ATOH1.H13RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATOH1.H13RSNP.0.P.B
Gene (human)	ATOH1 (GeneCards)
Gene synonyms (human)	ATH1, BHLHA14
Gene (mouse)	Atoh1
Gene synonyms (mouse)	Ath1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	10
Consensus	RRCAGMTGSh
GC content	58.49%
Information content (bits; total / per base)	12.8 / 1.28
Data sources	ChIP-Seq
Aligned words	1055
Previous names	ATOH1.H12RSNP.0.P.B

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)	0.928	0.938	0.841	0.858	0.887	0.903	2.895	3.038	169.06	275.0
Mouse	2 (14)	0.817	0.955	0.683	0.891	0.772	0.93	2.292	3.564	90.28	491.149

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.82	0.791	0.776	0.759	0.753	0.74
Overall, 4 experiments	best	0.977	0.958	0.977	0.956	0.97	0.95
Methyl HT-SELEX, 1 experiments	median	0.977	0.958	0.977	0.956	0.97	0.95
Methyl HT-SELEX, 1 experiments	best	0.977	0.958	0.977	0.956	0.97	0.95
Non-Methyl HT-SELEX, 3 experiments	median	0.672	0.637	0.586	0.579	0.546	0.548
Non-Methyl HT-SELEX, 3 experiments	best	0.968	0.946	0.966	0.939	0.959	0.931

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.933	0.804	0.914	0.614
batch 2	0.926	0.824	0.904	0.654

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	ATOH1.H13RSNP.0.P.B.pcm
PWM	ATOH1.H13RSNP.0.P.B.pwm
PFM	ATOH1.H13RSNP.0.P.B.pfm
Threshold to P-value map	ATOH1.H13RSNP.0.P.B.thr
Motif in other formats
JASPAR format	ATOH1.H13RSNP.0.P.B_jaspar_format.txt
MEME format	ATOH1.H13RSNP.0.P.B_meme_format.meme
Transfac format	ATOH1.H13RSNP.0.P.B_transfac_format.txt
Homer format	ATOH1.H13RSNP.0.P.B_homer_format_0.001.txt ATOH1.H13RSNP.0.P.B_homer_format_0.0005.txt ATOH1.H13RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	543.0	41.0	436.0	35.0
02	484.0	120.0	450.0	1.0
03	1.0	1054.0	0.0	0.0
04	1053.0	0.0	0.0	2.0
05	1.0	1.0	1025.0	28.0
06	605.0	419.0	27.0	4.0
07	14.0	1.0	0.0	1040.0
08	1.0	1.0	1051.0	2.0
09	6.0	217.0	768.0	64.0
10	152.0	447.0	113.0	343.0

PFM

	A	C	G	T
01	0.515	0.039	0.413	0.033
02	0.459	0.114	0.427	0.001
03	0.001	0.999	0.0	0.0
04	0.998	0.0	0.0	0.002
05	0.001	0.001	0.972	0.027
06	0.573	0.397	0.026	0.004
07	0.013	0.001	0.0	0.986
08	0.001	0.001	0.996	0.002
09	0.006	0.206	0.728	0.061
10	0.144	0.424	0.107	0.325

PWM

	A	C	G	T
01	0.719	-1.826	0.5	-1.978
02	0.604	-0.78	0.532	-4.574
03	-4.574	1.38	-5.028	-5.028
04	1.379	-5.028	-5.028	-4.262
05	-4.574	-4.574	1.353	-2.189
06	0.827	0.46	-2.223	-3.834
07	-2.825	-4.574	-5.028	1.367
08	-4.574	-4.574	1.378	-4.262
09	-3.535	-0.194	1.064	-1.396
10	-0.546	0.525	-0.839	0.261

Standard thresholds

P-value	Threshold
0.001	3.2218
0.0005	4.385805
0.0001	7.48198