ATOH1.H12RSNP.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATOH1.H12RSNP.1.SM.B
Gene (human)	ATOH1 (GeneCards)
Gene synonyms (human)	ATH1, BHLHA14
Gene (mouse)	Atoh1
Gene synonyms (mouse)	Ath1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	14
Consensus	nvbGMCATATGYYn
GC content	44.79%
Information content (bits; total / per base)	15.371 / 1.098
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	5925

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	2 (14)	0.868	0.891	0.738	0.775	0.802	0.847	2.391	2.778	71.398	139.06
Mouse	2 (14)	0.76	0.919	0.605	0.787	0.671	0.871	1.811	2.792	40.6	236.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.839	0.838	0.79	0.792	0.761	0.762
Overall, 4 experiments	best	0.999	0.998	0.997	0.996	0.983	0.979
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.997	0.996	0.983	0.979
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.997	0.996	0.983	0.979
Non-Methyl HT-SELEX, 3 experiments	median	0.682	0.684	0.59	0.598	0.546	0.558
Non-Methyl HT-SELEX, 3 experiments	best	0.996	0.992	0.991	0.986	0.975	0.967

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.969	0.905	0.95	0.621
batch 2	0.962	0.91	0.911	0.62

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Tal-related {1.2.3} (TFClass)
TF subfamily	Neurogenin-ATO {1.2.3.4} (TFClass)
TFClass ID	TFClass: 1.2.3.4.8
HGNC	HGNC:797
MGI	MGI:104654
EntrezGene (human)	GeneID:474 (SSTAR profile)
EntrezGene (mouse)	GeneID:11921 (SSTAR profile)
UniProt ID (human)	ATOH1_HUMAN
UniProt ID (mouse)	ATOH1_MOUSE
UniProt AC (human)	Q92858 (TFClass)
UniProt AC (mouse)	P48985 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	ATOH1.H12RSNP.1.SM.B.pcm
PWM	ATOH1.H12RSNP.1.SM.B.pwm
PFM	ATOH1.H12RSNP.1.SM.B.pfm
Alignment	ATOH1.H12RSNP.1.SM.B.words.tsv
Threshold to P-value map	ATOH1.H12RSNP.1.SM.B.thr
Motif in other formats
JASPAR format	ATOH1.H12RSNP.1.SM.B_jaspar_format.txt
MEME format	ATOH1.H12RSNP.1.SM.B_meme_format.meme
Transfac format	ATOH1.H12RSNP.1.SM.B_transfac_format.txt
Homer format	ATOH1.H12RSNP.1.SM.B_homer_format_0.001.txt ATOH1.H12RSNP.1.SM.B_homer_format_0.0005.txt ATOH1.H12RSNP.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1415.5	1785.5	1603.5	1120.5
02	1953.25	884.25	2298.25	789.25
03	326.0	3034.0	981.0	1584.0
04	2238.0	10.0	3676.0	1.0
05	3282.0	2614.0	18.0	11.0
06	0.0	5925.0	0.0	0.0
07	5925.0	0.0	0.0	0.0
08	0.0	0.0	109.0	5816.0
09	5802.0	123.0	0.0	0.0
10	0.0	0.0	0.0	5925.0
11	0.0	0.0	5925.0	0.0
12	2.0	1679.0	1582.0	2662.0
13	199.0	1424.0	373.0	3929.0
14	1418.0	1731.0	1379.0	1397.0

PFM

	A	C	G	T
01	0.239	0.301	0.271	0.189
02	0.33	0.149	0.388	0.133
03	0.055	0.512	0.166	0.267
04	0.378	0.002	0.62	0.0
05	0.554	0.441	0.003	0.002
06	0.0	1.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.018	0.982
09	0.979	0.021	0.0	0.0
10	0.0	0.0	0.0	1.0
11	0.0	0.0	1.0	0.0
12	0.0	0.283	0.267	0.449
13	0.034	0.24	0.063	0.663
14	0.239	0.292	0.233	0.236

PWM

	A	C	G	T
01	-0.045	0.187	0.079	-0.279
02	0.276	-0.515	0.439	-0.628
03	-1.509	0.716	-0.411	0.067
04	0.412	-4.803	0.908	-6.148
05	0.795	0.567	-4.298	-4.724
06	-6.527	1.385	-6.527	-6.527
07	1.385	-6.527	-6.527	-6.527
08	-6.527	-6.527	-2.591	1.367
09	1.364	-2.472	-6.527	-6.527
10	-6.527	-6.527	-6.527	1.385
11	-6.527	-6.527	1.385	-6.527
12	-5.874	0.125	0.066	0.586
13	-1.998	-0.039	-1.375	0.975
14	-0.044	0.156	-0.071	-0.058

Standard thresholds

P-value	Threshold
0.001	-0.31949
0.0005	1.65177
0.0001	5.138615