SIX2.H12CORE.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SIX2.H12CORE.0.P.B
Gene (human)	SIX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Six2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	14
Consensus	WGWAAYhWRAbMYb
GC content	39.16%
Information content (bits; total / per base)	11.799 / 0.843
Data sources	ChIP-Seq
Aligned words	1003

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	5 (34)	0.909	0.933	0.82	0.869	0.916	0.937	3.55	3.997	246.914	294.638
Mouse	8 (52)	0.898	0.933	0.821	0.874	0.896	0.933	3.399	3.887	216.237	349.097

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.689	0.662	0.633	0.613	0.583	0.576
Overall, 4 experiments	best	0.873	0.836	0.77	0.74	0.668	0.661
Methyl HT-SELEX, 2 experiments	median	0.706	0.681	0.649	0.629	0.594	0.587
Methyl HT-SELEX, 2 experiments	best	0.873	0.836	0.77	0.74	0.668	0.661
Non-Methyl HT-SELEX, 2 experiments	median	0.686	0.659	0.631	0.611	0.581	0.575
Non-Methyl HT-SELEX, 2 experiments	best	0.84	0.798	0.737	0.708	0.647	0.639

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	27.273	3.862	0.441	0.341

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.761	0.514	0.808	0.624

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HD-SINE {3.1.6} (TFClass)
TF subfamily	SIX1-like {3.1.6.1} (TFClass)
TFClass ID	TFClass: 3.1.6.1.2
HGNC	HGNC:10888
MGI	MGI:102778
EntrezGene (human)	GeneID:10736 (SSTAR profile)
EntrezGene (mouse)	GeneID:20472 (SSTAR profile)
UniProt ID (human)	SIX2_HUMAN
UniProt ID (mouse)	SIX2_MOUSE
UniProt AC (human)	Q9NPC8 (TFClass)
UniProt AC (mouse)	Q62232 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 8 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	SIX2.H12CORE.0.P.B.pcm
PWM	SIX2.H12CORE.0.P.B.pwm
PFM	SIX2.H12CORE.0.P.B.pfm
Alignment	SIX2.H12CORE.0.P.B.words.tsv
Threshold to P-value map	SIX2.H12CORE.0.P.B.thr
Motif in other formats
JASPAR format	SIX2.H12CORE.0.P.B_jaspar_format.txt
MEME format	SIX2.H12CORE.0.P.B_meme_format.meme
Transfac format	SIX2.H12CORE.0.P.B_transfac_format.txt
Homer format	SIX2.H12CORE.0.P.B_homer_format_0.001.txt SIX2.H12CORE.0.P.B_homer_format_0.0005.txt SIX2.H12CORE.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	206.0	10.0	193.0	594.0
02	15.0	4.0	982.0	2.0
03	471.0	42.0	55.0	435.0
04	883.0	65.0	10.0	45.0
05	999.0	0.0	1.0	3.0
06	41.0	520.0	49.0	393.0
07	211.0	396.0	61.0	335.0
08	121.0	120.0	98.0	664.0
09	166.0	20.0	766.0	51.0
10	989.0	10.0	2.0	2.0
11	80.0	194.0	241.0	488.0
12	516.0	403.0	34.0	50.0
13	94.0	560.0	55.0	294.0
14	126.0	402.0	206.0	269.0

PFM

	A	C	G	T
01	0.205	0.01	0.192	0.592
02	0.015	0.004	0.979	0.002
03	0.47	0.042	0.055	0.434
04	0.88	0.065	0.01	0.045
05	0.996	0.0	0.001	0.003
06	0.041	0.518	0.049	0.392
07	0.21	0.395	0.061	0.334
08	0.121	0.12	0.098	0.662
09	0.166	0.02	0.764	0.051
10	0.986	0.01	0.002	0.002
11	0.08	0.193	0.24	0.487
12	0.514	0.402	0.034	0.05
13	0.094	0.558	0.055	0.293
14	0.126	0.401	0.205	0.268

PWM

	A	C	G	T
01	-0.195	-3.069	-0.26	0.858
02	-2.714	-3.786	1.36	-4.216
03	0.627	-1.753	-1.493	0.548
04	1.254	-1.331	-3.069	-1.687
05	1.377	-4.985	-4.528	-3.978
06	-1.776	0.726	-1.605	0.447
07	-0.171	0.454	-1.393	0.288
08	-0.721	-0.73	-0.929	0.97
09	-0.409	-2.453	1.112	-1.566
10	1.367	-3.069	-4.216	-4.216
11	-1.128	-0.255	-0.039	0.663
12	0.718	0.472	-1.955	-1.585
13	-0.97	0.8	-1.493	0.158
14	-0.681	0.469	-0.195	0.07

Standard thresholds

P-value	Threshold
0.001	4.23061
0.0005	5.25566
0.0001	7.29082