Literature DB >> 32699173

Araport Lives: An Updated Framework for Arabidopsis Bioinformatics.

Asher Pasha1, Shabari Subramaniam2, Alan Cleary3, Xingguo Chen2, Tanya Berardini2, Andrew Farmer3, Christopher Town4, Nicholas Provart5.   

Abstract

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Year:  2020        PMID： 32699173      PMCID： PMC7474289          DOI： 10.1105/tpc.20.00358

Source DB:  PubMed          Journal:  Plant Cell        ISSN： 1040-4651            Impact factor:   11.277


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  21 in total

1.  Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.

Authors: 
Journal:  Nature       Date:  2000-12-14       Impact factor: 49.962

2.  Integrative Analysis from the Epigenome to Translatome Uncovers Patterns of Dominant Nuclear Regulation during Transient Stress.

Authors:  Travis A Lee; Julia Bailey-Serres
Journal:  Plant Cell       Date:  2019-09-13       Impact factor: 11.277

3.  Araport11: a complete reannotation of the Arabidopsis thaliana reference genome.

Authors:  Chia-Yi Cheng; Vivek Krishnakumar; Agnes P Chan; Françoise Thibaud-Nissen; Seth Schobel; Christopher D Town
Journal:  Plant J       Date:  2017-02-10       Impact factor: 6.417

4.  The IntAct molecular interaction database in 2012.

Authors:  Samuel Kerrien; Bruno Aranda; Lionel Breuza; Alan Bridge; Fiona Broackes-Carter; Carol Chen; Margaret Duesbury; Marine Dumousseau; Marc Feuermann; Ursula Hinz; Christine Jandrasits; Rafael C Jimenez; Jyoti Khadake; Usha Mahadevan; Patrick Masson; Ivo Pedruzzi; Eric Pfeiffenberger; Pablo Porras; Arathi Raghunath; Bernd Roechert; Sandra Orchard; Henning Hermjakob
Journal:  Nucleic Acids Res       Date:  2011-11-24       Impact factor: 16.971

5.  Entrez Gene: gene-centered information at NCBI.

Authors:  Donna Maglott; Jim Ostell; Kim D Pruitt; Tatiana Tatusova
Journal:  Nucleic Acids Res       Date:  2006-12-05       Impact factor: 16.971

6.  ATTED-II in 2014: evaluation of gene coexpression in agriculturally important plants.

Authors:  Takeshi Obayashi; Yasunobu Okamura; Satoshi Ito; Shu Tadaka; Yuichi Aoki; Matsuyuki Shirota; Kengo Kinoshita
Journal:  Plant Cell Physiol       Date:  2013-12-10       Impact factor: 4.927

7.  The BioGRID interaction database: 2017 update.

Authors:  Andrew Chatr-Aryamontri; Rose Oughtred; Lorrie Boucher; Jennifer Rust; Christie Chang; Nadine K Kolas; Lara O'Donnell; Sara Oster; Chandra Theesfeld; Adnane Sellam; Chris Stark; Bobby-Joe Breitkreutz; Kara Dolinski; Mike Tyers
Journal:  Nucleic Acids Res       Date:  2016-12-14       Impact factor: 16.971

8.  InterPro in 2019: improving coverage, classification and access to protein sequence annotations.

Authors:  Alex L Mitchell; Teresa K Attwood; Patricia C Babbitt; Matthias Blum; Peer Bork; Alan Bridge; Shoshana D Brown; Hsin-Yu Chang; Sara El-Gebali; Matthew I Fraser; Julian Gough; David R Haft; Hongzhan Huang; Ivica Letunic; Rodrigo Lopez; Aurélien Luciani; Fabio Madeira; Aron Marchler-Bauer; Huaiyu Mi; Darren A Natale; Marco Necci; Gift Nuka; Christine Orengo; Arun P Pandurangan; Typhaine Paysan-Lafosse; Sebastien Pesseat; Simon C Potter; Matloob A Qureshi; Neil D Rawlings; Nicole Redaschi; Lorna J Richardson; Catherine Rivoire; Gustavo A Salazar; Amaia Sangrador-Vegas; Christian J A Sigrist; Ian Sillitoe; Granger G Sutton; Narmada Thanki; Paul D Thomas; Silvio C E Tosatto; Siew-Yit Yong; Robert D Finn
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

9.  PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees.

Authors:  Huaiyu Mi; Anushya Muruganujan; Paul D Thomas
Journal:  Nucleic Acids Res       Date:  2012-11-27       Impact factor: 16.971

10.  An "Electronic Fluorescent Pictograph" browser for exploring and analyzing large-scale biological data sets.

Authors:  Debbie Winter; Ben Vinegar; Hardeep Nahal; Ron Ammar; Greg V Wilson; Nicholas J Provart
Journal:  PLoS One       Date:  2007-08-08       Impact factor: 3.240
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  5 in total

1.  Systematic analyses of the MIR172 family members of Arabidopsis define their distinct roles in regulation of APETALA2 during floral transition.

Authors:  Diarmuid S Ó'Maoiléidigh; Annabel D van Driel; Anamika Singh; Qing Sang; Nolwenn Le Bec; Coral Vincent; Enric Bertran Garcia de Olalla; Alice Vayssières; Maida Romera Branchat; Edouard Severing; Rafael Martinez Gallegos; George Coupland
Journal:  PLoS Biol       Date:  2021-02-02       Impact factor: 8.029

2.  Effective Mechanisms for Improving Seed Oil Production in Pennycress (Thlaspi arvense L.) Highlighted by Integration of Comparative Metabolomics and Transcriptomics.

Authors:  Christopher Johnston; Leidy Tatiana García Navarrete; Emmanuel Ortiz; Trevor B Romsdahl; Athanas Guzha; Kent D Chapman; Erich Grotewold; Ana Paula Alonso
Journal:  Front Plant Sci       Date:  2022-07-14       Impact factor: 6.627

3.  CisCross: A gene list enrichment analysis to predict upstream regulators in Arabidopsis thaliana.

Authors:  Viktoriya V Lavrekha; Victor G Levitsky; Anton V Tsukanov; Anton G Bogomolov; Dmitry A Grigorovich; Nadya Omelyanchuk; Elena V Ubogoeva; Elena V Zemlyanskaya; Victoria Mironova
Journal:  Front Plant Sci       Date:  2022-08-18       Impact factor: 6.627

4.  Seed DNA damage responses promote germination and growth in Arabidopsis thaliana.

Authors:  Wanda M Waterworth; Rosalind Latham; Dapeng Wang; Mona Alsharif; Christopher E West
Journal:  Proc Natl Acad Sci U S A       Date:  2022-07-18       Impact factor: 12.779

Review 5.  Anno genominis XX: 20 years of Arabidopsis genomics.

Authors:  Nicholas J Provart; Siobhan M Brady; Geraint Parry; Robert J Schmitz; Christine Queitsch; Dario Bonetta; Jamie Waese; Korbinian Schneeberger; Ann E Loraine
Journal:  Plant Cell       Date:  2021-05-31       Impact factor: 12.085
  5 in total

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