WWW-query: An on-line retrieval system for biological sequence banks

doi:10.1016/0300-9084(96)84768-7

Biochimie

Volume 78, Issue 5, 1996, Pages 364-369

https://doi.org/10.1016/0300-9084(96)84768-7 Get rights and content

Abstract

We have developed a World Wide Web (WWW) version of the sequence retrieval system Query: WWW-Query. This server allows to query nucleotide sequence banks in the EMBL/GenBank/DDBJ formats and protein sequence banks in the NBRF/PIR format. WWW-Query includes all the features of the on-line sequence browsers already available: possibility to build complex queries, integration of cross-references with different data banks, and access to the functional zones of biological interest. It also provides original services not available elsewhere: introduction of the notion of re-usable sequence lists, integration of dedicated helper applications for visualizing alignments and phylogenetic trees and links with multivariate methods for studying codon usage or for complementing phylogenies.

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Biochimie

Abstract

References (33)

Multiple aligned sequence editor (MASE)

Trends Biochem Sci

A versatile tool for retrieving molecular sequences: Entrez (release 8.0, December 1993)

Trends Biochem Sci

Identifying potential tRNA genes in genomic DNA sequences

J Mol Biol

ACNUC — a portable retrieval system for nucleic acid sequence databases: logical and physical designs and usage

Comput Applic Biosci

GenBank

Nucleic Acids Res

The European Bioinformatic Institute (EBI) databases

Nucleic Acids Res

The PIR_international protein sequence database

Nucleic Acids Res

Hovergen: a database of homologous vertebrate genes

Nucleic Acids Res

NRSub: a non-redundant database for Bacillus subtilis

Nucleic Acids Res

Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

Science

The minimal gene complement of Mycoplasma genitalium

Science

ADE software multivariate analysis and graphical display of environmental data

Codon frequencies in 119 individual genes confirm consistent choices of degenerate base according to genome type

Nucleic Acids Res

Codon usage and gene expression

Nucleic Acids Res

Synonymous codon usage in Bacillus subtilis reflects both translational selection and mutational biases

Nucleic Acids Res

Cited by (1326)

Role of EIN2-mediated ethylene signaling in regulating petal senescence, abscission, reproductive development, and hormonal crosstalk in tobacco

Single cell oil of oleaginous marine microbes from Saudi Arabian mangroves as a potential feedstock for biodiesel production

Primate hemorrhagic fever-causing arteriviruses are poised for spillover to humans

The Hessian fly resistance gene HvRHF1 is localized in an NBS-LRR gene cluster in barley

Structure of putative epidermal sensory receptors in an acoel flatworm, Praesagittifera naikaiensis

Plastid terminal oxidase is required for chloroplast biogenesis in barley