Literature DB >> 16010001

It's all GO for plant scientists.

Jennifer I Clark1, Cath Brooksbank, Jane Lomax.   

Abstract

The Gene Ontology project (http://www.geneontology.org/) produces structured, controlled vocabularies and gene product annotations. Gene products are classified according to the cellular locations and biological process in which they act, and the molecular functions that they carry out. We annotate gene products from a broad range of model species and provide support for those groups that wish to contribute annotation of further model species. The Gene Ontology facilitates the exchange of information between groups of scientists studying similar processes in different model organisms, and so provides a broad range of opportunities for plant scientists.

Mesh:

Year:  2005        PMID: 16010001      PMCID: PMC1176400          DOI: 10.1104/pp.104.058529

Source DB:  PubMed          Journal:  Plant Physiol        ISSN: 0032-0889            Impact factor:   8.340


  20 in total

1.  Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.

Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  DIAN: a novel algorithm for genome ontological classification.

Authors:  Y Pouliot; J Gao; Q J Su; G G Liu; X B Ling
Journal:  Genome Res       Date:  2001-10       Impact factor: 9.043

3.  Large-scale protein annotation through gene ontology.

Authors:  Hanqing Xie; Alon Wasserman; Zurit Levine; Amit Novik; Vladimir Grebinskiy; Avi Shoshan; Liat Mintz
Journal:  Genome Res       Date:  2002-05       Impact factor: 9.043

4.  Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs.

Authors:  Y Okazaki; M Furuno; T Kasukawa; J Adachi; H Bono; S Kondo; I Nikaido; N Osato; R Saito; H Suzuki; I Yamanaka; H Kiyosawa; K Yagi; Y Tomaru; Y Hasegawa; A Nogami; C Schönbach; T Gojobori; R Baldarelli; D P Hill; C Bult; D A Hume; J Quackenbush; L M Schriml; A Kanapin; H Matsuda; S Batalov; K W Beisel; J A Blake; D Bradt; V Brusic; C Chothia; L E Corbani; S Cousins; E Dalla; T A Dragani; C F Fletcher; A Forrest; K S Frazer; T Gaasterland; M Gariboldi; C Gissi; A Godzik; J Gough; S Grimmond; S Gustincich; N Hirokawa; I J Jackson; E D Jarvis; A Kanai; H Kawaji; Y Kawasawa; R M Kedzierski; B L King; A Konagaya; I V Kurochkin; Y Lee; B Lenhard; P A Lyons; D R Maglott; L Maltais; L Marchionni; L McKenzie; H Miki; T Nagashima; K Numata; T Okido; W J Pavan; G Pertea; G Pesole; N Petrovsky; R Pillai; J U Pontius; D Qi; S Ramachandran; T Ravasi; J C Reed; D J Reed; J Reid; B Z Ring; M Ringwald; A Sandelin; C Schneider; C A M Semple; M Setou; K Shimada; R Sultana; Y Takenaka; M S Taylor; R D Teasdale; M Tomita; R Verardo; L Wagner; C Wahlestedt; Y Wang; Y Watanabe; C Wells; L G Wilming; A Wynshaw-Boris; M Yanagisawa; I Yang; L Yang; Z Yuan; M Zavolan; Y Zhu; A Zimmer; P Carninci; N Hayatsu; T Hirozane-Kishikawa; H Konno; M Nakamura; N Sakazume; K Sato; T Shiraki; K Waki; J Kawai; K Aizawa; T Arakawa; S Fukuda; A Hara; W Hashizume; K Imotani; Y Ishii; M Itoh; I Kagawa; A Miyazaki; K Sakai; D Sasaki; K Shibata; A Shinagawa; A Yasunishi; M Yoshino; R Waterston; E S Lander; J Rogers; E Birney; Y Hayashizaki
Journal:  Nature       Date:  2002-12-05       Impact factor: 49.962

5.  Extension and integration of the gene ontology (GO): combining GO vocabularies with external vocabularies.

Authors:  David P Hill; Judith A Blake; Joel E Richardson; Martin Ringwald
Journal:  Genome Res       Date:  2002-12       Impact factor: 9.043

6.  The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro.

Authors:  Evelyn Camon; Michele Magrane; Daniel Barrell; David Binns; Wolfgang Fleischmann; Paul Kersey; Nicola Mulder; Tom Oinn; John Maslen; Anthony Cox; Rolf Apweiler
Journal:  Genome Res       Date:  2003-03-12       Impact factor: 9.043

7.  Assessment of genome-wide protein function classification for Drosophila melanogaster.

Authors:  Huaiyu Mi; Jody Vandergriff; Michael Campbell; Apurva Narechania; William Majoros; Suzanna Lewis; Paul D Thomas; Michael Ashburner
Journal:  Genome Res       Date:  2003-09       Impact factor: 9.043

8.  The proline-rich, extensin-like receptor kinase-1 (PERK1) gene is rapidly induced by wounding.

Authors:  Nancy F Silva; Daphne R Goring
Journal:  Plant Mol Biol       Date:  2002-11       Impact factor: 4.076

