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QuadBase specifications

Information


Unique identifier OMICS_11872
Name QuadBase
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Maintainer


  • person_outline Shantanu Chowdhury

Publications for QuadBase

QuadBase citations

 (3)
call_split

Putative HIV and SIV G Quadruplex Sequences in Coding and Noncoding Regions Can Form G Quadruplexes

2017
J Nucleic Acids
PMCID: 5804116
PMID: 29464116
DOI: 10.1155/2017/6513720
call_split See protocol

[…] cleotides) to the putative sequence, it was also judged to be suitable for inclusion. In principle, we applied criteria similar to those utilized by QGRS mapper and the more comprehensive mining tool QuadBase2, a program which predicts G-quadruplex forming G-rich sequences (QGRS) in nucleotide sequences [, ]. The scores of G-quadruplex putative sequences found in HIV genomes were also analyzed usi […]

library_books

Evidence for a quadruplex structure in the polymorphic hs1.2 enhancer of the immunoglobulin heavy chain 3’ regulatory regions and its conservation in mammals

2016
Biopolymers
PMCID: 5516150
PMID: 27287611
DOI: 10.1002/bip.22891

[…] features are analyzed, identified and/or graphically visualized using the UCSC Genome Browser (http://genome.ucsc.edu/cgi-bin/hgGateway). The G‐quadruplex structure consensus sites were identified by Quadbase (http://quadbase.igib.res.in) and QGRS Mapper (http://bioinformatics.ramapo.edu/QGRS). […]

library_books

G Quadruplexes in Pathogens: A Common Route to Virulence Control?

2015
PLoS Pathog
PMCID: 4412290
PMID: 25654363
DOI: 10.1371/journal.ppat.1004562

[…] tify genomic regions that may form G4s, termed putative quadruplex sequences (PQS) or G4 motifs. Predictive algorithms (reviewed in []), including quadparser [], G4P calculator [], QGRS mapper [] and QuadBase [], have been developed to identify PQS. These algorithms can rapidly analyse large amounts of data, including whole genome sequences. […]

Citations

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QuadBase institution(s)
GNR Knowledge Center for Genome Informatics, CSIR-Institute of Genomics and Integrative Biology, New Delhi, India; Proteomics and Structural Biology Unit, CSIR-Institute of Genomics and Integrative Biology, New Delhi, India
QuadBase funding source(s)
CSIR Project BSC0123 (GENCODE-A); Wellcome Trust/DBT India Alliance Research Fellowship; CSIR SPM Junior Research Fellowship

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