MNX1.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MNX1.H12INVIVO.0.SM.D
Gene (human)	MNX1 (GeneCards)
Gene synonyms (human)	HLXB9
Gene (mouse)	Mnx1
Gene synonyms (mouse)	Hlxb9
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	12
Consensus	nvvYTAATTAbn
GC content	34.39%
Information content (bits; total / per base)	11.903 / 0.992
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9170

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.97	0.953	0.948	0.923	0.887	0.866
Overall, 3 experiments	best	0.975	0.96	0.954	0.932	0.9	0.871
Methyl HT-SELEX, 1 experiments	median	0.975	0.96	0.954	0.932	0.887	0.866
Methyl HT-SELEX, 1 experiments	best	0.975	0.96	0.954	0.932	0.887	0.866
Non-Methyl HT-SELEX, 2 experiments	median	0.754	0.739	0.734	0.719	0.705	0.69
Non-Methyl HT-SELEX, 2 experiments	best	0.97	0.953	0.948	0.923	0.9	0.871

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.742	0.163	0.762	0.523

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HOX-related {3.1.1} (TFClass)
TF subfamily	MNX {3.1.1.13} (TFClass)
TFClass ID	TFClass: 3.1.1.13.1
HGNC	HGNC:4979
MGI	MGI:109160
EntrezGene (human)	GeneID:3110 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	MNX1_HUMAN
UniProt ID (mouse)	MNX1_MOUSE
UniProt AC (human)	P50219 (TFClass)
UniProt AC (mouse)	Q9QZW9 (TFClass)
GRECO-DB-TF	yes

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

PCM	MNX1.H12INVIVO.0.SM.D.pcm
PWM	MNX1.H12INVIVO.0.SM.D.pwm
PFM	MNX1.H12INVIVO.0.SM.D.pfm
Alignment	MNX1.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	MNX1.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	MNX1.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	MNX1.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	MNX1.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	MNX1.H12INVIVO.0.SM.D_homer_format_0.001.txt MNX1.H12INVIVO.0.SM.D_homer_format_0.0005.txt MNX1.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2500.5	2253.5	2349.5	2066.5
02	1834.25	3984.25	1837.25	1514.25
03	2711.0	2188.0	3885.0	386.0
04	521.0	5113.0	969.0	2567.0
05	0.0	0.0	0.0	9170.0
06	9170.0	0.0	0.0	0.0
07	9170.0	0.0	0.0	0.0
08	0.0	0.0	0.0	9170.0
09	1.0	179.0	327.0	8663.0
10	6694.0	21.0	2397.0	58.0
11	801.5	4823.5	2336.5	1208.5
12	1721.25	2769.25	2405.25	2274.25

PFM

	A	C	G	T
01	0.273	0.246	0.256	0.225
02	0.2	0.434	0.2	0.165
03	0.296	0.239	0.424	0.042
04	0.057	0.558	0.106	0.28
05	0.0	0.0	0.0	1.0
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.02	0.036	0.945
10	0.73	0.002	0.261	0.006
11	0.087	0.526	0.255	0.132
12	0.188	0.302	0.262	0.248

PWM

	A	C	G	T
01	0.087	-0.017	0.025	-0.104
02	-0.223	0.552	-0.221	-0.414
03	0.168	-0.047	0.527	-1.777
04	-1.478	0.802	-0.86	0.113
05	-6.914	-6.914	-6.914	1.386
06	1.386	-6.914	-6.914	-6.914
07	1.386	-6.914	-6.914	-6.914
08	-6.914	-6.914	-6.914	1.386
09	-6.55	-2.538	-1.941	1.329
10	1.071	-4.591	0.045	-3.639
11	-1.049	0.743	0.019	-0.639
12	-0.286	0.189	0.048	-0.008

Standard thresholds

P-value	Threshold
0.001	3.20136
0.0005	4.98547
0.0001	7.799305