CGGBP1.H13CORE.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	CGGBP1.H13CORE.0.PSGIB.A
Gene (human)	CGGBP1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Cggbp1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	vCCGCMGnndn
GC content	71.11%
Information content (bits; total / per base)	9.531 / 0.866
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	725
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	1 (1)	0.927	0.927	0.824	0.824	0.631	0.631	38.538	38.538

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Lysate, 1 experiments	median	1.0	0.999	0.998	0.997	0.899	0.917
Lysate, 1 experiments	best	1.0	0.999	0.998	0.997	0.899	0.917

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 2 experiments	median	28.865	0.855	0.919	0.827
overall, 2 experiments	best	88.796	0.886	0.954	0.86
Lysate, 1 experiments	median	66.957	0.878	0.938	0.835
Lysate, 1 experiments	best	88.796	0.886	0.954	0.86
GFPIVT, 1 experiments	median	20.758	0.828	0.897	0.818
GFPIVT, 1 experiments	best	33.638	0.843	0.909	0.846

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.627	0.607	0.567	0.562	0.524	0.533
Overall, 1 experiments	best	0.627	0.607	0.567	0.562	0.524	0.533

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 3 experiments	median	0.974	0.316	0.979	0.389
Overall, 3 experiments	best	0.974	0.316	0.982	0.393

TF superclass	Yet undefined DNA-binding domains {0} (TFClass)
TF class	Uncharacterized {0.0} (TFClass)
TF family	Unannotated {0.0.9} (TFClass)
TF subfamily	{0.0.9.0} (TFClass)
TFClass ID	TFClass: 0.0.9.0.255
HGNC
MGI
EntrezGene (human)
EntrezGene (mouse)
UniProt ID (human)	CGBP1_HUMAN
UniProt ID (mouse)	CGBP1_MOUSE
UniProt AC (human)	Q9UFW8 (TFClass)
UniProt AC (mouse)	Q8BHG9 (TFClass)
GRECO-DB-TF	no

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

PCM	CGGBP1.H13CORE.0.PSGIB.A.pcm
PWM	CGGBP1.H13CORE.0.PSGIB.A.pwm
PFM	CGGBP1.H13CORE.0.PSGIB.A.pfm
Threshold to P-value map	CGGBP1.H13CORE.0.PSGIB.A.thr
Motif in other formats
JASPAR format	CGGBP1.H13CORE.0.PSGIB.A_jaspar_format.txt
MEME format	CGGBP1.H13CORE.0.PSGIB.A_meme_format.meme
Transfac format	CGGBP1.H13CORE.0.PSGIB.A_transfac_format.txt
Homer format	CGGBP1.H13CORE.0.PSGIB.A_homer_format_0.001.txt CGGBP1.H13CORE.0.PSGIB.A_homer_format_0.0005.txt CGGBP1.H13CORE.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	222.0	122.0	281.0	100.0
02	0.0	707.0	0.0	18.0
03	0.0	725.0	0.0	0.0
04	29.0	0.0	696.0	0.0
05	0.0	725.0	0.0	0.0
06	225.0	366.0	117.0	17.0
07	7.0	17.0	606.0	95.0
08	231.0	176.0	124.0	194.0
09	253.0	171.0	172.0	129.0
10	278.0	93.0	198.0	156.0
11	194.0	205.0	170.0	156.0

PFM

	A	C	G	T
01	0.306	0.168	0.388	0.138
02	0.0	0.975	0.0	0.025
03	0.0	1.0	0.0	0.0
04	0.04	0.0	0.96	0.0
05	0.0	1.0	0.0	0.0
06	0.31	0.505	0.161	0.023
07	0.01	0.023	0.836	0.131
08	0.319	0.243	0.171	0.268
09	0.349	0.236	0.237	0.178
10	0.383	0.128	0.273	0.215
11	0.268	0.283	0.234	0.215

PWM

	A	C	G	T
01	0.201	-0.391	0.435	-0.587
02	-4.71	1.354	-4.71	-2.231
03	-4.71	1.38	-4.71	-4.71
04	-1.786	-4.71	1.339	-4.71
05	-4.71	1.38	-4.71	-4.71
06	0.214	0.698	-0.433	-2.283
07	-3.052	-2.283	1.201	-0.638
08	0.241	-0.029	-0.375	0.067
09	0.331	-0.058	-0.052	-0.336
10	0.425	-0.659	0.088	-0.149
11	0.067	0.122	-0.063	-0.149

Standard thresholds

P-value	Threshold
0.001	5.10176
0.0005	6.26339
0.0001	7.510675