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Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome

Citrus is one of the most important and widely grown fruit crop with global production ranking firstly among all the fruit crops in the world. Sweet orange accounts for more than half of the Citrus production both in fresh fruit and processed juice. We have sequenced the draft genome of a double-hap...

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Autores principales: Wang, Jia, Chen, Dijun, Lei, Yang, Chang, Ji-Wei, Hao, Bao-Hai, Xing, Feng, Li, Sen, Xu, Qiang, Deng, Xiu-Xin, Chen, Ling-Ling
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3905029/
https://www.ncbi.nlm.nih.gov/pubmed/24489955
http://dx.doi.org/10.1371/journal.pone.0087723
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author Wang, Jia
Chen, Dijun
Lei, Yang
Chang, Ji-Wei
Hao, Bao-Hai
Xing, Feng
Li, Sen
Xu, Qiang
Deng, Xiu-Xin
Chen, Ling-Ling
author_facet Wang, Jia
Chen, Dijun
Lei, Yang
Chang, Ji-Wei
Hao, Bao-Hai
Xing, Feng
Li, Sen
Xu, Qiang
Deng, Xiu-Xin
Chen, Ling-Ling
author_sort Wang, Jia
collection PubMed
description Citrus is one of the most important and widely grown fruit crop with global production ranking firstly among all the fruit crops in the world. Sweet orange accounts for more than half of the Citrus production both in fresh fruit and processed juice. We have sequenced the draft genome of a double-haploid sweet orange (C. sinensis cv. Valencia), and constructed the Citrus sinensis annotation project (CAP) to store and visualize the sequenced genomic and transcriptome data. CAP provides GBrowse-based organization of sweet orange genomic data, which integrates ab initio gene prediction, EST, RNA-seq and RNA-paired end tag (RNA-PET) evidence-based gene annotation. Furthermore, we provide a user-friendly web interface to show the predicted protein-protein interactions (PPIs) and metabolic pathways in sweet orange. CAP provides comprehensive information beneficial to the researchers of sweet orange and other woody plants, which is freely available at http://citrus.hzau.edu.cn/.
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spelling pubmed-39050292014-01-31 Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome Wang, Jia Chen, Dijun Lei, Yang Chang, Ji-Wei Hao, Bao-Hai Xing, Feng Li, Sen Xu, Qiang Deng, Xiu-Xin Chen, Ling-Ling PLoS One Research Article Citrus is one of the most important and widely grown fruit crop with global production ranking firstly among all the fruit crops in the world. Sweet orange accounts for more than half of the Citrus production both in fresh fruit and processed juice. We have sequenced the draft genome of a double-haploid sweet orange (C. sinensis cv. Valencia), and constructed the Citrus sinensis annotation project (CAP) to store and visualize the sequenced genomic and transcriptome data. CAP provides GBrowse-based organization of sweet orange genomic data, which integrates ab initio gene prediction, EST, RNA-seq and RNA-paired end tag (RNA-PET) evidence-based gene annotation. Furthermore, we provide a user-friendly web interface to show the predicted protein-protein interactions (PPIs) and metabolic pathways in sweet orange. CAP provides comprehensive information beneficial to the researchers of sweet orange and other woody plants, which is freely available at http://citrus.hzau.edu.cn/. Public Library of Science 2014-01-28 /pmc/articles/PMC3905029/ /pubmed/24489955 http://dx.doi.org/10.1371/journal.pone.0087723 Text en © 2014 Wang et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Wang, Jia
Chen, Dijun
Lei, Yang
Chang, Ji-Wei
Hao, Bao-Hai
Xing, Feng
Li, Sen
Xu, Qiang
Deng, Xiu-Xin
Chen, Ling-Ling
Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
title Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
title_full Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
title_fullStr Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
title_full_unstemmed Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
title_short Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
title_sort citrus sinensis annotation project (cap): a comprehensive database for sweet orange genome
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3905029/
https://www.ncbi.nlm.nih.gov/pubmed/24489955
http://dx.doi.org/10.1371/journal.pone.0087723
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