DNA barcode goes two-dimensions: DNA QR code web server.

The DNA barcoding technology uses a standard region of DNA sequence for species identification and discovery. At present, "DNA barcode" actually refers to DNA sequences, which are not amenable to information storage, recognition, and retrieval. Our aim is to identify the best symbology tha...

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Autores principales:	Chang Liu, Linchun Shi, Xiaolan Xu, Huan Li, Hang Xing, Dong Liang, Kun Jiang, Xiaohui Pang, Jingyuan Song, Shilin Chen
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e22198b099364d67b63ef77aad3fa829
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spelling	oai:doaj.org-article:e22198b099364d67b63ef77aad3fa8292021-11-18T07:19:44ZDNA barcode goes two-dimensions: DNA QR code web server.1932-620310.1371/journal.pone.0035146https://doaj.org/article/e22198b099364d67b63ef77aad3fa8292012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22574113/?tool=EBIhttps://doaj.org/toc/1932-6203The DNA barcoding technology uses a standard region of DNA sequence for species identification and discovery. At present, "DNA barcode" actually refers to DNA sequences, which are not amenable to information storage, recognition, and retrieval. Our aim is to identify the best symbology that can represent DNA barcode sequences in practical applications. A comprehensive set of sequences for five DNA barcode markers ITS2, rbcL, matK, psbA-trnH, and CO1 was used as the test data. Fifty-three different types of one-dimensional and ten two-dimensional barcode symbologies were compared based on different criteria, such as coding capacity, compression efficiency, and error detection ability. The quick response (QR) code was found to have the largest coding capacity and relatively high compression ratio. To facilitate the further usage of QR code-based DNA barcodes, a web server was developed and is accessible at http://qrfordna.dnsalias.org. The web server allows users to retrieve the QR code for a species of interests, convert a DNA sequence to and from a QR code, and perform species identification based on local and global sequence similarities. In summary, the first comprehensive evaluation of various barcode symbologies has been carried out. The QR code has been found to be the most appropriate symbology for DNA barcode sequences. A web server has also been constructed to allow biologists to utilize QR codes in practical DNA barcoding applications.Chang LiuLinchun ShiXiaolan XuHuan LiHang XingDong LiangKun JiangXiaohui PangJingyuan SongShilin ChenPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 5, p e35146 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Chang Liu Linchun Shi Xiaolan Xu Huan Li Hang Xing Dong Liang Kun Jiang Xiaohui Pang Jingyuan Song Shilin Chen DNA barcode goes two-dimensions: DNA QR code web server.
description	The DNA barcoding technology uses a standard region of DNA sequence for species identification and discovery. At present, "DNA barcode" actually refers to DNA sequences, which are not amenable to information storage, recognition, and retrieval. Our aim is to identify the best symbology that can represent DNA barcode sequences in practical applications. A comprehensive set of sequences for five DNA barcode markers ITS2, rbcL, matK, psbA-trnH, and CO1 was used as the test data. Fifty-three different types of one-dimensional and ten two-dimensional barcode symbologies were compared based on different criteria, such as coding capacity, compression efficiency, and error detection ability. The quick response (QR) code was found to have the largest coding capacity and relatively high compression ratio. To facilitate the further usage of QR code-based DNA barcodes, a web server was developed and is accessible at http://qrfordna.dnsalias.org. The web server allows users to retrieve the QR code for a species of interests, convert a DNA sequence to and from a QR code, and perform species identification based on local and global sequence similarities. In summary, the first comprehensive evaluation of various barcode symbologies has been carried out. The QR code has been found to be the most appropriate symbology for DNA barcode sequences. A web server has also been constructed to allow biologists to utilize QR codes in practical DNA barcoding applications.
format	article
author	Chang Liu Linchun Shi Xiaolan Xu Huan Li Hang Xing Dong Liang Kun Jiang Xiaohui Pang Jingyuan Song Shilin Chen
author_facet	Chang Liu Linchun Shi Xiaolan Xu Huan Li Hang Xing Dong Liang Kun Jiang Xiaohui Pang Jingyuan Song Shilin Chen
author_sort	Chang Liu
title	DNA barcode goes two-dimensions: DNA QR code web server.
title_short	DNA barcode goes two-dimensions: DNA QR code web server.
title_full	DNA barcode goes two-dimensions: DNA QR code web server.
title_fullStr	DNA barcode goes two-dimensions: DNA QR code web server.
title_full_unstemmed	DNA barcode goes two-dimensions: DNA QR code web server.
title_sort	dna barcode goes two-dimensions: dna qr code web server.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/e22198b099364d67b63ef77aad3fa829
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DNA barcode goes two-dimensions: DNA QR code web server.

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