Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Accessing data from the International Mouse Phenotyping Consortium: state of the art and future plans.

Literature DB >> 22991088

Accessing data from the International Mouse Phenotyping Consortium: state of the art and future plans.

Ann-Marie Mallon¹, Vivek Iyer, David Melvin, Hugh Morgan, Helen Parkinson, Steve D M Brown, Paul Flicek, William C Skarnes.

Abstract

The International Mouse Phenotyping Consortium (IMPC) (http://www.mousephenotype.org) will reveal the pleiotropic functions of every gene in the mouse genome and uncover the wider role of genetic loci within diverse biological systems. Comprehensive informatics solutions are vital to ensuring that this vast array of data is captured in a standardised manner and made accessible to the scientific community for interrogation and analysis. Here we review the existing EuroPhenome and WTSI phenotype informatics systems and the IKMC portal, and present plans for extending these systems and lessons learned to the development of a robust IMPC informatics infrastructure.

Entities: Chemical

Mesh：

Year: 2012 PMID： 22991088 PMCID： PMC4106044 DOI： 10.1007/s00335-012-9428-9

Source DB: PubMed Journal: Mamm Genome ISSN： 0938-8990 Impact factor: 2.957

20 in total

1. Large scale comparison of global gene expression patterns in human and mouse.

Authors: Xiangqun Zheng-Bradley; Johan Rung; Helen Parkinson; Alvis Brazma
Journal: Genome Biol Date: 2010-12-23 Impact factor: 13.583

2. The Mouse Phenome Project.

Authors: Molly A Bogue; Stephen C Grubb
Journal: Genetica Date: 2004-09 Impact factor: 1.082

3. Fast and efficient searching of biological data resources--using EB-eye.

Authors: Franck Valentin; Silvano Squizzato; Mickael Goujon; Hamish McWilliam; Juri Paern; Rodrigo Lopez
Journal: Brief Bioinform Date: 2010-02-11 Impact factor: 11.622

4. Modeling sample variables with an Experimental Factor Ontology.

Authors: James Malone; Ele Holloway; Tomasz Adamusiak; Misha Kapushesky; Jie Zheng; Nikolay Kolesnikov; Anna Zhukova; Alvis Brazma; Helen Parkinson
Journal: Bioinformatics Date: 2010-03-03 Impact factor: 6.937

5. A conditional knockout resource for the genome-wide study of mouse gene function.

Authors: William C Skarnes; Barry Rosen; Anthony P West; Manousos Koutsourakis; Wendy Bushell; Vivek Iyer; Alejandro O Mujica; Mark Thomas; Jennifer Harrow; Tony Cox; David Jackson; Jessica Severin; Patrick Biggs; Jun Fu; Michael Nefedov; Pieter J de Jong; A Francis Stewart; Allan Bradley
Journal: Nature Date: 2011-06-15 Impact factor: 49.962

6. Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project.

Authors: Chris F Taylor; Dawn Field; Susanna-Assunta Sansone; Jan Aerts; Rolf Apweiler; Michael Ashburner; Catherine A Ball; Pierre-Alain Binz; Molly Bogue; Tim Booth; Alvis Brazma; Ryan R Brinkman; Adam Michael Clark; Eric W Deutsch; Oliver Fiehn; Jennifer Fostel; Peter Ghazal; Frank Gibson; Tanya Gray; Graeme Grimes; John M Hancock; Nigel W Hardy; Henning Hermjakob; Randall K Julian; Matthew Kane; Carsten Kettner; Christopher Kinsinger; Eugene Kolker; Martin Kuiper; Nicolas Le Novère; Jim Leebens-Mack; Suzanna E Lewis; Phillip Lord; Ann-Marie Mallon; Nishanth Marthandan; Hiroshi Masuya; Ruth McNally; Alexander Mehrle; Norman Morrison; Sandra Orchard; John Quackenbush; James M Reecy; Donald G Robertson; Philippe Rocca-Serra; Henry Rodriguez; Heiko Rosenfelder; Javier Santoyo-Lopez; Richard H Scheuermann; Daniel Schober; Barry Smith; Jason Snape; Christian J Stoeckert; Keith Tipton; Peter Sterk; Andreas Untergasser; Jo Vandesompele; Stefan Wiemann
Journal: Nat Biotechnol Date: 2008-08 Impact factor: 54.908

