MEIS2.H12RSNP.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEIS2.H12RSNP.2.SM.B
Gene (human)	MEIS2 (GeneCards)
Gene synonyms (human)	MRG1
Gene (mouse)	Meis2
Gene synonyms (mouse)	Mrg1, Stra10
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	14
Consensus	nWTGACAGSTKdhv
GC content	48.39%
Information content (bits; total / per base)	16.129 / 1.152
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	616

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)	0.679	0.69	0.542	0.561	0.611	0.639	1.489	1.632	72.796	105.387

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.964	0.948	0.905	0.882	0.794	0.783
Overall, 8 experiments	best	0.997	0.996	0.993	0.989	0.985	0.978
Methyl HT-SELEX, 2 experiments	median	0.964	0.948	0.905	0.882	0.794	0.783
Methyl HT-SELEX, 2 experiments	best	0.973	0.96	0.921	0.902	0.795	0.792
Non-Methyl HT-SELEX, 6 experiments	median	0.911	0.886	0.842	0.817	0.741	0.732
Non-Methyl HT-SELEX, 6 experiments	best	0.997	0.996	0.993	0.989	0.985	0.978

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.732	3.646	0.181	0.183

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.685	0.333	0.405	0.177

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.H12RSNP.2.SM.B.pcm
PWM	MEIS2.H12RSNP.2.SM.B.pwm
PFM	MEIS2.H12RSNP.2.SM.B.pfm
Alignment	MEIS2.H12RSNP.2.SM.B.words.tsv
Threshold to P-value map	MEIS2.H12RSNP.2.SM.B.thr
Motif in other formats
JASPAR format	MEIS2.H12RSNP.2.SM.B_jaspar_format.txt
MEME format	MEIS2.H12RSNP.2.SM.B_meme_format.meme
Transfac format	MEIS2.H12RSNP.2.SM.B_transfac_format.txt
Homer format	MEIS2.H12RSNP.2.SM.B_homer_format_0.001.txt MEIS2.H12RSNP.2.SM.B_homer_format_0.0005.txt MEIS2.H12RSNP.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	148.25	148.25	132.25	187.25
02	112.5	52.5	50.5	400.5
03	0.0	0.0	0.0	616.0
04	0.0	0.0	616.0	0.0
05	616.0	0.0	0.0	0.0
06	0.0	616.0	0.0	0.0
07	616.0	0.0	0.0	0.0
08	0.0	0.0	613.0	3.0
09	7.0	395.0	212.0	2.0
10	6.0	73.0	14.0	523.0
11	45.0	32.0	372.0	167.0
12	132.0	45.0	152.0	287.0
13	78.5	353.5	51.5	132.5
14	295.25	167.25	77.25	76.25

PFM

	A	C	G	T
01	0.241	0.241	0.215	0.304
02	0.183	0.085	0.082	0.65
03	0.0	0.0	0.0	1.0
04	0.0	0.0	1.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	1.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.995	0.005
09	0.011	0.641	0.344	0.003
10	0.01	0.119	0.023	0.849
11	0.073	0.052	0.604	0.271
12	0.214	0.073	0.247	0.466
13	0.127	0.574	0.084	0.215
14	0.479	0.272	0.125	0.124

PWM

	A	C	G	T
01	-0.038	-0.038	-0.151	0.194
02	-0.31	-1.056	-1.094	0.949
03	-4.574	-4.574	-4.574	1.379
04	-4.574	-4.574	1.379	-4.574
05	1.379	-4.574	-4.574	-4.574
06	-4.574	1.379	-4.574	-4.574
07	1.379	-4.574	-4.574	-4.574
08	-4.574	-4.574	1.374	-3.52
09	-2.895	0.936	0.317	-3.765
10	-3.018	-0.735	-2.3	1.215
11	-1.206	-1.533	0.876	0.08
12	-0.152	-1.206	-0.013	0.618
13	-0.664	0.825	-1.075	-0.149
14	0.646	0.082	-0.68	-0.692

Standard thresholds

P-value	Threshold
0.001	1.37952
0.0005	2.91001
0.0001	5.85332