Literature DB >> 12376385

GENOTRACE: cDNA-based local GENOme assembly from TRACE archives.

Eugene Berezikov1, Ronald H A Plasterk, Edwin Cuppen.   

Abstract

UNLABELLED: GENOTRACE identifies the genomic organization for a cDNA using raw data from genome sequencing projects in progress (trace archives). Local genomic contigs are generated, allowing for example the design of PCR primers in intronic sequences to amplify coding regions of a gene, needed for example for mutation or SNP detection. AVAILABILITY: The package and examples of output files can be downloaded from http://rat.niob.knaw.nl/GENOTRACE

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Year:  2002        PMID： 12376385     DOI： 10.1093/bioinformatics/18.10.1396

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  7 in total

1.  Single nucleotide polymorphisms associated with rat expressed sequences.

Authors:  Victor Guryev; Eugene Berezikov; Rainer Malik; Ronald H A Plasterk; Edwin Cuppen
Journal:  Genome Res       Date:  2004-07       Impact factor: 9.043

2.  Efficient target-selected mutagenesis in zebrafish.

Authors:  Erno Wienholds; Freek van Eeden; Marit Kosters; Josine Mudde; Ronald H A Plasterk; Edwin Cuppen
Journal:  Genome Res       Date:  2003-11-12       Impact factor: 9.043

3.  Genetic variation in coding regions between and within commonly used inbred rat strains.

Authors:  Bart M G Smits; Bert F M van Zutphen; Ronald H A Plasterk; Edwin Cuppen
Journal:  Genome Res       Date:  2004-07       Impact factor: 9.043

4.  PIMS sequencing extension: a laboratory information management system for DNA sequencing facilities.

Authors:  Peter V Troshin; Vincent Lg Postis; Denise Ashworth; Stephen A Baldwin; Michael J McPherson; Geoffrey J Barton
Journal:  BMC Res Notes       Date:  2011-03-07

5.  CASCAD: a database of annotated candidate single nucleotide polymorphisms associated with expressed sequences.

Authors:  Victor Guryev; Eugene Berezikov; Edwin Cuppen
Journal:  BMC Genomics       Date:  2005-01-27       Impact factor: 3.969

6.  Current awareness on comparative and functional genomics.

Authors: 
Journal:  Comp Funct Genomics       Date:  2003

7.  Tracembler--software for in-silico chromosome walking in unassembled genomes.

Authors:  Qunfeng Dong; Matthew D Wilkerson; Volker Brendel
Journal:  BMC Bioinformatics       Date:  2007-05-09       Impact factor: 3.169
  7 in total

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