OLIG2.H12RSNP.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OLIG2.H12RSNP.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	16
Consensus	ndvCATATGKThnhnn
GC content	39.23%
Information content (bits; total / per base)	13.548 / 0.847
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2485

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)	0.61	0.67	0.432	0.515	0.522	0.615	1.246	1.58	9.875	41.745
Mouse	9 (60)	0.674	0.735	0.501	0.571	0.694	0.784	1.941	2.437	57.906	100.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.91	0.885	0.768	0.758	0.658	0.666
Overall, 8 experiments	best	0.998	0.997	0.986	0.982	0.88	0.884
Methyl HT-SELEX, 2 experiments	median	0.989	0.983	0.963	0.953	0.86	0.856
Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.986	0.982	0.88	0.884
Non-Methyl HT-SELEX, 6 experiments	median	0.808	0.779	0.676	0.685	0.588	0.609
Non-Methyl HT-SELEX, 6 experiments	best	0.986	0.981	0.936	0.923	0.809	0.809

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.889	1.745	0.354	0.157

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.967	0.671	0.91	0.586
batch 2	0.657	0.395	0.631	0.495

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.2.SM.B.pcm
PWM	OLIG2.H12RSNP.2.SM.B.pwm
PFM	OLIG2.H12RSNP.2.SM.B.pfm
Alignment	OLIG2.H12RSNP.2.SM.B.words.tsv
Threshold to P-value map	OLIG2.H12RSNP.2.SM.B.thr
Motif in other formats
JASPAR format	OLIG2.H12RSNP.2.SM.B_jaspar_format.txt
MEME format	OLIG2.H12RSNP.2.SM.B_meme_format.meme
Transfac format	OLIG2.H12RSNP.2.SM.B_transfac_format.txt
Homer format	OLIG2.H12RSNP.2.SM.B_homer_format_0.001.txt OLIG2.H12RSNP.2.SM.B_homer_format_0.0005.txt OLIG2.H12RSNP.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	676.5	517.5	602.5	688.5
02	1135.25	292.25	564.25	493.25
03	893.0	1207.0	252.0	133.0
04	199.0	2279.0	4.0	3.0
05	2407.0	1.0	51.0	26.0
06	0.0	0.0	33.0	2452.0
07	2456.0	29.0	0.0	0.0
08	11.0	19.0	0.0	2455.0
09	0.0	5.0	2461.0	19.0
10	9.0	333.0	1013.0	1130.0
11	215.0	137.0	65.0	2068.0
12	706.0	442.0	356.0	981.0
13	949.0	532.0	450.0	554.0
14	480.0	1067.0	384.0	554.0
15	690.0	785.0	641.0	369.0
16	756.5	423.5	653.5	651.5

PFM

	A	C	G	T
01	0.272	0.208	0.242	0.277
02	0.457	0.118	0.227	0.198
03	0.359	0.486	0.101	0.054
04	0.08	0.917	0.002	0.001
05	0.969	0.0	0.021	0.01
06	0.0	0.0	0.013	0.987
07	0.988	0.012	0.0	0.0
08	0.004	0.008	0.0	0.988
09	0.0	0.002	0.99	0.008
10	0.004	0.134	0.408	0.455
11	0.087	0.055	0.026	0.832
12	0.284	0.178	0.143	0.395
13	0.382	0.214	0.181	0.223
14	0.193	0.429	0.155	0.223
15	0.278	0.316	0.258	0.148
16	0.304	0.17	0.263	0.262

PWM

	A	C	G	T
01	0.085	-0.182	-0.031	0.102
02	0.601	-0.751	-0.096	-0.23
03	0.362	0.663	-0.898	-1.53
04	-1.132	1.297	-4.651	-4.835
05	1.352	-5.352	-2.465	-3.104
06	-5.765	-5.765	-2.881	1.371
07	1.372	-3.002	-5.765	-5.765
08	-3.873	-3.393	-5.765	1.372
09	-5.765	-4.495	1.374	-3.393
10	-4.041	-0.621	0.488	0.597
11	-1.055	-1.501	-2.231	1.2
12	0.128	-0.339	-0.554	0.456
13	0.423	-0.155	-0.321	-0.114
14	-0.257	0.54	-0.479	-0.114
15	0.105	0.233	0.031	-0.519
16	0.196	-0.382	0.05	0.047

Standard thresholds

P-value	Threshold
0.001	2.91046
0.0005	4.21831
0.0001	6.97171