PROP1.H12RSNP.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

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

Motif length	10
Consensus	bnMATTAnvd
GC content	24.5%
Information content (bits; total / per base)	9.506 / 0.951
Data sources	ChIP-Seq
Aligned words	992

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)	0.772	0.777	0.601	0.612	0.712	0.726	1.91	1.975	127.854	154.495

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.978	0.962	0.959	0.937	0.93	0.902
Overall, 10 experiments	best	0.994	0.991	0.989	0.983	0.974	0.963
Methyl HT-SELEX, 3 experiments	median	0.98	0.962	0.973	0.954	0.959	0.936
Methyl HT-SELEX, 3 experiments	best	0.992	0.988	0.984	0.975	0.961	0.948
Non-Methyl HT-SELEX, 7 experiments	median	0.976	0.959	0.947	0.93	0.811	0.816
Non-Methyl HT-SELEX, 7 experiments	best	0.994	0.991	0.989	0.983	0.974	0.963

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.837	0.476	0.814	0.539
batch 2	0.775	0.455	0.68	0.513

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.1.P.C.pcm
PWM	PROP1.H12RSNP.1.P.C.pwm
PFM	PROP1.H12RSNP.1.P.C.pfm
Alignment	PROP1.H12RSNP.1.P.C.words.tsv
Threshold to P-value map	PROP1.H12RSNP.1.P.C.thr
Motif in other formats
JASPAR format	PROP1.H12RSNP.1.P.C_jaspar_format.txt
MEME format	PROP1.H12RSNP.1.P.C_meme_format.meme
Transfac format	PROP1.H12RSNP.1.P.C_transfac_format.txt
Homer format	PROP1.H12RSNP.1.P.C_homer_format_0.001.txt PROP1.H12RSNP.1.P.C_homer_format_0.0005.txt PROP1.H12RSNP.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	61.0	224.0	221.0	486.0
02	221.0	308.0	198.0	265.0
03	750.0	127.0	110.0	5.0
04	988.0	2.0	2.0	0.0
05	1.0	2.0	4.0	985.0
06	1.0	1.0	14.0	976.0
07	987.0	0.0	3.0	2.0
08	393.0	68.0	393.0	138.0
09	407.0	214.0	235.0	136.0
10	220.0	133.0	171.0	468.0

PFM

	A	C	G	T
01	0.061	0.226	0.223	0.49
02	0.223	0.31	0.2	0.267
03	0.756	0.128	0.111	0.005
04	0.996	0.002	0.002	0.0
05	0.001	0.002	0.004	0.993
06	0.001	0.001	0.014	0.984
07	0.995	0.0	0.003	0.002
08	0.396	0.069	0.396	0.139
09	0.41	0.216	0.237	0.137
10	0.222	0.134	0.172	0.472

PWM

	A	C	G	T
01	-1.382	-0.101	-0.114	0.669
02	-0.114	0.215	-0.223	0.066
03	1.102	-0.663	-0.804	-3.615
04	1.377	-4.205	-4.205	-4.975
05	-4.518	-4.205	-3.776	1.374
06	-4.518	-4.518	-2.765	1.365
07	1.376	-4.975	-3.968	-4.205
08	0.458	-1.276	0.458	-0.581
09	0.493	-0.146	-0.053	-0.595
10	-0.119	-0.617	-0.369	0.632

Standard thresholds

P-value	Threshold
0.001	5.293385
0.0005	6.1709
0.0001	7.458295