PROP1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PROP1.H12RSNP.0.PSM.A
Gene (human)	PROP1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Prop1
Gene synonyms (mouse)	Prop-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	18
Consensus	nnvbTAATTARATTAvbn
GC content	22.26%
Information content (bits; total / per base)	19.178 / 1.065
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	888

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
Mouse	1 (7)	0.9	0.907	0.813	0.834	0.884	0.9	3.513	3.598	316.347	356.18

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.998	0.997	0.994	0.991	0.964	0.96
Overall, 10 experiments	best	1.0	1.0	1.0	0.999	0.999	0.998
Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.998	0.997	0.984	0.982
Methyl HT-SELEX, 3 experiments	best	0.999	0.999	0.999	0.998	0.995	0.993
Non-Methyl HT-SELEX, 7 experiments	median	0.997	0.994	0.992	0.99	0.848	0.871
Non-Methyl HT-SELEX, 7 experiments	best	1.0	1.0	1.0	0.999	0.999	0.998

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.978	0.839	0.961	0.638
batch 2	0.934	0.745	0.859	0.655

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	PROP {3.1.3.20} (TFClass)
TFClass ID	TFClass: 3.1.3.20.1
HGNC	HGNC:9455
MGI	MGI:109330
EntrezGene (human)	GeneID:5626 (SSTAR profile)
EntrezGene (mouse)	GeneID:19127 (SSTAR profile)
UniProt ID (human)	PROP1_HUMAN
UniProt ID (mouse)	PROP1_MOUSE
UniProt AC (human)	O75360 (TFClass)
UniProt AC (mouse)	P97458 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 1 mouse
HT-SELEX	7
Methyl-HT-SELEX	3

PCM	PROP1.H12RSNP.0.PSM.A.pcm
PWM	PROP1.H12RSNP.0.PSM.A.pwm
PFM	PROP1.H12RSNP.0.PSM.A.pfm
Alignment	PROP1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	PROP1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	PROP1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	PROP1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	PROP1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	PROP1.H12RSNP.0.PSM.A_homer_format_0.001.txt PROP1.H12RSNP.0.PSM.A_homer_format_0.0005.txt PROP1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	258.5	187.5	202.5	239.5
02	301.0	260.0	136.0	191.0
03	307.0	174.0	311.0	96.0
04	103.0	273.0	118.0	394.0
05	11.0	6.0	3.0	868.0
06	887.0	0.0	1.0	0.0
07	887.0	0.0	1.0	0.0
08	0.0	1.0	2.0	885.0
09	0.0	28.0	3.0	857.0
10	745.0	2.0	124.0	17.0
11	500.0	31.0	352.0	5.0
12	808.0	12.0	42.0	26.0
13	1.0	1.0	5.0	881.0
14	10.0	6.0	0.0	872.0
15	839.0	9.0	14.0	26.0
16	403.0	116.0	255.0	114.0
17	110.25	294.25	188.25	295.25
18	163.25	152.25	247.25	325.25

PFM

	A	C	G	T
01	0.291	0.211	0.228	0.27
02	0.339	0.293	0.153	0.215
03	0.346	0.196	0.35	0.108
04	0.116	0.307	0.133	0.444
05	0.012	0.007	0.003	0.977
06	0.999	0.0	0.001	0.0
07	0.999	0.0	0.001	0.0
08	0.0	0.001	0.002	0.997
09	0.0	0.032	0.003	0.965
10	0.839	0.002	0.14	0.019
11	0.563	0.035	0.396	0.006
12	0.91	0.014	0.047	0.029
13	0.001	0.001	0.006	0.992
14	0.011	0.007	0.0	0.982
15	0.945	0.01	0.016	0.029
16	0.454	0.131	0.287	0.128
17	0.124	0.331	0.212	0.332
18	0.184	0.171	0.278	0.366

PWM

	A	C	G	T
01	0.151	-0.168	-0.091	0.075
02	0.302	0.157	-0.485	-0.149
03	0.322	-0.242	0.335	-0.828
04	-0.759	0.205	-0.625	0.57
05	-2.869	-3.369	-3.863	1.358
06	1.379	-4.881	-4.418	-4.881
07	1.379	-4.881	-4.418	-4.881
08	-4.881	-4.418	-4.103	1.377
09	-4.881	-2.019	-3.863	1.345
10	1.205	-4.103	-0.576	-2.482
11	0.808	-1.923	0.458	-3.509
12	1.286	-2.793	-1.633	-2.089
13	-4.418	-4.418	-3.509	1.373
14	-2.951	-3.369	-4.881	1.362
15	1.324	-3.04	-2.657	-2.089
16	0.593	-0.642	0.138	-0.659
17	-0.692	0.28	-0.164	0.283
18	-0.305	-0.374	0.107	0.38

Standard thresholds

P-value	Threshold
0.001	-0.43599
0.0005	1.13431
0.0001	4.49226