MAFA.H12RSNP.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MAFA.H12RSNP.1.M.C
Gene (human)	MAFA (GeneCards)
Gene synonyms (human)
Gene (mouse)	Mafa
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	19
Consensus	ndWhnTGCTGACTCAGCRn
GC content	49.44%
Information content (bits; total / per base)	20.844 / 1.097
Data sources	Methyl-HT-SELEX
Aligned words	1204

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
Mouse	1 (5)	0.734	0.769	0.651	0.654	0.676	0.722	2.159	2.219	75.444	88.041

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.996	0.995	0.984	0.979	0.924	0.917
Overall, 2 experiments	best	0.996	0.995	0.987	0.982	0.938	0.93
Methyl HT-SELEX, 1 experiments	median	0.996	0.995	0.982	0.976	0.91	0.904
Methyl HT-SELEX, 1 experiments	best	0.996	0.995	0.982	0.976	0.91	0.904
Non-Methyl HT-SELEX, 1 experiments	median	0.996	0.995	0.987	0.982	0.938	0.93
Non-Methyl HT-SELEX, 1 experiments	best	0.996	0.995	0.987	0.982	0.938	0.93

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.645	0.313	0.574	0.358

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	Maf-related {1.1.3} (TFClass)
TF subfamily	Large MAF {1.1.3.1} (TFClass)
TFClass ID	TFClass: 1.1.3.1.2
HGNC	HGNC:23145
MGI	MGI:2673307
EntrezGene (human)	GeneID:389692 (SSTAR profile)
EntrezGene (mouse)	GeneID:378435 (SSTAR profile)
UniProt ID (human)	MAFA_HUMAN
UniProt ID (mouse)	MAFA_MOUSE
UniProt AC (human)	Q8NHW3 (TFClass)
UniProt AC (mouse)	Q8CF90 (TFClass)
GRECO-DB-TF	yes

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

PCM	MAFA.H12RSNP.1.M.C.pcm
PWM	MAFA.H12RSNP.1.M.C.pwm
PFM	MAFA.H12RSNP.1.M.C.pfm
Alignment	MAFA.H12RSNP.1.M.C.words.tsv
Threshold to P-value map	MAFA.H12RSNP.1.M.C.thr
Motif in other formats
JASPAR format	MAFA.H12RSNP.1.M.C_jaspar_format.txt
MEME format	MAFA.H12RSNP.1.M.C_meme_format.meme
Transfac format	MAFA.H12RSNP.1.M.C_transfac_format.txt
Homer format	MAFA.H12RSNP.1.M.C_homer_format_0.001.txt MAFA.H12RSNP.1.M.C_homer_format_0.0005.txt MAFA.H12RSNP.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	412.0	245.0	306.0	241.0
02	536.0	116.0	239.0	313.0
03	573.0	74.0	68.0	489.0
04	527.0	112.0	86.0	479.0
05	369.0	212.0	238.0	385.0
06	27.0	303.0	6.0	868.0
07	0.0	0.0	1204.0	0.0
08	1.0	1203.0	0.0	0.0
09	0.0	1.0	0.0	1203.0
10	0.0	0.0	1203.0	1.0
11	1204.0	0.0	0.0	0.0
12	4.0	922.0	262.0	16.0
13	33.0	8.0	80.0	1083.0
14	33.0	1102.0	10.0	59.0
15	1084.0	53.0	52.0	15.0
16	54.0	9.0	1080.0	61.0
17	12.0	1105.0	74.0	13.0
18	697.0	89.0	319.0	99.0
19	386.25	300.25	229.25	288.25

PFM

	A	C	G	T
01	0.342	0.203	0.254	0.2
02	0.445	0.096	0.199	0.26
03	0.476	0.061	0.056	0.406
04	0.438	0.093	0.071	0.398
05	0.306	0.176	0.198	0.32
06	0.022	0.252	0.005	0.721
07	0.0	0.0	1.0	0.0
08	0.001	0.999	0.0	0.0
09	0.0	0.001	0.0	0.999
10	0.0	0.0	0.999	0.001
11	1.0	0.0	0.0	0.0
12	0.003	0.766	0.218	0.013
13	0.027	0.007	0.066	0.9
14	0.027	0.915	0.008	0.049
15	0.9	0.044	0.043	0.012
16	0.045	0.007	0.897	0.051
17	0.01	0.918	0.061	0.011
18	0.579	0.074	0.265	0.082
19	0.321	0.249	0.19	0.239

PWM

	A	C	G	T
01	0.312	-0.205	0.016	-0.221
02	0.574	-0.944	-0.229	0.039
03	0.641	-1.385	-1.468	0.483
04	0.558	-0.979	-1.238	0.462
05	0.203	-0.348	-0.233	0.245
06	-2.354	0.007	-3.662	1.055
07	-5.14	-5.14	1.382	-5.14
08	-4.693	1.381	-5.14	-5.14
09	-5.14	-4.693	-5.14	1.381
10	-5.14	-5.14	1.381	-4.693
11	1.382	-5.14	-5.14	-5.14
12	-3.96	1.115	-0.138	-2.835
13	-2.164	-3.433	-1.309	1.276
14	-2.164	1.294	-3.247	-1.606
15	1.277	-1.71	-1.728	-2.893
16	-1.692	-3.336	1.273	-1.573
17	-3.09	1.296	-1.385	-3.02
18	0.836	-1.205	0.058	-1.1
19	0.248	-0.002	-0.27	-0.043

Standard thresholds

P-value	Threshold
0.001	-1.63559
0.0005	0.06326
0.0001	3.64051