PCIR: a database of Plant Chloroplast Inverted Repeats

Inverted repeats (IRs) serve as potential biomarkers for genomic instability, DNA replication and other genetic processes. However, little information can be found in databases to help researchers recognize potential IR nucleotides, explore junction sites and annotate related functional genes. Plant...

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Detalles Bibliográficos
Autores principales: Zhang, Rui, Ge, Fangfang, Li, Huayang, Chen, Yudong, Zhao, Ying, Gao, Ying, Liu, Zhiguo, Yang, Long
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Original Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6835207/
https://www.ncbi.nlm.nih.gov/pubmed/31696928
http://dx.doi.org/10.1093/database/baz127
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author Zhang, Rui
Ge, Fangfang
Li, Huayang
Chen, Yudong
Zhao, Ying
Gao, Ying
Liu, Zhiguo
Yang, Long
author_facet Zhang, Rui
Ge, Fangfang
Li, Huayang
Chen, Yudong
Zhao, Ying
Gao, Ying
Liu, Zhiguo
Yang, Long
author_sort Zhang, Rui
collection PubMed
description Inverted repeats (IRs) serve as potential biomarkers for genomic instability, DNA replication and other genetic processes. However, little information can be found in databases to help researchers recognize potential IR nucleotides, explore junction sites and annotate related functional genes. Plant Chloroplast Inverted Repeats (PCIR) is an interactive, web-based platform containing various sequenced chloroplast genomes that enables detection, searching and visualization of large-scale detailed information on IRs. PCIR contains many datasets, including 21 433 IRs, 113 plants chloroplast genomes, 16 948 functional genes and 21 659 visual maps. This database offers an online prediction tool for detecting IRs based on DNA sequences. PCIR can also analyze phylogenetic relationships using IR information among different species and provide users with high-quality marker maps. This database will be a valuable resource for IR distribution patterns, related genes and architectural features.
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spelling pubmed-68352072019-11-13 PCIR: a database of Plant Chloroplast Inverted Repeats Zhang, Rui Ge, Fangfang Li, Huayang Chen, Yudong Zhao, Ying Gao, Ying Liu, Zhiguo Yang, Long Database (Oxford) Original Article Inverted repeats (IRs) serve as potential biomarkers for genomic instability, DNA replication and other genetic processes. However, little information can be found in databases to help researchers recognize potential IR nucleotides, explore junction sites and annotate related functional genes. Plant Chloroplast Inverted Repeats (PCIR) is an interactive, web-based platform containing various sequenced chloroplast genomes that enables detection, searching and visualization of large-scale detailed information on IRs. PCIR contains many datasets, including 21 433 IRs, 113 plants chloroplast genomes, 16 948 functional genes and 21 659 visual maps. This database offers an online prediction tool for detecting IRs based on DNA sequences. PCIR can also analyze phylogenetic relationships using IR information among different species and provide users with high-quality marker maps. This database will be a valuable resource for IR distribution patterns, related genes and architectural features. Oxford University Press 2019-11-07 /pmc/articles/PMC6835207/ /pubmed/31696928 http://dx.doi.org/10.1093/database/baz127 Text en © The Author(s) 2019. Published by Oxford University Press. 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.
spellingShingle Original Article
Zhang, Rui
Ge, Fangfang
Li, Huayang
Chen, Yudong
Zhao, Ying
Gao, Ying
Liu, Zhiguo
Yang, Long
PCIR: a database of Plant Chloroplast Inverted Repeats
title PCIR: a database of Plant Chloroplast Inverted Repeats
title_full PCIR: a database of Plant Chloroplast Inverted Repeats
title_fullStr PCIR: a database of Plant Chloroplast Inverted Repeats
title_full_unstemmed PCIR: a database of Plant Chloroplast Inverted Repeats
title_short PCIR: a database of Plant Chloroplast Inverted Repeats
title_sort pcir: a database of plant chloroplast inverted repeats
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6835207/
https://www.ncbi.nlm.nih.gov/pubmed/31696928
http://dx.doi.org/10.1093/database/baz127
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