Literature DB >> 12227734

Microarray data representation, annotation and storage.

Alvis Brazma1, Ugis Sarkans, Alan Robinson, Jaak Vilo, Martin Vingron, Jörg Hoheisel, Kurt Fellenberg.   

Abstract

Management and analysis of the huge amounts of data produced by microarray experiments is becoming one of the major bottlenecks in the utilization of this high-throughput technology. We describe the basic design of a microarray gene expression database to help microarray users and their informatics teams to set up their information services. We describe two data models--a simpler one called ArrayExpressB and the complete model ArrayExpressC, and discuss some implementation issues. For latest developments see http: wwwebi.ac.uk/arrayexpress

Mesh:

Year:  2002        PMID: 12227734     DOI: 10.1007/3-540-45713-5_7

Source DB:  PubMed          Journal:  Adv Biochem Eng Biotechnol        ISSN: 0724-6145            Impact factor:   2.635


  10 in total

1.  Informatics and quantitative analysis in biological imaging.

Authors:  Jason R Swedlow; Ilya Goldberg; Erik Brauner; Peter K Sorger
Journal:  Science       Date:  2003-04-04       Impact factor: 47.728

2.  The EMBL Nucleotide Sequence Database: major new developments.

Authors:  Guenter Stoesser; Wendy Baker; Alexandra van den Broek; Maria Garcia-Pastor; Carola Kanz; Tamara Kulikova; Rasko Leinonen; Quan Lin; Vincent Lombard; Rodrigo Lopez; Renato Mancuso; Francesco Nardone; Peter Stoehr; Mary Ann Tuli; Katerina Tzouvara; Robert Vaughan
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

3.  The host response to West Nile Virus infection limits viral spread through the activation of the interferon regulatory factor 3 pathway.

Authors:  Brenda L Fredericksen; Maria Smith; Michael G Katze; Pei-Yong Shi; Michael Gale
Journal:  J Virol       Date:  2004-07       Impact factor: 5.103

4.  ArrayExpress--a public repository for microarray gene expression data at the EBI.

Authors:  Alvis Brazma; Helen Parkinson; Ugis Sarkans; Mohammadreza Shojatalab; Jaak Vilo; Niran Abeygunawardena; Ele Holloway; Misha Kapushesky; Patrick Kemmeren; Gonzalo Garcia Lara; Ahmet Oezcimen; Philippe Rocca-Serra; Susanna-Assunta Sansone
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

5.  The genopolis microarray database.

Authors:  Andrea Splendiani; Marco Brandizi; Gael Even; Ottavio Beretta; Norman Pavelka; Mattia Pelizzola; Manuel Mayhaus; Maria Foti; Giancarlo Mauri; Paola Ricciardi-Castagnoli
Journal:  BMC Bioinformatics       Date:  2007-03-08       Impact factor: 3.169

6.  Exosomal microRNA remodels the tumor microenvironment.

Authors:  Xiaoli Jiang; Song Hu; Qiang Liu; Caiyun Qian; Zhuoqi Liu; Daya Luo
Journal:  PeerJ       Date:  2017-12-22       Impact factor: 2.984

7.  CATdb: a public access to Arabidopsis transcriptome data from the URGV-CATMA platform.

Authors:  Séverine Gagnot; Jean-Philippe Tamby; Marie-Laure Martin-Magniette; Frédérique Bitton; Ludivine Taconnat; Sandrine Balzergue; Sébastien Aubourg; Jean-Pierre Renou; Alain Lecharny; Véronique Brunaud
Journal:  Nucleic Acids Res       Date:  2007-10-16       Impact factor: 16.971

8.  Visualization of microarray gene expression data.

Authors:  Tangirala Venkateswara Prasad; Syed Ismail Ahson
Journal:  Bioinformation       Date:  2006-05-03

9.  Design and implementation of microarray gene expression markup language (MAGE-ML).

Authors:  Paul T Spellman; Michael Miller; Jason Stewart; Charles Troup; Ugis Sarkans; Steve Chervitz; Derek Bernhart; Gavin Sherlock; Catherine Ball; Marc Lepage; Marcin Swiatek; W L Marks; Jason Goncalves; Scott Markel; Daniel Iordan; Mohammadreza Shojatalab; Angel Pizarro; Joe White; Robert Hubley; Eric Deutsch; Martin Senger; Bruce J Aronow; Alan Robinson; Doug Bassett; Christian J Stoeckert; Alvis Brazma
Journal:  Genome Biol       Date:  2002-08-23       Impact factor: 13.583

10.  A data management system for structural genomics.

Authors:  Stéphane Raymond; Nicholas O'Toole; Miroslaw Cygler
Journal:  Proteome Sci       Date:  2004-06-21       Impact factor: 2.480

  10 in total

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