PROP1.H12INVITRO.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PROP1.H12INVITRO.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	bhMATTAvvh
GC content	24.59%
Information content (bits; total / per base)	9.157 / 0.916
Data sources	ChIP-Seq
Aligned words	1012

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)	0.765	0.776	0.596	0.611	0.706	0.725	1.959	2.06	124.678	154.721

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.982	0.968	0.965	0.946	0.932	0.908
Overall, 10 experiments	best	0.995	0.992	0.991	0.986	0.977	0.968
Methyl HT-SELEX, 3 experiments	median	0.984	0.97	0.978	0.962	0.961	0.941
Methyl HT-SELEX, 3 experiments	best	0.994	0.99	0.988	0.982	0.965	0.954
Non-Methyl HT-SELEX, 7 experiments	median	0.981	0.966	0.952	0.937	0.809	0.818
Non-Methyl HT-SELEX, 7 experiments	best	0.995	0.992	0.991	0.986	0.977	0.968

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.848	0.475	0.809	0.541
batch 2	0.761	0.381	0.687	0.542

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.H12INVITRO.1.P.C.pcm
PWM	PROP1.H12INVITRO.1.P.C.pwm
PFM	PROP1.H12INVITRO.1.P.C.pfm
Alignment	PROP1.H12INVITRO.1.P.C.words.tsv
Threshold to P-value map	PROP1.H12INVITRO.1.P.C.thr
Motif in other formats
JASPAR format	PROP1.H12INVITRO.1.P.C_jaspar_format.txt
MEME format	PROP1.H12INVITRO.1.P.C_meme_format.meme
Transfac format	PROP1.H12INVITRO.1.P.C_transfac_format.txt
Homer format	PROP1.H12INVITRO.1.P.C_homer_format_0.001.txt PROP1.H12INVITRO.1.P.C_homer_format_0.0005.txt PROP1.H12INVITRO.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	127.0	282.0	173.0	430.0
02	181.0	330.0	154.0	347.0
03	663.0	188.0	110.0	51.0
04	1002.0	3.0	1.0	6.0
05	3.0	4.0	0.0	1005.0
06	4.0	6.0	6.0	996.0
07	995.0	11.0	4.0	2.0
08	480.0	104.0	351.0	77.0
09	455.0	219.0	237.0	101.0
10	170.0	171.0	135.0	536.0

PFM

	A	C	G	T
01	0.125	0.279	0.171	0.425
02	0.179	0.326	0.152	0.343
03	0.655	0.186	0.109	0.05
04	0.99	0.003	0.001	0.006
05	0.003	0.004	0.0	0.993
06	0.004	0.006	0.006	0.984
07	0.983	0.011	0.004	0.002
08	0.474	0.103	0.347	0.076
09	0.45	0.216	0.234	0.1
10	0.168	0.169	0.133	0.53

PWM

	A	C	G	T
01	-0.682	0.108	-0.377	0.528
02	-0.332	0.264	-0.492	0.314
03	0.959	-0.295	-0.824	-1.575
04	1.371	-3.986	-4.536	-3.495
05	-3.986	-3.795	-4.992	1.374
06	-3.795	-3.495	-3.495	1.365
07	1.364	-2.996	-3.795	-4.224
08	0.637	-0.879	0.325	-1.174
09	0.584	-0.143	-0.065	-0.908
10	-0.394	-0.388	-0.622	0.747

Standard thresholds

P-value	Threshold
0.001	5.32975
0.0005	6.112855
0.0001	7.35851