KLF12.H12INVITRO.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	KLF12.H12INVITRO.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	dRGGYGTGKbb
GC content	69.1%
Information content (bits; total / per base)	11.162 / 1.015
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1520

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)	0.795	0.815	0.68	0.7	0.784	0.8	2.636	2.674	86.699	104.357

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.813	0.812	0.742	0.742	0.652	0.662
Overall, 4 experiments	best	0.998	0.996	0.997	0.995	0.977	0.974
Methyl HT-SELEX, 1 experiments	median	0.998	0.996	0.997	0.995	0.977	0.974
Methyl HT-SELEX, 1 experiments	best	0.998	0.996	0.997	0.995	0.977	0.974
Non-Methyl HT-SELEX, 3 experiments	median	0.635	0.641	0.565	0.574	0.534	0.543
Non-Methyl HT-SELEX, 3 experiments	best	0.99	0.983	0.918	0.911	0.77	0.782

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.869	0.461	0.823	0.495
batch 2	0.75	0.415	0.656	0.441

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.H12INVITRO.1.PSM.A.pcm
PWM	KLF12.H12INVITRO.1.PSM.A.pwm
PFM	KLF12.H12INVITRO.1.PSM.A.pfm
Alignment	KLF12.H12INVITRO.1.PSM.A.words.tsv
Threshold to P-value map	KLF12.H12INVITRO.1.PSM.A.thr
Motif in other formats
JASPAR format	KLF12.H12INVITRO.1.PSM.A_jaspar_format.txt
MEME format	KLF12.H12INVITRO.1.PSM.A_meme_format.meme
Transfac format	KLF12.H12INVITRO.1.PSM.A_transfac_format.txt
Homer format	KLF12.H12INVITRO.1.PSM.A_homer_format_0.001.txt KLF12.H12INVITRO.1.PSM.A_homer_format_0.0005.txt KLF12.H12INVITRO.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	430.75	149.75	379.75	559.75
02	157.75	77.75	1191.75	92.75
03	126.0	30.0	1262.0	102.0
04	7.0	0.0	1464.0	49.0
05	62.0	977.0	0.0	481.0
06	5.0	0.0	1515.0	0.0
07	3.0	1.0	52.0	1464.0
08	49.0	27.0	1366.0	78.0
09	93.0	61.0	1178.0	188.0
10	122.5	674.5	210.5	512.5
11	285.5	648.5	287.5	298.5

PFM

	A	C	G	T
01	0.283	0.099	0.25	0.368
02	0.104	0.051	0.784	0.061
03	0.083	0.02	0.83	0.067
04	0.005	0.0	0.963	0.032
05	0.041	0.643	0.0	0.316
06	0.003	0.0	0.997	0.0
07	0.002	0.001	0.034	0.963
08	0.032	0.018	0.899	0.051
09	0.061	0.04	0.775	0.124
10	0.081	0.444	0.138	0.337
11	0.188	0.427	0.189	0.196

PWM

	A	C	G	T
01	0.125	-0.924	-0.001	0.386
02	-0.872	-1.568	1.14	-1.396
03	-1.094	-2.485	1.197	-1.302
04	-3.767	-5.34	1.345	-2.016
05	-1.789	0.941	-5.34	0.235
06	-4.023	-5.34	1.379	-5.34
07	-4.37	-4.904	-1.959	1.345
08	-2.016	-2.584	1.276	-1.565
09	-1.393	-1.805	1.128	-0.699
10	-1.122	0.572	-0.587	0.298
11	-0.284	0.533	-0.277	-0.24

Standard thresholds

P-value	Threshold
0.001	4.442125
0.0005	5.38577
0.0001	7.36598