0.125	0.127

Standard thresholds

P-value	Threshold
0.001	5.359925
0.0005	5.84732
0.0001	6.738975