OLIG2.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OLIG2.H12INVITRO.2.SM.B
Gene (human)	OLIG2 (GeneCards)
Gene synonyms (human)	BHLHB1, BHLHE19, PRKCBP2, RACK17
Gene (mouse)	Olig2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	11
Consensus	nvCATATGKYn
GC content	36.75%
Information content (bits; total / per base)	11.256 / 1.023
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9325

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)	0.627	0.693	0.447	0.537	0.559	0.648	1.333	1.672	15.503	65.921
Mouse	9 (60)	0.698	0.751	0.517	0.585	0.725	0.799	2.019	2.494	68.688	123.398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.92	0.894	0.788	0.774	0.681	0.683
Overall, 8 experiments	best	0.998	0.996	0.986	0.982	0.892	0.892
Methyl HT-SELEX, 2 experiments	median	0.988	0.981	0.965	0.953	0.875	0.866
Methyl HT-SELEX, 2 experiments	best	0.998	0.996	0.986	0.982	0.892	0.892
Non-Methyl HT-SELEX, 6 experiments	median	0.817	0.786	0.702	0.7	0.608	0.625
Non-Methyl HT-SELEX, 6 experiments	best	0.99	0.985	0.958	0.946	0.86	0.852

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.5	1.494	0.331	0.144

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.924	0.595	0.903	0.59
batch 2	0.659	0.413	0.628	0.471

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.H12INVITRO.2.SM.B.pcm
PWM	OLIG2.H12INVITRO.2.SM.B.pwm
PFM	OLIG2.H12INVITRO.2.SM.B.pfm
Alignment	OLIG2.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	OLIG2.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	OLIG2.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	OLIG2.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	OLIG2.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	OLIG2.H12INVITRO.2.SM.B_homer_format_0.001.txt OLIG2.H12INVITRO.2.SM.B_homer_format_0.0005.txt OLIG2.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3166.75	1539.75	2251.75	2366.75
02	2085.75	4960.75	1301.75	976.75
03	2084.0	6997.0	180.0	64.0
04	8338.0	21.0	517.0	449.0
05	2.0	170.0	556.0	8597.0
06	8827.0	476.0	22.0	0.0
07	57.0	238.0	2.0	9028.0
08	0.0	1.0	9314.0	10.0
09	34.0	1259.0	2801.0	5231.0
10	695.75	956.75	537.75	7134.75
11	2486.5	1936.5	1652.5	3249.5

PFM

	A	C	G	T
01	0.34	0.165	0.241	0.254
02	0.224	0.532	0.14	0.105
03	0.223	0.75	0.019	0.007
04	0.894	0.002	0.055	0.048
05	0.0	0.018	0.06	0.922
06	0.947	0.051	0.002	0.0
07	0.006	0.026	0.0	0.968
08	0.0	0.0	0.999	0.001
09	0.004	0.135	0.3	0.561
10	0.075	0.103	0.058	0.765
11	0.267	0.208	0.177	0.348

PWM

	A	C	G	T
01	0.306	-0.414	-0.035	0.015
02	-0.111	0.755	-0.582	-0.869
03	-0.112	1.098	-2.55	-3.561
04	1.274	-4.607	-1.503	-1.643
05	-6.3	-2.606	-1.43	1.304
06	1.331	-1.585	-4.565	-6.929
07	-3.673	-2.273	-6.3	1.353
08	-6.929	-6.566	1.384	-5.247
09	-4.164	-0.615	0.183	0.808
10	-1.207	-0.889	-1.464	1.118
11	0.064	-0.185	-0.344	0.332

Standard thresholds

P-value	Threshold
0.001	4.305875
0.0005	5.41425
0.0001	7.42118