MEIS2.H12INVIVO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEIS2.H12INVIVO.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	nWTGACAGCTKdhh
GC content	48.32%
Information content (bits; total / per base)	16.229 / 1.159
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	1448

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	0.544	0.561	0.614	0.642	1.506	1.643	67.678	100.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.963	0.946	0.899	0.876	0.789	0.778
Overall, 8 experiments	best	0.997	0.995	0.993	0.989	0.983	0.977
Methyl HT-SELEX, 2 experiments	median	0.963	0.946	0.899	0.876	0.789	0.778
Methyl HT-SELEX, 2 experiments	best	0.972	0.959	0.915	0.895	0.789	0.786
Non-Methyl HT-SELEX, 6 experiments	median	0.908	0.883	0.837	0.812	0.735	0.727
Non-Methyl HT-SELEX, 6 experiments	best	0.997	0.995	0.993	0.989	0.983	0.977

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.732	3.646	0.18	0.182

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.686	0.315	0.399	0.166

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.H12INVIVO.2.SM.B.pcm
PWM	MEIS2.H12INVIVO.2.SM.B.pwm
PFM	MEIS2.H12INVIVO.2.SM.B.pfm
Alignment	MEIS2.H12INVIVO.2.SM.B.words.tsv
Threshold to P-value map	MEIS2.H12INVIVO.2.SM.B.thr
Motif in other formats
JASPAR format	MEIS2.H12INVIVO.2.SM.B_jaspar_format.txt
MEME format	MEIS2.H12INVIVO.2.SM.B_meme_format.meme
Transfac format	MEIS2.H12INVIVO.2.SM.B_transfac_format.txt
Homer format	MEIS2.H12INVIVO.2.SM.B_homer_format_0.001.txt MEIS2.H12INVIVO.2.SM.B_homer_format_0.0005.txt MEIS2.H12INVIVO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	345.5	314.5	330.5	457.5
02	332.75	146.75	98.75	869.75
03	0.0	0.0	0.0	1448.0
04	0.0	0.0	1448.0	0.0
05	1448.0	0.0	0.0	0.0
06	0.0	1448.0	0.0	0.0
07	1448.0	0.0	0.0	0.0
08	0.0	0.0	1447.0	1.0
09	6.0	1068.0	373.0	1.0
10	6.0	152.0	13.0	1277.0
11	148.0	68.0	863.0	369.0
12	321.0	128.0	373.0	626.0
13	228.75	826.75	150.75	241.75
14	669.75	346.75	198.75	232.75

PFM

	A	C	G	T
01	0.239	0.217	0.228	0.316
02	0.23	0.101	0.068	0.601
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	0.999	0.001
09	0.004	0.738	0.258	0.001
10	0.004	0.105	0.009	0.882
11	0.102	0.047	0.596	0.255
12	0.222	0.088	0.258	0.432
13	0.158	0.571	0.104	0.167
14	0.463	0.239	0.137	0.161

PWM

	A	C	G	T
01	-0.046	-0.14	-0.091	0.233
02	-0.084	-0.896	-1.286	0.874
03	-5.298	-5.298	-5.298	1.383
04	-5.298	-5.298	1.383	-5.298
05	1.383	-5.298	-5.298	-5.298
06	-5.298	1.383	-5.298	-5.298
07	1.383	-5.298	-5.298	-5.298
08	-5.298	-5.298	1.382	-4.86
09	-3.84	1.079	0.03	-4.86
10	-3.84	-0.861	-3.201	1.257
11	-0.887	-1.651	0.866	0.019
12	-0.12	-1.031	0.03	0.546
13	-0.456	0.823	-0.869	-0.401
14	0.613	-0.043	-0.595	-0.439

Standard thresholds

P-value	Threshold
0.001	0.28731
0.0005	2.13166
0.0001	5.20522