Literature DB >> 11752290

ExInt: an Exon Intron Database.

M Sakharkar1, F Passetti, J E de Souza, M Long, S J de Souza.   

Abstract

The Exon/Intron Database (ExInt) stores information of all GenBank eukaryotic entries containing an annotated intron sequence. Data are available through a retrieval system, as flat-files and as a MySQL dump file. In this report we discuss several implementations added to ExInt, which is accessible at http://intron.bic.nus.edu.sg/exint/newexint/exint.html.

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Year:  2002        PMID： 11752290      PMCID： PMC99089          DOI： 10.1093/nar/30.1.191

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  10 in total

1.  The IDB and IEDB: intron sequence and evolution databases.

Authors:  N J Schisler; J D Palmer
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  EID: the Exon-Intron Database-an exhaustive database of protein-coding intron-containing genes.

Authors:  S Saxonov; I Daizadeh; A Fedorov; W Gilbert
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

3.  ExInt: an Exon/Intron database.

Authors:  M Sakharkar; M Long; T W Tan; S J de Souza
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

4.  IE-Kb: intron exon knowledge base.

Authors:  M K Sakharkar; P Kangueane; T W Woon; T W Tan; P R Kolatkar; M Long; S J de Souza
Journal:  Bioinformatics       Date:  2000-12       Impact factor: 6.937

5.  Genome-wide detection of alternative splicing in expressed sequences of human genes.

Authors:  B Modrek; A Resch; C Grasso; C Lee
Journal:  Nucleic Acids Res       Date:  2001-07-01       Impact factor: 16.971

6.  Generation of a database containing discordant intron positions in eukaryotic genes (MIDB).

Authors:  M K Sakharkar; T W Tan; S J de Souza
Journal:  Bioinformatics       Date:  2001-08       Impact factor: 6.937

7.  Evaluation of gene-finding programs on mammalian sequences.

Authors:  S Rogic; A K Mackworth; F B Ouellette
Journal:  Genome Res       Date:  2001-05       Impact factor: 9.043

8.  Intron-exon structures of eukaryotic model organisms.

Authors:  M Deutsch; M Long
Journal:  Nucleic Acids Res       Date:  1999-08-01       Impact factor: 16.971

Review 9.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

Authors:  S F Altschul; T L Madden; A A Schäffer; J Zhang; Z Zhang; W Miller; D J Lipman
Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

10.  Intron phase correlations and the evolution of the intron/exon structure of genes.

Authors:  M Long; C Rosenberg; W Gilbert
Journal:  Proc Natl Acad Sci U S A       Date:  1995-12-19       Impact factor: 11.205
  10 in total
  11 in total

1.  Xpro: database of eukaryotic protein-encoding genes.

Authors:  Vivek Gopalan; Tin Wee Tan; Bernett T K Lee; Shoba Ranganathan
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

2.  EGPred: prediction of eukaryotic genes using ab initio methods after combining with sequence similarity approaches.

Authors:  Biju Issac; Gajendra Pal Singh Raghava
Journal:  Genome Res       Date:  2004-09       Impact factor: 9.043

3.  Signs of ancient and modern exon-shuffling are correlated to the distribution of ancient and modern domains along proteins.

Authors:  Maria Dulcetti Vibranovski; Noboru Jo Sakabe; Rodrigo Soares de Oliveira; Sandro José de Souza
Journal:  J Mol Evol       Date:  2005-07-18       Impact factor: 2.395

4.  Signatures of domain shuffling in the human genome.

Authors:  Henrik Kaessmann; Sebastian Zöllner; Anton Nekrutenko; Wen-Hsiung Li
Journal:  Genome Res       Date:  2002-11       Impact factor: 9.043

5.  ExonVisualiser - application for visualization exon units in 2D and 3D protein structures.

Authors:  Monika Piwowar; Porembski Krzysztof; Piwowar Piotr
Journal:  Bioinformation       Date:  2012-12-19

6.  The in vivo kinetics of RNA polymerase II elongation during co-transcriptional splicing.

Authors:  Yehuda Brody; Noa Neufeld; Nicole Bieberstein; Sebastien Z Causse; Eva-Maria Böhnlein; Karla M Neugebauer; Xavier Darzacq; Yaron Shav-Tal
Journal:  PLoS Biol       Date:  2011-01-11       Impact factor: 8.029

7.  POEM, A 3-dimensional exon taxonomy and patterns in untranslated exons.

Authors:  Keith Knapp; Ashley Chonka; Yi-Ping Phoebe Chen
Journal:  BMC Genomics       Date:  2008-09-20       Impact factor: 3.969

8.  SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis.

Authors:  Ari B Kahn; Michael C Ryan; Hongfang Liu; Barry R Zeeberg; D Curtis Jamison; John N Weinstein
Journal:  BMC Bioinformatics       Date:  2007-03-05       Impact factor: 3.169

9.  Conserved intron positions in ancient protein modules.

Authors:  Albert D G de Roos
Journal:  Biol Direct       Date:  2007-02-08       Impact factor: 4.540

Review 10.  Technology transfer from worms and flies to vertebrates: transposition-based genome manipulations and their future perspectives.

Authors:  Lajos Mátés; Zsuzsanna Izsvák; Zoltán Ivics
Journal:  Genome Biol       Date:  2007       Impact factor: 13.583
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