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DPInteract specifications

Information


Unique identifier OMICS_22199
Name DPInteract
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Keith Robison

Publication for DPInteract

DPInteract citations

 (3)
library_books

Cis regulatory motifs and antisense transcriptional control in the apicomplexan Theileria parva

2016
BMC Genomics
PMCID: 4761415
PMID: 26896950
DOI: 10.1186/s12864-016-2444-5

[…] c motif databases JASPAR [] and TRANSFAC [], FLY [], FlyReg [] and Agris [], AthaMap [], PLACE [], Uniprobe [], other yeast motifs [, ], as well as the prokaryotic motif databases RegTransBase [] and DPInteract []. The Smith-Waterman local alignment method with a similarity score defined by Pearson’s correlation coefficient estimated motif similarity. The STAMP motif phylogenetic tree was generate […]

library_books

Strikingly Bacteria Like and Gene Rich Mitochondrial Genomes throughout Jakobid Protists

2013
Genome Biol Evol
PMCID: 3590771
PMID: 23335123
DOI: 10.1093/gbe/evt008

[…] of 200) of potential sites per genome, instead of 0 or >1,000, obtained with other tools tested. BPROM searches for sequence motifs derived from validated bacterial functional sites collected in the DPInteract database (). The algorithm of promoter identification is based on linear discriminant function that accounts for sequence characteristics of promoter regions. Because the score is a logarit […]

library_books

Using Sequence Specific Chemical and Structural Properties of DNA to Predict Transcription Factor Binding Sites

2010
PLoS Comput Biol
PMCID: 2987836
PMID: 21124945
DOI: 10.1371/journal.pcbi.1001007

[…] binding sites. We randomly selected 10,000 non-coding sequences to serve as negative examples for each TF, and mapped these sequences to feature vectors. We also obtained positive training data from DPInteract . The source of training data did not affect the main qualitative findings of our method comparisons reported in the section. Namely, we find that the performance of SiteSleuth is better t […]

Citations

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DPInteract institution(s)
Department of Genetics, Harvard Medical School, Boston, MA, USA; Graduate Program in Biophysics, Harvard Medical School, Boston, MA, USA
DPInteract funding source(s)
Supported by DOE grant DE-FG02-87ER60565 and the Lipper Foundation.

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