ZBED2.H13INVITRO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZBED2.H13INVITRO.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	nRGKTTCGn
GC content	51.93%
Information content (bits; total / per base)	9.72 / 1.08
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	799
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)	0.922	0.923	0.835	0.84	0.716	0.836	148.176	154.432

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	0.997	0.996
GFPIVT, 1 experiments	best	1.0	1.0	1.0	1.0	0.997	0.996

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	157.886	0.885	0.952	0.901
overall, 3 experiments	best	704.959	0.919	0.975	0.938
Lysate, 2 experiments	median	340.469	0.886	0.96	0.912
Lysate, 2 experiments	best	704.959	0.919	0.975	0.938
GFPIVT, 1 experiments	median	51.701	0.755	0.824	0.807
GFPIVT, 1 experiments	best	157.886	0.897	0.952	0.875

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.912	0.9	0.817	0.826	0.775	0.783
Overall, 2 experiments	best	1.0	1.0	0.992	0.989	0.981	0.973

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 4 experiments	median	0.929	0.279	0.947	0.372
Overall, 4 experiments	best	0.936	0.281	0.953	0.608

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.H13INVITRO.0.PSGIB.A.pcm
PWM	ZBED2.H13INVITRO.0.PSGIB.A.pwm
PFM	ZBED2.H13INVITRO.0.PSGIB.A.pfm
Threshold to P-value map	ZBED2.H13INVITRO.0.PSGIB.A.thr
Motif in other formats
JASPAR format	ZBED2.H13INVITRO.0.PSGIB.A_jaspar_format.txt
MEME format	ZBED2.H13INVITRO.0.PSGIB.A_meme_format.meme
Transfac format	ZBED2.H13INVITRO.0.PSGIB.A_transfac_format.txt
Homer format	ZBED2.H13INVITRO.0.PSGIB.A_homer_format_0.001.txt ZBED2.H13INVITRO.0.PSGIB.A_homer_format_0.0005.txt ZBED2.H13INVITRO.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	218.0	174.0	214.0	193.0
02	358.0	25.0	335.0	81.0
03	55.0	38.0	678.0	28.0
04	81.0	4.0	321.0	393.0
05	30.0	2.0	0.0	767.0
06	1.0	2.0	0.0	796.0
07	3.0	796.0	0.0	0.0
08	2.0	2.0	779.0	16.0
09	201.0	143.0	221.0	234.0

PFM

	A	C	G	T
01	0.273	0.218	0.268	0.242
02	0.448	0.031	0.419	0.101
03	0.069	0.048	0.849	0.035
04	0.101	0.005	0.402	0.492
05	0.038	0.003	0.0	0.96
06	0.001	0.003	0.0	0.996
07	0.004	0.996	0.0	0.0
08	0.003	0.003	0.975	0.02
09	0.252	0.179	0.277	0.293

PWM

	A	C	G	T
01	0.087	-0.137	0.068	-0.034
02	0.58	-2.022	0.514	-0.891
03	-1.268	-1.625	1.216	-1.915
04	-0.891	-3.57	0.471	0.673
05	-1.85	-4.005	-4.792	1.339
06	-4.323	-4.005	-4.792	1.376
07	-3.764	1.376	-4.792	-4.792
08	-4.005	-4.005	1.355	-2.433
09	0.006	-0.331	0.1	0.157

Standard thresholds

P-value	Threshold
0.001	4.92687
0.0005	5.61138
0.0001	7.837935