KLF12.H12INVIVO.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	KLF12.H12INVIVO.1.PSM.A
Gene (human)	KLF12 (GeneCards)
Gene synonyms (human)	AP2REP
Gene (mouse)	Klf12
Gene synonyms (mouse)	Ap2rep
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	11
Consensus	vdGGGMGKGGM
GC content	82.56%
Information content (bits; total / per base)	12.203 / 1.109
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	870

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	1 (5)	0.836	0.855	0.736	0.757	0.835	0.854	3.113	3.182	118.959	157.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.747	0.708	0.693	0.665	0.621	0.615
Overall, 4 experiments	best	0.979	0.956	0.976	0.956	0.947	0.926
Methyl HT-SELEX, 1 experiments	median	0.979	0.956	0.976	0.956	0.947	0.926
Methyl HT-SELEX, 1 experiments	best	0.979	0.956	0.976	0.956	0.947	0.926
Non-Methyl HT-SELEX, 3 experiments	median	0.606	0.595	0.549	0.551	0.522	0.529
Non-Methyl HT-SELEX, 3 experiments	best	0.888	0.821	0.838	0.78	0.72	0.7

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.903	0.344	0.911	0.583
batch 2	0.672	0.091	0.557	0.371

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Three-zinc finger Kruppel-related {2.3.1} (TFClass)
TF subfamily	Kr-like {2.3.1.2} (TFClass)
TFClass ID	TFClass: 2.3.1.2.12
HGNC	HGNC:6346
MGI	MGI:1333796
EntrezGene (human)	GeneID:11278 (SSTAR profile)
EntrezGene (mouse)	GeneID:16597 (SSTAR profile)
UniProt ID (human)	KLF12_HUMAN
UniProt ID (mouse)	KLF12_MOUSE
UniProt AC (human)	Q9Y4X4 (TFClass)
UniProt AC (mouse)	O35738 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	KLF12.H12INVIVO.1.PSM.A.pcm
PWM	KLF12.H12INVIVO.1.PSM.A.pwm
PFM	KLF12.H12INVIVO.1.PSM.A.pfm
Alignment	KLF12.H12INVIVO.1.PSM.A.words.tsv
Threshold to P-value map	KLF12.H12INVIVO.1.PSM.A.thr
Motif in other formats
JASPAR format	KLF12.H12INVIVO.1.PSM.A_jaspar_format.txt
MEME format	KLF12.H12INVIVO.1.PSM.A_meme_format.meme
Transfac format	KLF12.H12INVIVO.1.PSM.A_transfac_format.txt
Homer format	KLF12.H12INVIVO.1.PSM.A_homer_format_0.001.txt KLF12.H12INVIVO.1.PSM.A_homer_format_0.0005.txt KLF12.H12INVIVO.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	250.0	321.0	229.0	70.0
02	197.0	75.0	433.0	165.0
03	67.0	3.0	789.0	11.0
04	3.0	5.0	862.0	0.0
05	5.0	0.0	864.0	1.0
06	124.0	665.0	2.0	79.0
07	36.0	4.0	811.0	19.0
08	20.0	20.0	614.0	216.0
09	81.0	10.0	737.0	42.0
10	52.0	22.0	763.0	33.0
11	107.0	585.0	87.0	91.0

PFM

	A	C	G	T
01	0.287	0.369	0.263	0.08
02	0.226	0.086	0.498	0.19
03	0.077	0.003	0.907	0.013
04	0.003	0.006	0.991	0.0
05	0.006	0.0	0.993	0.001
06	0.143	0.764	0.002	0.091
07	0.041	0.005	0.932	0.022
08	0.023	0.023	0.706	0.248
09	0.093	0.011	0.847	0.048
10	0.06	0.025	0.877	0.038
11	0.123	0.672	0.1	0.105

PWM

	A	C	G	T
01	0.138	0.387	0.051	-1.118
02	-0.098	-1.05	0.685	-0.274
03	-1.16	-3.844	1.283	-2.849
04	-3.844	-3.489	1.371	-4.864
05	-3.489	-4.864	1.374	-4.4
06	-0.556	1.112	-4.084	-0.999
07	-1.76	-3.651	1.31	-2.36
08	-2.313	-2.313	1.033	-0.007
09	-0.975	-2.931	1.215	-1.613
10	-1.407	-2.225	1.25	-1.843
11	-0.701	0.985	-0.905	-0.861

Standard thresholds

P-value	Threshold
0.001	4.07081
0.0005	5.110845
0.0001	7.18159