OLIG2.H12RSNP.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OLIG2.H12RSNP.1.P.B
Gene (human)	OLIG2 (GeneCards)
Gene synonyms (human)	BHLHB1, BHLHE19, PRKCBP2, RACK17
Gene (mouse)	Olig2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	9
Consensus	MCAGCTGYY
GC content	55.83%
Information content (bits; total / per base)	11.177 / 1.242
Data sources	ChIP-Seq
Aligned words	999

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	8 (40)	0.721	0.797	0.599	0.668	0.637	0.722	1.691	1.984	48.181	110.0
Mouse	9 (60)	0.84	0.887	0.704	0.774	0.777	0.846	2.136	2.492	123.829	220.31

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.847	0.783	0.746	0.706	0.656	0.641
Overall, 8 experiments	best	0.948	0.889	0.941	0.895	0.845	0.819
Methyl HT-SELEX, 2 experiments	median	0.937	0.878	0.917	0.867	0.831	0.798
Methyl HT-SELEX, 2 experiments	best	0.948	0.889	0.941	0.895	0.845	0.819
Non-Methyl HT-SELEX, 6 experiments	median	0.753	0.693	0.681	0.642	0.604	0.601
Non-Methyl HT-SELEX, 6 experiments	best	0.926	0.858	0.9	0.844	0.811	0.774

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.102	1.097	0.357	0.176

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.879	0.253	0.903	0.631
batch 2	0.631	0.378	0.639	0.452

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: 1.2.3.4.14
HGNC	HGNC:9398
MGI	MGI:1355331
EntrezGene (human)	GeneID:10215 (SSTAR profile)
EntrezGene (mouse)	GeneID:50913 (SSTAR profile)
UniProt ID (human)	OLIG2_HUMAN
UniProt ID (mouse)	OLIG2_MOUSE
UniProt AC (human)	Q13516 (TFClass)
UniProt AC (mouse)	Q9EQW6 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	8 human, 9 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	OLIG2.H12RSNP.1.P.B.pcm
PWM	OLIG2.H12RSNP.1.P.B.pwm
PFM	OLIG2.H12RSNP.1.P.B.pfm
Alignment	OLIG2.H12RSNP.1.P.B.words.tsv
Threshold to P-value map	OLIG2.H12RSNP.1.P.B.thr
Motif in other formats
JASPAR format	OLIG2.H12RSNP.1.P.B_jaspar_format.txt
MEME format	OLIG2.H12RSNP.1.P.B_meme_format.meme
Transfac format	OLIG2.H12RSNP.1.P.B_transfac_format.txt
Homer format	OLIG2.H12RSNP.1.P.B_homer_format_0.001.txt OLIG2.H12RSNP.1.P.B_homer_format_0.0005.txt OLIG2.H12RSNP.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	246.0	685.0	47.0	21.0
02	114.0	883.0	1.0	1.0
03	948.0	0.0	9.0	42.0
04	4.0	6.0	660.0	329.0
05	165.0	821.0	10.0	3.0
06	10.0	2.0	2.0	985.0
07	0.0	2.0	985.0	12.0
08	1.0	431.0	204.0	363.0
09	31.0	207.0	65.0	696.0

PFM

	A	C	G	T
01	0.246	0.686	0.047	0.021
02	0.114	0.884	0.001	0.001
03	0.949	0.0	0.009	0.042
04	0.004	0.006	0.661	0.329
05	0.165	0.822	0.01	0.003
06	0.01	0.002	0.002	0.986
07	0.0	0.002	0.986	0.012
08	0.001	0.431	0.204	0.363
09	0.031	0.207	0.065	0.697

PWM

	A	C	G	T
01	-0.015	1.005	-1.641	-2.404
02	-0.776	1.258	-4.524	-4.524
03	1.329	-4.981	-3.155	-1.749
04	-3.782	-3.483	0.968	0.274
05	-0.411	1.185	-3.065	-3.974
06	-3.065	-4.212	-4.212	1.367
07	-4.981	-4.212	1.367	-2.908
08	-4.524	0.543	-0.201	0.372
09	-2.039	-0.186	-1.327	1.02

Standard thresholds

P-value	Threshold
0.001	4.30778
0.0005	5.39717
0.0001	7.55547