SIX1.H12CORE.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SIX1.H12CORE.0.P.B
Gene (human)	SIX1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Six1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	14
Consensus	KGWAAYhWGAbMYb
GC content	40.2%
Information content (bits; total / per base)	12.84 / 0.917
Data sources	ChIP-Seq
Aligned words	1001

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	3 (18)	0.927	0.954	0.88	0.917	0.929	0.956	4.108	4.534	270.535	343.538

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.691	0.669	0.625	0.611	0.575	0.572
Overall, 4 experiments	best	0.868	0.843	0.724	0.717	0.625	0.634
Methyl HT-SELEX, 2 experiments	median	0.699	0.682	0.621	0.615	0.566	0.571
Methyl HT-SELEX, 2 experiments	best	0.868	0.843	0.724	0.717	0.622	0.634
Non-Methyl HT-SELEX, 2 experiments	median	0.691	0.669	0.625	0.611	0.576	0.572
Non-Methyl HT-SELEX, 2 experiments	best	0.835	0.811	0.711	0.698	0.625	0.627

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.752	0.439	0.766	0.64

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: 3.1.6.1.1
HGNC	HGNC:10887
MGI	MGI:102780
EntrezGene (human)	GeneID:6495 (SSTAR profile)
EntrezGene (mouse)	GeneID:20471 (SSTAR profile)
UniProt ID (human)	SIX1_HUMAN
UniProt ID (mouse)	SIX1_MOUSE
UniProt AC (human)	Q15475 (TFClass)
UniProt AC (mouse)	Q62231 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	SIX1.H12CORE.0.P.B.pcm
PWM	SIX1.H12CORE.0.P.B.pwm
PFM	SIX1.H12CORE.0.P.B.pfm
Alignment	SIX1.H12CORE.0.P.B.words.tsv
Threshold to P-value map	SIX1.H12CORE.0.P.B.thr
Motif in other formats
JASPAR format	SIX1.H12CORE.0.P.B_jaspar_format.txt
MEME format	SIX1.H12CORE.0.P.B_meme_format.meme
Transfac format	SIX1.H12CORE.0.P.B_transfac_format.txt
Homer format	SIX1.H12CORE.0.P.B_homer_format_0.001.txt SIX1.H12CORE.0.P.B_homer_format_0.0005.txt SIX1.H12CORE.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	196.0	20.0	204.0	581.0
02	5.0	2.0	992.0	2.0
03	508.0	36.0	34.0	423.0
04	906.0	60.0	4.0	31.0
05	999.0	1.0	1.0	0.0
06	35.0	556.0	43.0	367.0
07	182.0	449.0	54.0	316.0
08	104.0	95.0	88.0	714.0
09	104.0	7.0	845.0	45.0
10	1000.0	0.0	1.0	0.0
11	77.0	155.0	271.0	498.0
12	519.0	405.0	22.0	55.0
13	70.0	578.0	59.0	294.0
14	104.0	417.0	234.0	246.0

PFM

	A	C	G	T
01	0.196	0.02	0.204	0.58
02	0.005	0.002	0.991	0.002
03	0.507	0.036	0.034	0.423
04	0.905	0.06	0.004	0.031
05	0.998	0.001	0.001	0.0
06	0.035	0.555	0.043	0.367
07	0.182	0.449	0.054	0.316
08	0.104	0.095	0.088	0.713
09	0.104	0.007	0.844	0.045
10	0.999	0.0	0.001	0.0
11	0.077	0.155	0.271	0.498
12	0.518	0.405	0.022	0.055
13	0.07	0.577	0.059	0.294
14	0.104	0.417	0.234	0.246

PWM

	A	C	G	T
01	-0.242	-2.451	-0.203	0.838
02	-3.623	-4.214	1.372	-4.214
03	0.705	-1.899	-1.953	0.522
04	1.282	-1.407	-3.784	-2.041
05	1.379	-4.526	-4.526	-4.983
06	-1.926	0.795	-1.729	0.381
07	-0.316	0.582	-1.509	0.232
08	-0.868	-0.957	-1.033	1.044
09	-0.868	-3.363	1.212	-1.685
10	1.38	-4.983	-4.526	-4.983
11	-1.163	-0.475	0.079	0.685
12	0.726	0.479	-2.363	-1.491
13	-1.256	0.833	-1.423	0.16
14	-0.868	0.508	-0.067	-0.017

Standard thresholds

P-value	Threshold
0.001	3.76896
0.0005	4.90651
0.0001	7.16626