MaizeGDB 2018: the maize multi-genome genetics and genomics database

Since its 2015 update, MaizeGDB, the Maize Genetics and Genomics database, has expanded to support the sequenced genomes of many maize inbred lines in addition to the B73 reference genome assembly. Curation and development efforts have targeted high quality datasets and tools to support maize trait...

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Autores principales: Portwood, John L, Woodhouse, Margaret R, Cannon, Ethalinda K, Gardiner, Jack M, Harper, Lisa C, Schaeffer, Mary L, Walsh, Jesse R, Sen, Taner Z, Cho, Kyoung Tak, Schott, David A, Braun, Bremen L, Dietze, Miranda, Dunfee, Brittney, Elsik, Christine G, Manchanda, Nancy, Coe, Ed, Sachs, Marty, Stinard, Philip, Tolbert, Josh, Zimmerman, Shane, Andorf, Carson M
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6323944/
https://www.ncbi.nlm.nih.gov/pubmed/30407532
http://dx.doi.org/10.1093/nar/gky1046
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author Portwood, John L
Woodhouse, Margaret R
Cannon, Ethalinda K
Gardiner, Jack M
Harper, Lisa C
Schaeffer, Mary L
Walsh, Jesse R
Sen, Taner Z
Cho, Kyoung Tak
Schott, David A
Braun, Bremen L
Dietze, Miranda
Dunfee, Brittney
Elsik, Christine G
Manchanda, Nancy
Coe, Ed
Sachs, Marty
Stinard, Philip
Tolbert, Josh
Zimmerman, Shane
Andorf, Carson M
author_facet Portwood, John L
Woodhouse, Margaret R
Cannon, Ethalinda K
Gardiner, Jack M
Harper, Lisa C
Schaeffer, Mary L
Walsh, Jesse R
Sen, Taner Z
Cho, Kyoung Tak
Schott, David A
Braun, Bremen L
Dietze, Miranda
Dunfee, Brittney
Elsik, Christine G
Manchanda, Nancy
Coe, Ed
Sachs, Marty
Stinard, Philip
Tolbert, Josh
Zimmerman, Shane
Andorf, Carson M
author_sort Portwood, John L
collection PubMed
description Since its 2015 update, MaizeGDB, the Maize Genetics and Genomics database, has expanded to support the sequenced genomes of many maize inbred lines in addition to the B73 reference genome assembly. Curation and development efforts have targeted high quality datasets and tools to support maize trait analysis, germplasm analysis, genetic studies, and breeding. MaizeGDB hosts a wide range of data including recent support of new data types including genome metadata, RNA-seq, proteomics, synteny, and large-scale diversity. To improve access and visualization of data types several new tools have been implemented to: access large-scale maize diversity data (SNPversity), download and compare gene expression data (qTeller), visualize pedigree data (Pedigree Viewer), link genes with phenotype images (MaizeDIG), and enable flexible user-specified queries to the MaizeGDB database (MaizeMine). MaizeGDB also continues to be the community hub for maize research, coordinating activities and providing technical support to the maize research community. Here we report the changes MaizeGDB has made within the last three years to keep pace with recent software and research advances, as well as the pan-genomic landscape that cheaper and better sequencing technologies have made possible. MaizeGDB is accessible online at https://www.maizegdb.org.
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spelling pubmed-63239442019-01-10 MaizeGDB 2018: the maize multi-genome genetics and genomics database Portwood, John L Woodhouse, Margaret R Cannon, Ethalinda K Gardiner, Jack M Harper, Lisa C Schaeffer, Mary L Walsh, Jesse R Sen, Taner Z Cho, Kyoung Tak Schott, David A Braun, Bremen L Dietze, Miranda Dunfee, Brittney Elsik, Christine G Manchanda, Nancy Coe, Ed Sachs, Marty Stinard, Philip Tolbert, Josh Zimmerman, Shane Andorf, Carson M Nucleic Acids Res Database Issue Since its 2015 update, MaizeGDB, the Maize Genetics and Genomics database, has expanded to support the sequenced genomes of many maize inbred lines in addition to the B73 reference genome assembly. Curation and development efforts have targeted high quality datasets and tools to support maize trait analysis, germplasm analysis, genetic studies, and breeding. MaizeGDB hosts a wide range of data including recent support of new data types including genome metadata, RNA-seq, proteomics, synteny, and large-scale diversity. To improve access and visualization of data types several new tools have been implemented to: access large-scale maize diversity data (SNPversity), download and compare gene expression data (qTeller), visualize pedigree data (Pedigree Viewer), link genes with phenotype images (MaizeDIG), and enable flexible user-specified queries to the MaizeGDB database (MaizeMine). MaizeGDB also continues to be the community hub for maize research, coordinating activities and providing technical support to the maize research community. Here we report the changes MaizeGDB has made within the last three years to keep pace with recent software and research advances, as well as the pan-genomic landscape that cheaper and better sequencing technologies have made possible. MaizeGDB is accessible online at https://www.maizegdb.org. Oxford University Press 2019-01-08 2018-11-08 /pmc/articles/PMC6323944/ /pubmed/30407532 http://dx.doi.org/10.1093/nar/gky1046 Text en Published by Oxford University Press on behalf of Nucleic Acids Research 2018. This work is written by (a) US Government employee(s) and is in the public domain in the US.
spellingShingle Database Issue
Portwood, John L
Woodhouse, Margaret R
Cannon, Ethalinda K
Gardiner, Jack M
Harper, Lisa C
Schaeffer, Mary L
Walsh, Jesse R
Sen, Taner Z
Cho, Kyoung Tak
Schott, David A
Braun, Bremen L
Dietze, Miranda
Dunfee, Brittney
Elsik, Christine G
Manchanda, Nancy
Coe, Ed
Sachs, Marty
Stinard, Philip
Tolbert, Josh
Zimmerman, Shane
Andorf, Carson M
MaizeGDB 2018: the maize multi-genome genetics and genomics database
title MaizeGDB 2018: the maize multi-genome genetics and genomics database
title_full MaizeGDB 2018: the maize multi-genome genetics and genomics database
title_fullStr MaizeGDB 2018: the maize multi-genome genetics and genomics database
title_full_unstemmed MaizeGDB 2018: the maize multi-genome genetics and genomics database
title_short MaizeGDB 2018: the maize multi-genome genetics and genomics database
title_sort maizegdb 2018: the maize multi-genome genetics and genomics database
topic Database Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6323944/
https://www.ncbi.nlm.nih.gov/pubmed/30407532
http://dx.doi.org/10.1093/nar/gky1046
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