TET3.H13INVIVO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TET3.H13INVIVO.0.PSGIB.A
Gene (human)	TET3 (GeneCards)
Gene synonyms (human)	KIAA0401
Gene (mouse)	Tet3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	21
Consensus	nGSRGGMRGRGRvSvvvSvRv
GC content	72.41%
Information content (bits; total / per base)	13.672 / 0.651
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	500
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	2 (2)	0.709	0.725	0.498	0.513	0.693	0.704	0.028	0.056

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 4 experiments	median	0.5	0.505	0.49	0.501	0.486	0.496
overall, 4 experiments	best	0.533	0.526	0.514	0.51	0.505	0.506
Lysate, 2 experiments	median	0.461	0.482	0.466	0.483	0.476	0.486
Lysate, 2 experiments	best	0.477	0.494	0.477	0.491	0.482	0.491
IVT, 1 experiments	median	0.533	0.526	0.502	0.51	0.489	0.501
IVT, 1 experiments	best	0.533	0.526	0.502	0.51	0.489	0.501
GFPIVT, 1 experiments	median	0.523	0.515	0.514	0.51	0.505	0.506
GFPIVT, 1 experiments	best	0.523	0.515	0.514	0.51	0.505	0.506

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	0.0	0.615	0.516	0.391
overall, 3 experiments	best	0.046	0.686	0.6	0.454
Lysate, 2 experiments	median	0.0	0.613	0.512	0.377
Lysate, 2 experiments	best	0.046	0.675	0.6	0.454
GFPIVT, 1 experiments	median	0.0	0.647	0.589	0.403
GFPIVT, 1 experiments	best	0.0	0.686	0.598	0.449

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.443	0.467	0.461	0.476	0.471	0.482
Overall, 1 experiments	best	0.443	0.467	0.461	0.476	0.471	0.482

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 4 experiments	median	0.748	0.005	0.666	0.031
Overall, 4 experiments	best	0.813	0.007	0.713	0.034

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	CXXC zinc finger factors {2.6} (TFClass)
TF family	CpG-binding {2.6.1} (TFClass)
TF subfamily	{2.6.1.0} (TFClass)
TFClass ID	TFClass: 2.6.1.0.8
HGNC	HGNC:28313
MGI	MGI:2446229
EntrezGene (human)	GeneID:200424 (SSTAR profile)
EntrezGene (mouse)	GeneID:194388 (SSTAR profile)
UniProt ID (human)	TET3_HUMAN
UniProt ID (mouse)	TET3_MOUSE
UniProt AC (human)	O43151 (TFClass)
UniProt AC (mouse)	Q8BG87 (TFClass)
GRECO-DB-TF	no

ChIP-Seq	2 human, 0 mouse
HT-SELEX	4 overall: 2 Lysate, 1 IVT, 1 GFPIVT
Genomic HT-SELEX	3 overall: 2 Lysate, 0 IVT, 1 GFPIVT
SMiLE-Seq	1
PBM	4

PCM	TET3.H13INVIVO.0.PSGIB.A.pcm
PWM	TET3.H13INVIVO.0.PSGIB.A.pwm
PFM	TET3.H13INVIVO.0.PSGIB.A.pfm
Threshold to P-value map	TET3.H13INVIVO.0.PSGIB.A.thr
Motif in other formats
JASPAR format	TET3.H13INVIVO.0.PSGIB.A_jaspar_format.txt
MEME format	TET3.H13INVIVO.0.PSGIB.A_meme_format.meme
Transfac format	TET3.H13INVIVO.0.PSGIB.A_transfac_format.txt
Homer format	TET3.H13INVIVO.0.PSGIB.A_homer_format_0.001.txt TET3.H13INVIVO.0.PSGIB.A_homer_format_0.0005.txt TET3.H13INVIVO.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	177.0	101.0	137.0	85.0
02	26.0	19.0	443.0	12.0
03	75.0	95.0	315.0	15.0
04	90.0	56.0	347.0	7.0
05	47.0	27.0	413.0	13.0
06	10.0	22.0	453.0	15.0
07	289.0	190.0	0.0	21.0
08	59.0	17.0	393.0	31.0
09	32.0	17.0	442.0	9.0
10	131.0	24.0	314.0	31.0
11	118.0	5.0	374.0	3.0
12	291.0	86.0	103.0	20.0
13	168.0	45.0	246.0	41.0
14	78.0	110.0	292.0	20.0
15	111.0	103.0	251.0	35.0
16	80.0	112.0	266.0	42.0
17	144.0	81.0	237.0	38.0
18	64.0	157.0	267.0	12.0
19	138.0	72.0	237.0	53.0
20	89.0	78.0	303.0	30.0
21	96.0	56.0	297.0	51.0

PFM

	A	C	G	T
01	0.354	0.202	0.274	0.17
02	0.052	0.038	0.886	0.024
03	0.15	0.19	0.63	0.03
04	0.18	0.112	0.694	0.014
05	0.094	0.054	0.826	0.026
06	0.02	0.044	0.906	0.03
07	0.578	0.38	0.0	0.042
08	0.118	0.034	0.786	0.062
09	0.064	0.034	0.884	0.018
10	0.262	0.048	0.628	0.062
11	0.236	0.01	0.748	0.006
12	0.582	0.172	0.206	0.04
13	0.336	0.09	0.492	0.082
14	0.156	0.22	0.584	0.04
15	0.222	0.206	0.502	0.07
16	0.16	0.224	0.532	0.084
17	0.288	0.162	0.474	0.076
18	0.128	0.314	0.534	0.024
19	0.276	0.144	0.474	0.106
20	0.178	0.156	0.606	0.06
21	0.192	0.112	0.594	0.102

PWM

	A	C	G	T
01	0.344	-0.21	0.091	-0.38
02	-1.525	-1.818	1.256	-2.234
03	-0.503	-0.271	0.917	-2.034
04	-0.324	-0.788	1.013	-2.694
05	-0.958	-1.489	1.187	-2.163
06	-2.394	-1.681	1.279	-2.034
07	0.831	0.415	-4.4	-1.725
08	-0.737	-1.92	1.137	-1.358
09	-1.328	-1.92	1.254	-2.484
10	0.046	-1.6	0.914	-1.358
11	-0.057	-2.961	1.088	-3.325
12	0.838	-0.368	-0.191	-1.77
13	0.293	-1.0	0.671	-1.09
14	-0.464	-0.126	0.841	-1.77
15	-0.117	-0.191	0.691	-1.242
16	-0.439	-0.108	0.749	-1.067
17	0.14	-0.427	0.634	-1.163
18	-0.658	0.225	0.752	-2.234
19	0.098	-0.543	0.634	-0.841
20	-0.335	-0.464	0.878	-1.389
21	-0.26	-0.788	0.858	-0.879

Standard thresholds

P-value	Threshold
0.001	3.86626
0.0005	4.83031
0.0001	6.86396