MIXL1.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MIXL1.H12INVIVO.1.S.D
Gene (human)	MIXL1 (GeneCards)
Gene synonyms (human)	MIXL
Gene (mouse)	Mixl1
Gene synonyms (mouse)	Mix, Mml
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	12
Consensus	nnTAATTARnbn
GC content	26.12%
Information content (bits; total / per base)	11.842 / 0.987
Data sources	HT-SELEX
Aligned words	8791

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.977	0.958	0.963	0.942	0.916	0.896
Overall, 4 experiments	best	0.992	0.985	0.988	0.98	0.973	0.961
Methyl HT-SELEX, 1 experiments	median	0.986	0.972	0.981	0.967	0.966	0.949
Methyl HT-SELEX, 1 experiments	best	0.986	0.972	0.981	0.967	0.966	0.949
Non-Methyl HT-SELEX, 3 experiments	median	0.968	0.945	0.944	0.916	0.865	0.843
Non-Methyl HT-SELEX, 3 experiments	best	0.992	0.985	0.988	0.98	0.973	0.961

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.863	0.12	0.832	0.552
batch 2	0.702	0.385	0.662	0.501

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	MIX {3.1.3.14} (TFClass)
TFClass ID	TFClass: 3.1.3.14.1
HGNC	HGNC:13363
MGI	MGI:1351322
EntrezGene (human)	GeneID:83881 (SSTAR profile)
EntrezGene (mouse)	GeneID:27217 (SSTAR profile)
UniProt ID (human)	MIXL1_HUMAN
UniProt ID (mouse)	MIXL1_MOUSE
UniProt AC (human)	Q9H2W2 (TFClass)
UniProt AC (mouse)	Q9WUI0 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	MIXL1.H12INVIVO.1.S.D.pcm
PWM	MIXL1.H12INVIVO.1.S.D.pwm
PFM	MIXL1.H12INVIVO.1.S.D.pfm
Alignment	MIXL1.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	MIXL1.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	MIXL1.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	MIXL1.H12INVIVO.1.S.D_meme_format.meme
Transfac format	MIXL1.H12INVIVO.1.S.D_transfac_format.txt
Homer format	MIXL1.H12INVIVO.1.S.D_homer_format_0.001.txt MIXL1.H12INVIVO.1.S.D_homer_format_0.0005.txt MIXL1.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2208.25	1869.25	1956.25	2757.25
02	1487.75	1877.75	2267.75	3157.75
03	179.0	1426.0	149.0	7037.0
04	8266.0	51.0	473.0	1.0
05	8791.0	0.0	0.0	0.0
06	0.0	0.0	0.0	8791.0
07	0.0	0.0	0.0	8791.0
08	8791.0	0.0	0.0	0.0
09	3300.0	455.0	5022.0	14.0
10	1443.0	2908.0	1521.0	2919.0
11	1076.75	1744.75	2321.75	3647.75
12	2298.0	1887.0	1625.0	2981.0

PFM

	A	C	G	T
01	0.251	0.213	0.223	0.314
02	0.169	0.214	0.258	0.359
03	0.02	0.162	0.017	0.8
04	0.94	0.006	0.054	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	0.0	1.0
08	1.0	0.0	0.0	0.0
09	0.375	0.052	0.571	0.002
10	0.164	0.331	0.173	0.332
11	0.122	0.198	0.264	0.415
12	0.261	0.215	0.185	0.339

PWM

	A	C	G	T
01	0.005	-0.162	-0.116	0.227
02	-0.39	-0.157	0.031	0.362
03	-2.496	-0.432	-2.677	1.163
04	1.324	-3.721	-1.532	-6.511
05	1.386	-6.876	-6.876	-6.876
06	-6.876	-6.876	-6.876	1.386
07	-6.876	-6.876	-6.876	1.386
08	1.386	-6.876	-6.876	-6.876
09	0.406	-1.571	0.826	-4.907
10	-0.42	0.28	-0.368	0.284
11	-0.712	-0.231	0.055	0.506
12	0.045	-0.152	-0.302	0.305

Standard thresholds

P-value	Threshold
0.001	3.174965
0.0005	5.02447
0.0001	7.91768