MEIS2.H12INVITRO.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEIS2.H12INVITRO.1.PSM.A
Gene (human)	MEIS2 (GeneCards)
Gene synonyms (human)	MRG1
Gene (mouse)	Meis2
Gene synonyms (mouse)	Mrg1, Stra10
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	11
Consensus	nhWGACAdnnn
GC content	46.35%
Information content (bits; total / per base)	9.142 / 0.831
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9889

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)	0.719	0.73	0.566	0.579	0.669	0.68	1.672	1.728	100.77	156.699

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.97	0.953	0.927	0.904	0.826	0.811
Overall, 8 experiments	best	0.997	0.994	0.994	0.991	0.99	0.985
Methyl HT-SELEX, 2 experiments	median	0.97	0.953	0.927	0.904	0.826	0.811
Methyl HT-SELEX, 2 experiments	best	0.978	0.964	0.941	0.922	0.83	0.817
Non-Methyl HT-SELEX, 6 experiments	median	0.948	0.925	0.893	0.871	0.792	0.786
Non-Methyl HT-SELEX, 6 experiments	best	0.997	0.994	0.994	0.991	0.99	0.985

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.353	3.361	0.177	0.169

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.716	0.366	0.469	0.205

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.H12INVITRO.1.PSM.A.pcm
PWM	MEIS2.H12INVITRO.1.PSM.A.pwm
PFM	MEIS2.H12INVITRO.1.PSM.A.pfm
Alignment	MEIS2.H12INVITRO.1.PSM.A.words.tsv
Threshold to P-value map	MEIS2.H12INVITRO.1.PSM.A.thr
Motif in other formats
JASPAR format	MEIS2.H12INVITRO.1.PSM.A_jaspar_format.txt
MEME format	MEIS2.H12INVITRO.1.PSM.A_meme_format.meme
Transfac format	MEIS2.H12INVITRO.1.PSM.A_transfac_format.txt
Homer format	MEIS2.H12INVITRO.1.PSM.A_homer_format_0.001.txt MEIS2.H12INVITRO.1.PSM.A_homer_format_0.0005.txt MEIS2.H12INVITRO.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3737.75	2169.75	2008.75	1972.75
02	4002.0	1848.0	1631.0	2408.0
03	1442.0	290.0	405.0	7752.0
04	1.0	0.0	9888.0	0.0
05	9866.0	0.0	0.0	23.0
06	0.0	9885.0	0.0	4.0
07	9277.0	0.0	612.0	0.0
08	1825.0	1274.0	4992.0	1798.0
09	1553.0	3517.0	2999.0	1820.0
10	2007.5	2558.5	1662.5	3660.5
11	2391.0	2331.0	2349.0	2818.0

PFM

	A	C	G	T
01	0.378	0.219	0.203	0.199
02	0.405	0.187	0.165	0.244
03	0.146	0.029	0.041	0.784
04	0.0	0.0	1.0	0.0
05	0.998	0.0	0.0	0.002
06	0.0	1.0	0.0	0.0
07	0.938	0.0	0.062	0.0
08	0.185	0.129	0.505	0.182
09	0.157	0.356	0.303	0.184
10	0.203	0.259	0.168	0.37
11	0.242	0.236	0.238	0.285

PWM

	A	C	G	T
01	0.413	-0.13	-0.207	-0.225
02	0.481	-0.291	-0.415	-0.026
03	-0.538	-2.136	-1.804	1.142
04	-6.62	-6.981	1.385	-6.981
05	1.383	-6.981	-6.981	-4.583
06	-6.981	1.385	-6.981	-5.973
07	1.322	-6.981	-1.393	-6.981
08	-0.303	-0.662	0.702	-0.318
09	-0.464	0.352	0.193	-0.306
10	-0.208	0.034	-0.396	0.392
11	-0.033	-0.059	-0.051	0.131

Standard thresholds

P-value	Threshold
0.001	5.438655
0.0005	6.2427
0.0001	7.36666