PROP1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PROP1.H12INVIVO.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	11
Consensus	WAATKAvRTTW
GC content	16.06%
Information content (bits; total / per base)	12.486 / 1.135
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
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)	0.917	0.925	0.84	0.86	0.922	0.935	3.89	3.992	379.824	423.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.998	0.996	0.996	0.993	0.994	0.99
Overall, 10 experiments	best	1.0	0.999	1.0	0.999	0.999	0.999
Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.998	0.997	0.996	0.995
Methyl HT-SELEX, 3 experiments	best	0.999	0.998	0.999	0.998	0.998	0.997
Non-Methyl HT-SELEX, 7 experiments	median	0.996	0.992	0.991	0.989	0.843	0.868
Non-Methyl HT-SELEX, 7 experiments	best	1.0	0.999	1.0	0.999	0.999	0.999

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.929	0.65	0.928	0.629
batch 2	0.892	0.587	0.882	0.699

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.H12INVIVO.0.PSM.A.pcm
PWM	PROP1.H12INVIVO.0.PSM.A.pwm
PFM	PROP1.H12INVIVO.0.PSM.A.pfm
Alignment	PROP1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	PROP1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	PROP1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	PROP1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	PROP1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	PROP1.H12INVIVO.0.PSM.A_homer_format_0.001.txt PROP1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt PROP1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	170.0	53.0	31.0	738.0
02	912.0	1.0	43.0	36.0
03	991.0	0.0	1.0	0.0
04	27.0	57.0	60.0	848.0
05	84.0	123.0	160.0	625.0
06	511.0	0.0	481.0	0.0
07	506.0	137.0	300.0	49.0
08	774.0	13.0	135.0	70.0
09	16.0	1.0	1.0	974.0
10	45.0	73.0	1.0	873.0
11	754.0	36.0	45.0	157.0

PFM

	A	C	G	T
01	0.171	0.053	0.031	0.744
02	0.919	0.001	0.043	0.036
03	0.999	0.0	0.001	0.0
04	0.027	0.057	0.06	0.855
05	0.085	0.124	0.161	0.63
06	0.515	0.0	0.485	0.0
07	0.51	0.138	0.302	0.049
08	0.78	0.013	0.136	0.071
09	0.016	0.001	0.001	0.982
10	0.045	0.074	0.001	0.88
11	0.76	0.036	0.045	0.158

PWM

	A	C	G	T
01	-0.374	-1.518	-2.032	1.086
02	1.297	-4.518	-1.72	-1.89
03	1.38	-4.975	-4.518	-4.975
04	-2.163	-1.447	-1.398	1.225
05	-1.069	-0.694	-0.434	0.92
06	0.719	-4.975	0.659	-4.975
07	0.71	-0.588	0.189	-1.594
08	1.133	-2.831	-0.602	-1.248
09	-2.645	-4.518	-4.518	1.363
10	-1.676	-1.207	-4.518	1.254
11	1.107	-1.89	-1.676	-0.453

Standard thresholds

P-value	Threshold
0.001	3.99587
0.0005	5.046305
0.0001	7.19882