PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites

The Plasmodium Genetic Modification (PlasmoGEM) database (http://plasmogem.sanger.ac.uk) provides access to a resource of modular, versatile and adaptable vectors for genome modification of Plasmodium spp. parasites. PlasmoGEM currently consists of >2000 plasmids designed to modify the genome of...

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Main Authors:	Schwach, Frank, Bushell, Ellen, Gomes, Ana Rita, Anar, Burcu, Girling, Gareth, Herd, Colin, Rayner, Julian C., Billker, Oliver
Format:	Online
Language:	English
Published:	Oxford University Press 2015
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383951/

id	pubmed-4383951
recordtype	oai_dc
spelling	pubmed-43839512015-04-24 PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites Schwach, Frank Bushell, Ellen Gomes, Ana Rita Anar, Burcu Girling, Gareth Herd, Colin Rayner, Julian C. Billker, Oliver Database Issue The Plasmodium Genetic Modification (PlasmoGEM) database (http://plasmogem.sanger.ac.uk) provides access to a resource of modular, versatile and adaptable vectors for genome modification of Plasmodium spp. parasites. PlasmoGEM currently consists of >2000 plasmids designed to modify the genome of Plasmodium berghei, a malaria parasite of rodents, which can be requested by non-profit research organisations free of charge. PlasmoGEM vectors are designed with long homology arms for efficient genome integration and carry gene specific barcodes to identify individual mutants. They can be used for a wide array of applications, including protein localisation, gene interaction studies and high-throughput genetic screens. The vector production pipeline is supported by a custom software suite that automates both the vector design process and quality control by full-length sequencing of the finished vectors. The PlasmoGEM web interface allows users to search a database of finished knock-out and gene tagging vectors, view details of their designs, download vector sequence in different formats and view available quality control data as well as suggested genotyping strategies. We also make gDNA library clones and intermediate vectors available for researchers to produce vectors for themselves. Oxford University Press 2015-01-28 2014-12-12 /pmc/articles/PMC4383951/ /pubmed/25593348 http://dx.doi.org/10.1093/nar/gku1143 Text en © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Schwach, Frank Bushell, Ellen Gomes, Ana Rita Anar, Burcu Girling, Gareth Herd, Colin Rayner, Julian C. Billker, Oliver
spellingShingle	Schwach, Frank Bushell, Ellen Gomes, Ana Rita Anar, Burcu Girling, Gareth Herd, Colin Rayner, Julian C. Billker, Oliver PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites
author_facet	Schwach, Frank Bushell, Ellen Gomes, Ana Rita Anar, Burcu Girling, Gareth Herd, Colin Rayner, Julian C. Billker, Oliver
author_sort	Schwach, Frank
title	PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites
title_short	PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites
title_full	PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites
title_fullStr	PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites
title_full_unstemmed	PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites
title_sort	plasmogem, a database supporting a community resource for large-scale experimental genetics in malaria parasites
description	The Plasmodium Genetic Modification (PlasmoGEM) database (http://plasmogem.sanger.ac.uk) provides access to a resource of modular, versatile and adaptable vectors for genome modification of Plasmodium spp. parasites. PlasmoGEM currently consists of >2000 plasmids designed to modify the genome of Plasmodium berghei, a malaria parasite of rodents, which can be requested by non-profit research organisations free of charge. PlasmoGEM vectors are designed with long homology arms for efficient genome integration and carry gene specific barcodes to identify individual mutants. They can be used for a wide array of applications, including protein localisation, gene interaction studies and high-throughput genetic screens. The vector production pipeline is supported by a custom software suite that automates both the vector design process and quality control by full-length sequencing of the finished vectors. The PlasmoGEM web interface allows users to search a database of finished knock-out and gene tagging vectors, view details of their designs, download vector sequence in different formats and view available quality control data as well as suggested genotyping strategies. We also make gDNA library clones and intermediate vectors available for researchers to produce vectors for themselves.
publisher	Oxford University Press
publishDate	2015
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383951/
_version_	1613207121699012608

PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites

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