SIX1.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SIX1.H12INVIVO.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	KGWAAYhYGAbMYb
GC content	40.45%
Information content (bits; total / per base)	12.508 / 0.893
Data sources	ChIP-Seq
Aligned words	1007

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)	0.929	0.955	0.882	0.919	0.93	0.956	4.118	4.527	272.565	335.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.692	0.671	0.624	0.611	0.572	0.572
Overall, 4 experiments	best	0.867	0.843	0.721	0.715	0.624	0.633
Methyl HT-SELEX, 2 experiments	median	0.699	0.681	0.619	0.614	0.564	0.57
Methyl HT-SELEX, 2 experiments	best	0.867	0.843	0.721	0.715	0.619	0.633
Non-Methyl HT-SELEX, 2 experiments	median	0.692	0.671	0.624	0.611	0.574	0.572
Non-Methyl HT-SELEX, 2 experiments	best	0.837	0.813	0.712	0.7	0.624	0.628

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.747	0.434	0.76	0.616

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.H12INVIVO.0.P.B.pcm
PWM	SIX1.H12INVIVO.0.P.B.pwm
PFM	SIX1.H12INVIVO.0.P.B.pfm
Alignment	SIX1.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	SIX1.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	SIX1.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	SIX1.H12INVIVO.0.P.B_meme_format.meme
Transfac format	SIX1.H12INVIVO.0.P.B_transfac_format.txt
Homer format	SIX1.H12INVIVO.0.P.B_homer_format_0.001.txt SIX1.H12INVIVO.0.P.B_homer_format_0.0005.txt SIX1.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	207.0	20.0	209.0	571.0
02	6.0	3.0	991.0	7.0
03	508.0	43.0	43.0	413.0
04	919.0	50.0	8.0	30.0
05	1003.0	2.0	2.0	0.0
06	34.0	544.0	49.0	380.0
07	192.0	430.0	65.0	320.0
08	94.0	106.0	105.0	702.0
09	116.0	10.0	837.0	44.0
10	1000.0	0.0	6.0	1.0
11	64.0	183.0	278.0	482.0
12	532.0	402.0	20.0	53.0
13	83.0	590.0	56.0	278.0
14	98.0	412.0	238.0	259.0

PFM

	A	C	G	T
01	0.206	0.02	0.208	0.567
02	0.006	0.003	0.984	0.007
03	0.504	0.043	0.043	0.41
04	0.913	0.05	0.008	0.03
05	0.996	0.002	0.002	0.0
06	0.034	0.54	0.049	0.377
07	0.191	0.427	0.065	0.318
08	0.093	0.105	0.104	0.697
09	0.115	0.01	0.831	0.044
10	0.993	0.0	0.006	0.001
11	0.064	0.182	0.276	0.479
12	0.528	0.399	0.02	0.053
13	0.082	0.586	0.056	0.276
14	0.097	0.409	0.236	0.257

PWM

	A	C	G	T
01	-0.194	-2.457	-0.185	0.815
02	-3.49	-3.982	1.365	-3.369
03	0.699	-1.735	-1.735	0.492
04	1.29	-1.589	-3.26	-2.078
05	1.377	-4.219	-4.219	-4.988
06	-1.959	0.767	-1.609	0.409
07	-0.269	0.533	-1.335	0.238
08	-0.974	-0.856	-0.865	1.021
09	-0.767	-3.073	1.197	-1.713
10	1.374	-4.988	-3.49	-4.531
11	-1.35	-0.316	0.099	0.646
12	0.745	0.465	-2.457	-1.533
13	-1.096	0.848	-1.48	0.099
14	-0.933	0.49	-0.056	0.028

Standard thresholds

P-value	Threshold
0.001	3.92946
0.0005	5.01556
0.0001	7.194815