Literature DB >> 15984049

Comparative EST analyses in plant systems.

Qunfeng Dong1, Lori Kroiss, Fredrick D Oakley, Bing-Bing Wang, Volker Brendel.   

Abstract

Expressed sequence tag (EST) data are a major contributor to the known plant sequence space. Organization of the data into non-redundant clusters representing tentative unique genes provides snapshots of the gene repertoires of a species. This chapter reviews availability of sequences and sequence analysis results and describes several resources and tools that should facilitate broad-based utilization of EST data for gene structure annotation, gene discovery, and comparative genomics.

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Year:  2005        PMID： 15984049     DOI： 10.1016/s0076-6879(05)95022-2

Source DB:  PubMed          Journal:  Methods Enzymol        ISSN： 0076-6879            Impact factor:   1.600


  9 in total

Review 1.  A review of the major penaeid shrimp EST studies and the construction of a shrimp transcriptome database based on the ESTs from four penaeid shrimp.

Authors:  Jiann-Horng Leu; Shu-Hwa Chen; Yu-Bin Wang; Yen-Chen Chen; Sheng-Yao Su; Chung-Yen Lin; Jan-Ming Ho; Chu-Fang Lo
Journal:  Mar Biotechnol (NY)       Date:  2010-04-17       Impact factor: 3.619

2.  The mining of toxin-like polypeptides from EST database by single residue distribution analysis.

Authors:  Sergey Kozlov; Eugene Grishin
Journal:  BMC Genomics       Date:  2011-01-31       Impact factor: 3.969

3.  TriFLDB: a database of clustered full-length coding sequences from Triticeae with applications to comparative grass genomics.

Authors:  Keiichi Mochida; Takuhiro Yoshida; Tetsuya Sakurai; Yasunari Ogihara; Kazuo Shinozaki
Journal:  Plant Physiol       Date:  2009-05-15       Impact factor: 8.340

4.  TranSeqAnnotator: large-scale analysis of transcriptomic data.

Authors:  Ranjeeta Menon; Gagan Garg; Robin B Gasser; Shoba Ranganathan
Journal:  BMC Bioinformatics       Date:  2012-12-13       Impact factor: 3.169

5.  VitisExpDB: a database resource for grape functional genomics.

Authors:  Harshavardhan Doddapaneni; Hong Lin; M Andrew Walker; Jiqiang Yao; Edwin L Civerolo
Journal:  BMC Plant Biol       Date:  2008-02-28       Impact factor: 4.215

6.  ESTPiper--a web-based analysis pipeline for expressed sequence tags.

Authors:  Zuojian Tang; Jeong-Hyeon Choi; Chris Hemmerich; Ankita Sarangi; John K Colbourne; Qunfeng Dong
Journal:  BMC Genomics       Date:  2009-04-21       Impact factor: 3.969

7.  Inferring angiosperm phylogeny from EST data with widespread gene duplication.

Authors:  Michael J Sanderson; Michelle M McMahon
Journal:  BMC Evol Biol       Date:  2007-02-08       Impact factor: 3.260

8.  Construction and characterization of normalized cDNA libraries by 454 pyrosequencing and estimation of DNA methylation levels in three distantly related termite species.

Authors:  Yoshinobu Hayashi; Shuji Shigenobu; Dai Watanabe; Kouhei Toga; Ryota Saiki; Keisuke Shimada; Thomas Bourguignon; Nathan Lo; Masaru Hojo; Kiyoto Maekawa; Toru Miura
Journal:  PLoS One       Date:  2013-09-30       Impact factor: 3.240

9.  A contig-based strategy for the genome-wide discovery of microRNAs without complete genome resources.

Authors:  Jun-Zhi Wen; Jian-You Liao; Ling-Ling Zheng; Hui Xu; Jian-Hua Yang; Dao-Gang Guan; Si-Min Zhang; Hui Zhou; Liang-Hu Qu
Journal:  PLoS One       Date:  2014-02-07       Impact factor: 3.240
  9 in total

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