7. Ensembl 2012.

Authors: Paul Flicek; M Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Laurent Gil; Leo Gordon; Maurice Hendrix; Thibaut Hourlier; Nathan Johnson; Andreas K Kähäri; Damian Keefe; Stephen Keenan; Rhoda Kinsella; Monika Komorowska; Gautier Koscielny; Eugene Kulesha; Pontus Larsson; Ian Longden; William McLaren; Matthieu Muffato; Bert Overduin; Miguel Pignatelli; Bethan Pritchard; Harpreet Singh Riat; Graham R S Ritchie; Magali Ruffier; Michael Schuster; Daniel Sobral; Y Amy Tang; Kieron Taylor; Stephen Trevanion; Jana Vandrovcova; Simon White; Mark Wilson; Steven P Wilder; Bronwen L Aken; Ewan Birney; Fiona Cunningham; Ian Dunham; Richard Durbin; Xosé M Fernández-Suarez; Jennifer Harrow; Javier Herrero; Tim J P Hubbard; Anne Parker; Glenn Proctor; Giulietta Spudich; Jan Vogel; Andy Yates; Amonida Zadissa; Stephen M J Searle
Journal: Nucleic Acids Res Date: 2011-11-15 Impact factor: 16.971

8. Using ontologies to describe mouse phenotypes.

Authors: Georgios V Gkoutos; Eain C J Green; Ann-Marie Mallon; John M Hancock; Duncan Davidson
Journal: Genome Biol Date: 2004-12-20 Impact factor: 13.583

9. EuroPhenome: a repository for high-throughput mouse phenotyping data.

Authors: Hugh Morgan; Tim Beck; Andrew Blake; Hilary Gates; Niels Adams; Guillaume Debouzy; Sophie Leblanc; Christoph Lengger; Holger Maier; David Melvin; Hamid Meziane; Dave Richardson; Sara Wells; Jacqui White; Joe Wood; Martin Hrabé de Angelis; Steve D M Brown; John M Hancock; Ann-Marie Mallon
Journal: Nucleic Acids Res Date: 2009-11-23 Impact factor: 16.971

10. Towards an encyclopaedia of mammalian gene function: the International Mouse Phenotyping Consortium.

Authors: Steve D M Brown; Mark W Moore
Journal: Dis Model Mech Date: 2012-05 Impact factor: 5.758

20 in total

1. Utilising the resources of the International Knockout Mouse Consortium: the Australian experience.

Authors: Leanne M Cotton; Michelle L Meilak; Tanya Templeton; Jose G Gonzales; Arianna Nenci; Melissa Cooney; Dirk Truman; Fleur Rodda; Alyce Lynas; Elizabeth Viney; Nadia Rosenthal; Deborah M Bianco; Moira K O'Bryan; Ian M Smyth
Journal: Mamm Genome Date: 2015-02-03 Impact factor: 2.957

2. A Review of Current Standards and the Evolution of Histopathology Nomenclature for Laboratory Animals.

Authors: Susan A Elmore; Robert Cardiff; Mark F Cesta; Georgios V Gkoutos; Robert Hoehndorf; Charlotte M Keenan; Colin McKerlie; Paul N Schofield; John P Sundberg; Jerrold M Ward
Journal: ILAR J Date: 2018-12-01

3. Legal agreements and the governance of research commons: lessons from materials sharing in mouse genomics.

Authors: Amrita Mishra; Tania Bubela
Journal: OMICS Date: 2014-02-19

Review 4. Mouse models for liver cancer.

Authors: Latifa Bakiri; Erwin F Wagner
Journal: Mol Oncol Date: 2013-02-05 Impact factor: 6.603

Review 5. Polygenic Causes of Congenital Diaphragmatic Hernia Produce Common Lung Pathologies.