9.  A draft sequence of the rice genome (Oryza sativa L. ssp. japonica).

Authors:  Stephen A Goff; Darrell Ricke; Tien-Hung Lan; Gernot Presting; Ronglin Wang; Molly Dunn; Jane Glazebrook; Allen Sessions; Paul Oeller; Hemant Varma; David Hadley; Don Hutchison; Chris Martin; Fumiaki Katagiri; B Markus Lange; Todd Moughamer; Yu Xia; Paul Budworth; Jingping Zhong; Trini Miguel; Uta Paszkowski; Shiping Zhang; Michelle Colbert; Wei-lin Sun; Lili Chen; Bret Cooper; Sylvia Park; Todd Charles Wood; Long Mao; Peter Quail; Rod Wing; Ralph Dean; Yeisoo Yu; Andrey Zharkikh; Richard Shen; Sudhir Sahasrabudhe; Alun Thomas; Rob Cannings; Alexander Gutin; Dmitry Pruss; Julia Reid; Sean Tavtigian; Jeff Mitchell; Glenn Eldredge; Terri Scholl; Rose Mary Miller; Satish Bhatnagar; Nils Adey; Todd Rubano; Nadeem Tusneem; Rosann Robinson; Jane Feldhaus; Teresita Macalma; Arnold Oliphant; Steven Briggs
Journal:  Science       Date:  2002-04-05       Impact factor: 47.728

10.  An evaluation of GO annotation retrieval for BioCreAtIvE and GOA.

Authors:  Evelyn B Camon; Daniel G Barrell; Emily C Dimmer; Vivian Lee; Michele Magrane; John Maslen; David Binns; Rolf Apweiler
Journal:  BMC Bioinformatics       Date:  2005-05-24       Impact factor: 3.169

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  11 in total

1.  The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant.

Authors:  Katica Ilic; Elizabeth A Kellogg; Pankaj Jaiswal; Felipe Zapata; Peter F Stevens; Leszek P Vincent; Shulamit Avraham; Leonore Reiser; Anuradha Pujar; Martin M Sachs; Noah T Whitman; Susan R McCouch; Mary L Schaeffer; Doreen H Ware; Lincoln D Stein; Seung Y Rhee
Journal:  Plant Physiol       Date:  2006-12-01       Impact factor: 8.340

2.  miRNA-based drought regulation in wheat.

Authors:  Guray Akdogan; Ebru Derelli Tufekci; Serkan Uranbey; Turgay Unver
Journal:  Funct Integr Genomics       Date:  2015-07-04       Impact factor: 3.410

Review 3.  Application of genetic/genomic approaches to allergic disorders.

Authors:  Tesfaye M Baye; Lisa J Martin; Gurjit K Khurana Hershey
Journal:  J Allergy Clin Immunol       Date:  2010-07-16       Impact factor: 10.793

4.  Expression profiling of the lignin biosynthetic pathway in Norway spruce using EST sequencing and real-time RT-PCR.

Authors:  Sanna Koutaniemi; Tino Warinowski; Anna Kärkönen; Edward Alatalo; Carl G Fossdal; Pekka Saranpää; Tapio Laakso; Kurt V Fagerstedt; Liisa K Simola; Lars Paulin; Stephen Rudd; Teemu H Teeri
Journal:  Plant Mol Biol       Date:  2007-09-01       Impact factor: 4.076

5.  Formalization of taxon-based constraints to detect inconsistencies in annotation and ontology development.

Authors:  Jennifer I Deegan née Clark; Emily C Dimmer; Christopher J Mungall
Journal:  BMC Bioinformatics       Date:  2010-10-25       Impact factor: 3.169

6.  Gramene: a bird's eye view of cereal genomes.

Authors:  Pankaj Jaiswal; Junjian Ni; Immanuel Yap; Doreen Ware; William Spooner; Ken Youens-Clark; Liya Ren; Chengzhi Liang; Wei Zhao; Kiran Ratnapu; Benjamin Faga; Payan Canaran; Molly Fogleman; Claire Hebbard; Shuly Avraham; Steven Schmidt; Terry M Casstevens; Edward S Buckler; Lincoln Stein; Susan McCouch
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

7.  Plant Ontology (PO): a Controlled Vocabulary of Plant Structures and Growth Stages.

Authors:  Pankaj Jaiswal; Shulamit Avraham; Katica Ilic; Elizabeth A Kellogg; Susan McCouch; Anuradha Pujar; Leonore Reiser; Seung Y Rhee; Martin M Sachs; Mary Schaeffer; Lincoln Stein; Peter Stevens; Leszek Vincent; Doreen Ware; Felipe Zapata
Journal:  Comp Funct Genomics       Date:  2005

8.  Transcriptomic signatures in seeds of apple (Malus domestica L. Borkh) during fruitlet abscission.

Authors:  Sergio Ferrero; Lorenzo Carretero-Paulet; Marta Adelina Mendes; Alessandro Botton; Giulia Eccher; Simona Masiero; Lucia Colombo
Journal:  PLoS One       Date:  2015-03-17       Impact factor: 3.240

9.  Comparative EST transcript profiling of peach fruits under different post-harvest conditions reveals candidate genes associated with peach fruit quality.

Authors:  Paula Vizoso; Lee A Meisel; Andrés Tittarelli; Mariano Latorre; Juan Saba; Rodrigo Caroca; Jonathan Maldonado; Veronica Cambiazo; Reinaldo Campos-Vargas; Mauricio Gonzalez; Ariel Orellana; Herman Silva
Journal:  BMC Genomics       Date:  2009-09-10       Impact factor: 3.969

10.  Bioinformatic tools for inferring functional information from plant microarray data II: Analysis beyond single gene.

Authors:  Issa Coulibaly; Grier P Page
Journal:  Int J Plant Genomics       Date:  2008
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