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IBS 2.0: an upgraded illustrator for the visualization of biological sequences

The visualization of biological sequences with various functional elements is fundamental for the publication of scientific achievements in the field of molecular and cellular biology. However, due to the limitations of the currently used applications, there are still considerable challenges in the...

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Autores principales: Xie, Yubin, Li, Huiqin, Luo, Xiaotong, Li, Hongyu, Gao, Qiuyuan, Zhang, Luowanyue, Teng, Yuyan, Zhao, Qi, Zuo, Zhixiang, Ren, Jian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252815/
https://www.ncbi.nlm.nih.gov/pubmed/35580044
http://dx.doi.org/10.1093/nar/gkac373
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author Xie, Yubin
Li, Huiqin
Luo, Xiaotong
Li, Hongyu
Gao, Qiuyuan
Zhang, Luowanyue
Teng, Yuyan
Zhao, Qi
Zuo, Zhixiang
Ren, Jian
author_facet Xie, Yubin
Li, Huiqin
Luo, Xiaotong
Li, Hongyu
Gao, Qiuyuan
Zhang, Luowanyue
Teng, Yuyan
Zhao, Qi
Zuo, Zhixiang
Ren, Jian
author_sort Xie, Yubin
collection PubMed
description The visualization of biological sequences with various functional elements is fundamental for the publication of scientific achievements in the field of molecular and cellular biology. However, due to the limitations of the currently used applications, there are still considerable challenges in the preparation of biological schematic diagrams. Here, we present a professional tool called IBS 2.0 for illustrating the organization of both protein and nucleotide sequences. With the abundant graphical elements provided in IBS 2.0, biological sequences can be easily represented in a concise and clear way. Moreover, we implemented a database visualization module in IBS 2.0, enabling batch visualization of biological sequences from the UniProt and the NCBI RefSeq databases. Furthermore, to increase the design efficiency, a resource platform that allows uploading, retrieval, and browsing of existing biological sequence diagrams has been integrated into IBS 2.0. In addition, a lightweight JS library was developed in IBS 2.0 to assist the visualization of biological sequences in customized web services. To obtain the latest version of IBS 2.0, please visit https://ibs.renlab.org.
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spelling pubmed-92528152022-07-05 IBS 2.0: an upgraded illustrator for the visualization of biological sequences Xie, Yubin Li, Huiqin Luo, Xiaotong Li, Hongyu Gao, Qiuyuan Zhang, Luowanyue Teng, Yuyan Zhao, Qi Zuo, Zhixiang Ren, Jian Nucleic Acids Res Web Server Issue The visualization of biological sequences with various functional elements is fundamental for the publication of scientific achievements in the field of molecular and cellular biology. However, due to the limitations of the currently used applications, there are still considerable challenges in the preparation of biological schematic diagrams. Here, we present a professional tool called IBS 2.0 for illustrating the organization of both protein and nucleotide sequences. With the abundant graphical elements provided in IBS 2.0, biological sequences can be easily represented in a concise and clear way. Moreover, we implemented a database visualization module in IBS 2.0, enabling batch visualization of biological sequences from the UniProt and the NCBI RefSeq databases. Furthermore, to increase the design efficiency, a resource platform that allows uploading, retrieval, and browsing of existing biological sequence diagrams has been integrated into IBS 2.0. In addition, a lightweight JS library was developed in IBS 2.0 to assist the visualization of biological sequences in customized web services. To obtain the latest version of IBS 2.0, please visit https://ibs.renlab.org. Oxford University Press 2022-05-17 /pmc/articles/PMC9252815/ /pubmed/35580044 http://dx.doi.org/10.1093/nar/gkac373 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Web Server Issue
Xie, Yubin
Li, Huiqin
Luo, Xiaotong
Li, Hongyu
Gao, Qiuyuan
Zhang, Luowanyue
Teng, Yuyan
Zhao, Qi
Zuo, Zhixiang
Ren, Jian
IBS 2.0: an upgraded illustrator for the visualization of biological sequences
title IBS 2.0: an upgraded illustrator for the visualization of biological sequences
title_full IBS 2.0: an upgraded illustrator for the visualization of biological sequences
title_fullStr IBS 2.0: an upgraded illustrator for the visualization of biological sequences
title_full_unstemmed IBS 2.0: an upgraded illustrator for the visualization of biological sequences
title_short IBS 2.0: an upgraded illustrator for the visualization of biological sequences
title_sort ibs 2.0: an upgraded illustrator for the visualization of biological sequences
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252815/
https://www.ncbi.nlm.nih.gov/pubmed/35580044
http://dx.doi.org/10.1093/nar/gkac373
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