MYPOP.H13RSNP.0.PSGB.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYPOP.H13RSNP.0.PSGB.D
Gene (human)	MYPOP (GeneCards)
Gene synonyms (human)	P42POP
Gene (mouse)	Mypop
Gene synonyms (mouse)	P42pop
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	9
Consensus	vGCGCAAhn
GC content	57.41%
Information content (bits; total / per base)	9.728 / 1.081
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + PBM
Aligned words	810
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)	0.79	0.793	0.57	0.577	0.397	0.403	23.887	26.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 5 experiments	median	1.0	1.0	0.998	0.997	0.994	0.992
overall, 5 experiments	best	1.0	1.0	0.999	0.999	0.996	0.995
Lysate, 2 experiments	median	1.0	1.0	0.999	0.999	0.996	0.994
Lysate, 2 experiments	best	1.0	1.0	0.999	0.999	0.996	0.995
IVT, 2 experiments	median	0.997	0.996	0.995	0.992	0.99	0.985
IVT, 2 experiments	best	0.999	0.999	0.997	0.995	0.993	0.99
GFPIVT, 1 experiments	median	1.0	1.0	0.998	0.997	0.994	0.992
GFPIVT, 1 experiments	best	1.0	1.0	0.998	0.997	0.994	0.992

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 5 experiments	median	146.927	0.728	0.937	0.893
overall, 5 experiments	best	584.678	0.832	0.966	0.925
Lysate, 2 experiments	median	156.856	0.709	0.944	0.9
Lysate, 2 experiments	best	405.444	0.778	0.956	0.918
IVT, 2 experiments	median	369.266	0.779	0.948	0.891
IVT, 2 experiments	best	584.678	0.832	0.966	0.925
GFPIVT, 1 experiments	median	84.597	0.73	0.92	0.881
GFPIVT, 1 experiments	best	140.0	0.73	0.92	0.893

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 4 experiments	median	0.965	0.338	0.978	0.448
Overall, 4 experiments	best	0.973	0.359	0.978	0.452

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Myb/SANT domain {3.5.1} (TFClass)
TF subfamily	Other Myb-like {3.5.1.0} (TFClass)
TFClass ID	TFClass: 3.5.1.0.5
HGNC	HGNC:20178
MGI	MGI:2446472
EntrezGene (human)	GeneID:339344 (SSTAR profile)
EntrezGene (mouse)	GeneID:232934 (SSTAR profile)
UniProt ID (human)	MYPOP_HUMAN
UniProt ID (mouse)	MYPOP_MOUSE
UniProt AC (human)	Q86VE0 (TFClass)
UniProt AC (mouse)	Q8R4U1 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	5 overall: 2 Lysate, 2 IVT, 1 GFPIVT
Genomic HT-SELEX	5 overall: 2 Lysate, 2 IVT, 1 GFPIVT
SMiLE-Seq	0
PBM	4

PCM	MYPOP.H13RSNP.0.PSGB.D.pcm
PWM	MYPOP.H13RSNP.0.PSGB.D.pwm
PFM	MYPOP.H13RSNP.0.PSGB.D.pfm
Threshold to P-value map	MYPOP.H13RSNP.0.PSGB.D.thr
Motif in other formats
JASPAR format	MYPOP.H13RSNP.0.PSGB.D_jaspar_format.txt
MEME format	MYPOP.H13RSNP.0.PSGB.D_meme_format.meme
Transfac format	MYPOP.H13RSNP.0.PSGB.D_transfac_format.txt
Homer format	MYPOP.H13RSNP.0.PSGB.D_homer_format_0.001.txt MYPOP.H13RSNP.0.PSGB.D_homer_format_0.0005.txt MYPOP.H13RSNP.0.PSGB.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	227.0	139.0	320.0	124.0
02	151.0	5.0	618.0	36.0
03	0.0	807.0	0.0	3.0
04	0.0	0.0	810.0	0.0
05	0.0	810.0	0.0	0.0
06	485.0	0.0	0.0	325.0
07	724.0	7.0	72.0	7.0
08	363.0	126.0	91.0	230.0
09	212.0	202.0	178.0	218.0

PFM

	A	C	G	T
01	0.28	0.172	0.395	0.153
02	0.186	0.006	0.763	0.044
03	0.0	0.996	0.0	0.004
04	0.0	0.0	1.0	0.0
05	0.0	1.0	0.0	0.0
06	0.599	0.0	0.0	0.401
07	0.894	0.009	0.089	0.009
08	0.448	0.156	0.112	0.284
09	0.262	0.249	0.22	0.269

PWM

	A	C	G	T
01	0.113	-0.373	0.455	-0.485
02	-0.291	-3.421	1.11	-1.69
03	-4.804	1.376	-4.804	-3.777
04	-4.804	-4.804	1.38	-4.804
05	-4.804	1.38	-4.804	-4.804
06	0.869	-4.804	-4.804	0.47
07	1.268	-3.159	-1.019	-3.159
08	0.58	-0.469	-0.79	0.126
09	0.045	-0.002	-0.128	0.073

Standard thresholds

P-value	Threshold
0.001	5.17546
0.0005	6.215545
0.0001	7.579045