MEIS2.H12CORE.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEIS2.H12CORE.0.P.C
Gene (human)	MEIS2 (GeneCards)
Gene synonyms (human)	MRG1
Gene (mouse)	Meis2
Gene synonyms (mouse)	Mrg1, Stra10
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	13
Consensus	dWGAKWdAYKdbh
GC content	36.88%
Information content (bits; total / per base)	9.767 / 0.751
Data sources	ChIP-Seq
Aligned words	1000

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
Human	1 (7)	0.812	0.855	0.755	0.793	0.796	0.85	3.005	3.49	332.143	391.347

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.587	0.548	0.566	0.54	0.549	0.531
Overall, 8 experiments	best	0.73	0.65	0.699	0.634	0.662	0.611
Methyl HT-SELEX, 2 experiments	median	0.587	0.548	0.566	0.54	0.549	0.531
Methyl HT-SELEX, 2 experiments	best	0.594	0.555	0.57	0.544	0.552	0.534
Non-Methyl HT-SELEX, 6 experiments	median	0.592	0.552	0.579	0.546	0.561	0.538
Non-Methyl HT-SELEX, 6 experiments	best	0.73	0.65	0.699	0.634	0.662	0.611

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.031	1.887	0.069	0.1

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.492	0.067	0.063	0.02

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	TALE-type HD {3.1.4} (TFClass)
TF subfamily	MEIS {3.1.4.2} (TFClass)
TFClass ID	TFClass: 3.1.4.2.2
HGNC	HGNC:7001
MGI	MGI:108564
EntrezGene (human)	GeneID:4212 (SSTAR profile)
EntrezGene (mouse)	GeneID:17536 (SSTAR profile)
UniProt ID (human)	MEIS2_HUMAN
UniProt ID (mouse)	MEIS2_MOUSE
UniProt AC (human)	O14770 (TFClass)
UniProt AC (mouse)	P97367 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	MEIS2.H12CORE.0.P.C.pcm
PWM	MEIS2.H12CORE.0.P.C.pwm
PFM	MEIS2.H12CORE.0.P.C.pfm
Alignment	MEIS2.H12CORE.0.P.C.words.tsv
Threshold to P-value map	MEIS2.H12CORE.0.P.C.thr
Motif in other formats
JASPAR format	MEIS2.H12CORE.0.P.C_jaspar_format.txt
MEME format	MEIS2.H12CORE.0.P.C_meme_format.meme
Transfac format	MEIS2.H12CORE.0.P.C_transfac_format.txt
Homer format	MEIS2.H12CORE.0.P.C_homer_format_0.001.txt MEIS2.H12CORE.0.P.C_homer_format_0.0005.txt MEIS2.H12CORE.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	390.0	138.0	278.0	194.0
02	222.0	5.0	43.0	730.0
03	51.0	4.0	916.0	29.0
04	963.0	6.0	24.0	7.0
05	45.0	112.0	114.0	729.0
06	142.0	13.0	110.0	735.0
07	235.0	39.0	303.0	423.0
08	956.0	12.0	29.0	3.0
09	13.0	153.0	88.0	746.0
10	151.0	51.0	581.0	217.0
11	310.0	65.0	485.0	140.0
12	93.0	462.0	274.0	171.0
13	181.0	338.0	151.0	330.0

PFM

	A	C	G	T
01	0.39	0.138	0.278	0.194
02	0.222	0.005	0.043	0.73
03	0.051	0.004	0.916	0.029
04	0.963	0.006	0.024	0.007
05	0.045	0.112	0.114	0.729
06	0.142	0.013	0.11	0.735
07	0.235	0.039	0.303	0.423
08	0.956	0.012	0.029	0.003
09	0.013	0.153	0.088	0.746
10	0.151	0.051	0.581	0.217
11	0.31	0.065	0.485	0.14
12	0.093	0.462	0.274	0.171
13	0.181	0.338	0.151	0.33

PWM

	A	C	G	T
01	0.442	-0.589	0.105	-0.252
02	-0.118	-3.622	-1.728	1.067
03	-1.563	-3.783	1.294	-2.103
04	1.344	-3.484	-2.281	-3.362
05	-1.684	-0.795	-0.777	1.066
06	-0.56	-2.839	-0.812	1.074
07	-0.061	-1.821	0.191	0.523
08	1.336	-2.909	-2.103	-3.975
09	-2.839	-0.487	-1.032	1.089
10	-0.5	-1.563	0.839	-0.141
11	0.214	-1.328	0.659	-0.574
12	-0.977	0.611	0.091	-0.377
13	-0.32	0.3	-0.5	0.276

Standard thresholds

P-value	Threshold
0.001	4.80221
0.0005	5.62901
0.0001	7.279615