MIXL1.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MIXL1.H12RSNP.0.SM.B
Gene (human)	MIXL1 (GeneCards)
Gene synonyms (human)	MIXL
Gene (mouse)	Mixl1
Gene synonyms (mouse)	Mix, Mml
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	16
Consensus	nvbTAATTARATTAvn
GC content	24.18%
Information content (bits; total / per base)	18.006 / 1.125
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8097

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.978	0.968	0.95	0.935	0.9	0.888
Overall, 4 experiments	best	0.999	0.999	0.999	0.998	0.997	0.995
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.999	0.998	0.997	0.995
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.999	0.998	0.997	0.995
Non-Methyl HT-SELEX, 3 experiments	median	0.957	0.938	0.903	0.874	0.811	0.789
Non-Methyl HT-SELEX, 3 experiments	best	0.999	0.998	0.998	0.996	0.989	0.986

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.95	0.343	0.93	0.611
batch 2	0.728	0.447	0.741	0.538

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.H12RSNP.0.SM.B.pcm
PWM	MIXL1.H12RSNP.0.SM.B.pwm
PFM	MIXL1.H12RSNP.0.SM.B.pfm
Alignment	MIXL1.H12RSNP.0.SM.B.words.tsv
Threshold to P-value map	MIXL1.H12RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	MIXL1.H12RSNP.0.SM.B_jaspar_format.txt
MEME format	MIXL1.H12RSNP.0.SM.B_meme_format.meme
Transfac format	MIXL1.H12RSNP.0.SM.B_transfac_format.txt
Homer format	MIXL1.H12RSNP.0.SM.B_homer_format_0.001.txt MIXL1.H12RSNP.0.SM.B_homer_format_0.0005.txt MIXL1.H12RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2235.0	2368.0	1714.0	1780.0
02	2019.75	1584.75	3415.75	1076.75
03	935.0	2657.0	1372.0	3133.0
04	85.0	104.0	24.0	7884.0
05	7862.0	0.0	229.0	6.0
06	8097.0	0.0	0.0	0.0
07	0.0	44.0	0.0	8053.0
08	0.0	379.0	78.0	7640.0
09	6848.0	157.0	1045.0	47.0
10	2099.0	656.0	5327.0	15.0
11	7023.0	146.0	774.0	154.0
12	25.0	61.0	68.0	7943.0
13	68.0	462.0	67.0	7500.0
14	7675.0	61.0	172.0	189.0
15	3171.25	1470.25	2299.25	1156.25
16	1327.5	2989.5	1604.5	2175.5

PFM

	A	C	G	T
01	0.276	0.292	0.212	0.22
02	0.249	0.196	0.422	0.133
03	0.115	0.328	0.169	0.387
04	0.01	0.013	0.003	0.974
05	0.971	0.0	0.028	0.001
06	1.0	0.0	0.0	0.0
07	0.0	0.005	0.0	0.995
08	0.0	0.047	0.01	0.944
09	0.846	0.019	0.129	0.006
10	0.259	0.081	0.658	0.002
11	0.867	0.018	0.096	0.019
12	0.003	0.008	0.008	0.981
13	0.008	0.057	0.008	0.926
14	0.948	0.008	0.021	0.023
15	0.392	0.182	0.284	0.143
16	0.164	0.369	0.198	0.269

PWM

	A	C	G	T
01	0.099	0.157	-0.166	-0.128
02	-0.002	-0.244	0.523	-0.63
03	-0.771	0.272	-0.388	0.436
04	-3.145	-2.948	-4.346	1.359
05	1.356	-6.803	-2.171	-5.504
06	1.385	-6.803	-6.803	-6.803
07	-6.803	-3.78	-6.803	1.38
08	-6.803	-1.671	-3.229	1.327
09	1.218	-2.544	-0.66	-3.717
10	0.036	-1.124	0.967	-4.766
11	1.243	-2.615	-0.96	-2.563
12	-4.309	-3.467	-3.362	1.366
13	-3.362	-1.474	-3.376	1.309
14	1.332	-3.467	-2.454	-2.36
15	0.449	-0.319	0.127	-0.559
16	-0.421	0.39	-0.232	0.072

Standard thresholds

P-value	Threshold
0.001	-0.03919
0.0005	1.56241
0.0001	4.93326