ZBED2.H13INVIVO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZBED2.H13INVIVO.0.PSGIB.A
Gene (human)	ZBED2 (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	9
Consensus	ndRKTTCGn
GC content	50.61%
Information content (bits; total / per base)	9.018 / 1.002
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	858
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)	0.926	0.926	0.838	0.842	0.718	0.84	143.689	150.377

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 3 experiments	median	1.0	1.0	1.0	1.0	1.0	1.0
overall, 3 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0
Lysate, 2 experiments	median	1.0	1.0	1.0	1.0	1.0	1.0
Lysate, 2 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0
GFPIVT, 1 experiments	median	1.0	1.0	1.0	1.0	0.998	0.997
GFPIVT, 1 experiments	best	1.0	1.0	1.0	1.0	0.998	0.997

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	158.092	0.889	0.94	0.905
overall, 3 experiments	best	682.959	0.925	0.976	0.936
Lysate, 2 experiments	median	348.337	0.891	0.962	0.91
Lysate, 2 experiments	best	682.959	0.925	0.976	0.936
GFPIVT, 1 experiments	median	48.94	0.748	0.789	0.788
GFPIVT, 1 experiments	best	158.092	0.895	0.94	0.869

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.913	0.903	0.814	0.824	0.772	0.782
Overall, 2 experiments	best	0.997	0.997	0.987	0.983	0.981	0.971

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 4 experiments	median	0.928	0.282	0.946	0.383
Overall, 4 experiments	best	0.933	0.286	0.95	0.614

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	BED zinc finger {2.3.5} (TFClass)
TF subfamily	{2.3.5.0} (TFClass)
TFClass ID	TFClass: 2.3.5.0.2
HGNC	HGNC:20710
MGI
EntrezGene (human)	GeneID:79413 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	ZBED2_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q9BTP6 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

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

PCM	ZBED2.H13INVIVO.0.PSGIB.A.pcm
PWM	ZBED2.H13INVIVO.0.PSGIB.A.pwm
PFM	ZBED2.H13INVIVO.0.PSGIB.A.pfm
Threshold to P-value map	ZBED2.H13INVIVO.0.PSGIB.A.thr
Motif in other formats
JASPAR format	ZBED2.H13INVIVO.0.PSGIB.A_jaspar_format.txt
MEME format	ZBED2.H13INVIVO.0.PSGIB.A_meme_format.meme
Transfac format	ZBED2.H13INVIVO.0.PSGIB.A_transfac_format.txt
Homer format	ZBED2.H13INVIVO.0.PSGIB.A_homer_format_0.001.txt ZBED2.H13INVIVO.0.PSGIB.A_homer_format_0.0005.txt ZBED2.H13INVIVO.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	211.0	204.0	234.0	209.0
02	385.0	61.0	327.0	85.0
03	117.0	70.0	615.0	56.0
04	106.0	19.0	321.0	412.0
05	37.0	3.0	1.0	817.0
06	0.0	0.0	0.0	858.0
07	0.0	858.0	0.0	0.0
08	0.0	0.0	824.0	34.0
09	200.0	161.0	210.0	287.0

PFM

	A	C	G	T
01	0.246	0.238	0.273	0.244
02	0.449	0.071	0.381	0.099
03	0.136	0.082	0.717	0.065
04	0.124	0.022	0.374	0.48
05	0.043	0.003	0.001	0.952
06	0.0	0.0	0.0	1.0
07	0.0	1.0	0.0	0.0
08	0.0	0.0	0.96	0.04
09	0.233	0.188	0.245	0.334

PWM

	A	C	G	T
01	-0.016	-0.05	0.086	-0.026
02	0.581	-1.238	0.419	-0.914
03	-0.6	-1.104	1.048	-1.321
04	-0.697	-2.347	0.401	0.649
05	-1.721	-3.831	-4.387	1.332
06	-4.852	-4.852	-4.852	1.38
07	-4.852	1.38	-4.852	-4.852
08	-4.852	-4.852	1.34	-1.801
09	-0.069	-0.284	-0.021	0.289

Standard thresholds

P-value	Threshold
0.001	5.338575
0.0005	6.012385
0.0001	7.522375