Authors: Patricia K Donahoe; Mauro Longoni; Frances A High
Journal: Am J Pathol Date: 2016-08-24 Impact factor: 4.307

Review 6. Chromosome substitution strains: gene discovery, functional analysis, and systems studies.

Authors: Joseph H Nadeau; Jiri Forejt; Toyoyuki Takada; Toshihiko Shiroishi
Journal: Mamm Genome Date: 2012-09-08 Impact factor: 2.957

7. The International Mouse Phenotyping Consortium: past and future perspectives on mouse phenotyping.

Authors: Steve D M Brown; Mark W Moore
Journal: Mamm Genome Date: 2012-09-01 Impact factor: 2.957

8. A Meta-Analysis of Bioelectric Data in Cancer, Embryogenesis, and Regeneration.

Authors: Pranjal Srivastava; Anna Kane; Christina Harrison; Michael Levin
Journal: Bioelectricity Date: 2021-03-16

9. The International Mouse Strain Resource (IMSR): cataloging worldwide mouse and ES cell line resources.

Authors: Janan T Eppig; Howie Motenko; Joel E Richardson; Beverly Richards-Smith; Cynthia L Smith
Journal: Mamm Genome Date: 2015-09-15 Impact factor: 2.957

10. The BioMart community portal: an innovative alternative to large, centralized data repositories.

Authors: Damian Smedley; Syed Haider; Steffen Durinck; Luca Pandini; Paolo Provero; James Allen; Olivier Arnaiz; Mohammad Hamza Awedh; Richard Baldock; Giulia Barbiera; Philippe Bardou; Tim Beck; Andrew Blake; Merideth Bonierbale; Anthony J Brookes; Gabriele Bucci; Iwan Buetti; Sarah Burge; Cédric Cabau; Joseph W Carlson; Claude Chelala; Charalambos Chrysostomou; Davide Cittaro; Olivier Collin; Raul Cordova; Rosalind J Cutts; Erik Dassi; Alex Di Genova; Anis Djari; Anthony Esposito; Heather Estrella; Eduardo Eyras; Julio Fernandez-Banet; Simon Forbes; Robert C Free; Takatomo Fujisawa; Emanuela Gadaleta; Jose M Garcia-Manteiga; David Goodstein; Kristian Gray; José Afonso Guerra-Assunção; Bernard Haggarty; Dong-Jin Han; Byung Woo Han; Todd Harris; Jayson Harshbarger; Robert K Hastings; Richard D Hayes; Claire Hoede; Shen Hu; Zhi-Liang Hu; Lucie Hutchins; Zhengyan Kan; Hideya Kawaji; Aminah Keliet; Arnaud Kerhornou; Sunghoon Kim; Rhoda Kinsella; Christophe Klopp; Lei Kong; Daniel Lawson; Dejan Lazarevic; Ji-Hyun Lee; Thomas Letellier; Chuan-Yun Li; Pietro Lio; Chu-Jun Liu; Jie Luo; Alejandro Maass; Jerome Mariette; Thomas Maurel; Stefania Merella; Azza Mostafa Mohamed; Francois Moreews; Ibounyamine Nabihoudine; Nelson Ndegwa; Céline Noirot; Cristian Perez-Llamas; Michael Primig; Alessandro Quattrone; Hadi Quesneville; Davide Rambaldi; James Reecy; Michela Riba; Steven Rosanoff; Amna Ali Saddiq; Elisa Salas; Olivier Sallou; Rebecca Shepherd; Reinhard Simon; Linda Sperling; William Spooner; Daniel M Staines; Delphine Steinbach; Kevin Stone; Elia Stupka; Jon W Teague; Abu Z Dayem Ullah; Jun Wang; Doreen Ware; Marie Wong-Erasmus; Ken Youens-Clark; Amonida Zadissa; Shi-Jian Zhang; Arek Kasprzyk
Journal: Nucleic Acids Res Date: 2015-04-20 Impact factor: 16.971