SP140L.H13INVIVO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP140L.H13INVIVO.0.PSGIB.A
Gene (human)	SP140L (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	9
Consensus	nYACGWbRn
GC content	47.77%
Information content (bits; total / per base)	8.205 / 0.912
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	793
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	2 (2)	0.859	0.862	0.714	0.72	0.708	0.713	60.28	67.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 6 experiments	median	0.753	0.68	0.714	0.652	0.671	0.624
overall, 6 experiments	best	0.993	0.988	0.987	0.979	0.977	0.966
Lysate, 2 experiments	median	0.753	0.68	0.714	0.652	0.671	0.624
Lysate, 2 experiments	best	0.778	0.703	0.741	0.674	0.697	0.644
IVT, 2 experiments	median	0.646	0.594	0.616	0.576	0.585	0.559
IVT, 2 experiments	best	0.677	0.618	0.639	0.594	0.602	0.573
GFPIVT, 2 experiments	median	0.976	0.962	0.962	0.943	0.931	0.909
GFPIVT, 2 experiments	best	0.993	0.988	0.987	0.979	0.977	0.966

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
GFPIVT, 2 experiments	median	25.301	0.49	0.829	0.652
GFPIVT, 2 experiments	best	314.538	0.698	0.908	0.814

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.908	0.855	0.88	0.825	0.833	0.781
Overall, 1 experiments	best	0.908	0.855	0.88	0.825	0.833	0.781

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 3 experiments	median	0.874	0.016	0.836	0.069
Overall, 3 experiments	best	0.874	0.016	0.897	0.125

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: 5.3.5.1.2
HGNC	HGNC:25105
MGI
EntrezGene (human)	GeneID:93349 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	SP14L_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q9H930 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	6 overall: 2 Lysate, 2 IVT, 2 GFPIVT
Genomic HT-SELEX	2 overall: 0 Lysate, 0 IVT, 2 GFPIVT
SMiLE-Seq	1
PBM	3

PCM	SP140L.H13INVIVO.0.PSGIB.A.pcm
PWM	SP140L.H13INVIVO.0.PSGIB.A.pwm
PFM	SP140L.H13INVIVO.0.PSGIB.A.pfm
Threshold to P-value map	SP140L.H13INVIVO.0.PSGIB.A.thr
Motif in other formats
JASPAR format	SP140L.H13INVIVO.0.PSGIB.A_jaspar_format.txt
MEME format	SP140L.H13INVIVO.0.PSGIB.A_meme_format.meme
Transfac format	SP140L.H13INVIVO.0.PSGIB.A_transfac_format.txt
Homer format	SP140L.H13INVIVO.0.PSGIB.A_homer_format_0.001.txt SP140L.H13INVIVO.0.PSGIB.A_homer_format_0.0005.txt SP140L.H13INVIVO.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	158.0	208.0	156.0	271.0
02	53.0	261.0	40.0	439.0
03	786.0	7.0	0.0	0.0
04	0.0	793.0	0.0	0.0
05	0.0	0.0	793.0	0.0
06	142.0	59.0	82.0	510.0
07	106.0	434.0	127.0	126.0
08	558.0	1.0	157.0	77.0
09	273.0	150.0	141.0	229.0

PFM

	A	C	G	T
01	0.199	0.262	0.197	0.342
02	0.067	0.329	0.05	0.554
03	0.991	0.009	0.0	0.0
04	0.0	1.0	0.0	0.0
05	0.0	0.0	1.0	0.0
06	0.179	0.074	0.103	0.643
07	0.134	0.547	0.16	0.159
08	0.704	0.001	0.198	0.097
09	0.344	0.189	0.178	0.289

PWM

	A	C	G	T
01	-0.225	0.048	-0.237	0.31
02	-1.297	0.273	-1.568	0.79
03	1.371	-3.138	-4.786	-4.786
04	-4.786	1.38	-4.786	-4.786
05	-4.786	-4.786	1.38	-4.786
06	-0.33	-1.192	-0.871	0.94
07	-0.619	0.779	-0.441	-0.448
08	1.029	-4.316	-0.231	-0.933
09	0.318	-0.276	-0.337	0.143

Standard thresholds

P-value	Threshold
0.001	5.374315
0.0005	5.9637
0.0001	7.06523