• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验

下一代基因组测序时代用于环形可视化的基因组工具概述

Overview of Genomic Tools for Circular Visualization in the Next-generation Genomic Sequencing Era.

作者信息

Parveen Alisha, Khurana Sukant, Kumar Abhishek

机构信息

1Medical Research Center, Medical Faculty of Mannheim, University of Heidelberg, Mannheim, Germany; 2Pharmacology Department, Central Drug Research Institute - Lucknow, Uttar Pradesh, India; 3Department of Genetics & Molecular Biology in Botany, Institute of Botany, Christian-Albrechts-University at Kiel, Kiel, Germany.

出版信息

Curr Genomics. 2019 Feb;20(2):90-99. doi: 10.2174/1389202920666190314092044.

DOI:10.2174/1389202920666190314092044
PMID:31555060
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6728899/
Abstract

After human genome sequencing and rapid changes in genome sequencing methods, we have entered into the era of rapidly accumulating genome-sequencing data. This has derived the development of several types of methods for representing results of genome sequencing data. Circular genome visual-ization tools are also critical in this area as they provide rapid interpretation and simple visualization of overall data. In the last 15 years, we have seen rapid changes in circular visualization tools after the de-velopment of the circos tool with 1-2 tools published per year. Herein we have summarized and revisited all these tools until the third quarter of 2018.

摘要

随着人类基因组测序以及基因组测序方法的迅速变革,我们已步入基因组测序数据快速积累的时代。这推动了多种用于呈现基因组测序数据结果的方法的发展。环形基因组可视化工具在这一领域也至关重要,因为它们能对整体数据进行快速解读和简单可视化。在过去15年里,自circos工具开发以来,环形可视化工具发生了迅速变化,每年有1 - 2种工具问世。在此,我们总结并回顾了截至2018年第三季度的所有这些工具。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/77a8ec544aaa/CG-20-90_F7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/7f8998f337c6/CG-20-90_F1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/80144ac6bee1/CG-20-90_F2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/3deb69562cf9/CG-20-90_F3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/4420f5717419/CG-20-90_F4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/598ebd9be079/CG-20-90_F5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/3c499ce810f3/CG-20-90_F6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/77a8ec544aaa/CG-20-90_F7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/7f8998f337c6/CG-20-90_F1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/80144ac6bee1/CG-20-90_F2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/3deb69562cf9/CG-20-90_F3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/4420f5717419/CG-20-90_F4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/598ebd9be079/CG-20-90_F5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/3c499ce810f3/CG-20-90_F6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9565/6728899/77a8ec544aaa/CG-20-90_F7.jpg

相似文献

1
Overview of Genomic Tools for Circular Visualization in the Next-generation Genomic Sequencing Era.下一代基因组测序时代用于环形可视化的基因组工具概述
Curr Genomics. 2019 Feb;20(2):90-99. doi: 10.2174/1389202920666190314092044.
2
NG-Circos: next-generation Circos for data visualization and interpretation.NG-Circos:用于数据可视化与解读的下一代Circos
NAR Genom Bioinform. 2020 Sep 3;2(3):lqaa069. doi: 10.1093/nargab/lqaa069. eCollection 2020 Sep.
3
CIRCUS: a package for Circos display of structural genome variations from paired-end and mate-pair sequencing data.CIRCUS:一个用于从双末端和配对末端测序数据中以Circos展示结构基因组变异的软件包。
BMC Bioinformatics. 2014 Jun 18;15:198. doi: 10.1186/1471-2105-15-198.
4
CGDV: a webtool for circular visualization of genomics and transcriptomics data.CGDV:一个用于基因组学和转录组学数据环形可视化的网络工具。
BMC Genomics. 2017 Oct 24;18(1):823. doi: 10.1186/s12864-017-4169-5.
5
Trends in Next-Generation Sequencing and a New Era for Whole Genome Sequencing.下一代测序技术的发展趋势与全基因组测序的新时代
Int Neurourol J. 2016 Nov;20(Suppl 2):S76-83. doi: 10.5213/inj.1632742.371. Epub 2016 Nov 22.
6
Circos: an information aesthetic for comparative genomics.Circos:一种用于比较基因组学的信息美学。
Genome Res. 2009 Sep;19(9):1639-45. doi: 10.1101/gr.092759.109. Epub 2009 Jun 18.
7
Enhancement of Plant Productivity in the Post-Genomics Era.后基因组时代植物生产力的提高
Curr Genomics. 2016 Aug;17(4):295-6. doi: 10.2174/138920291704160607182507.
8
Sequence Surveyor: leveraging overview for scalable genomic alignment visualization.序列勘测器:利用概览实现可扩展的基因组比对可视化。
IEEE Trans Vis Comput Graph. 2011 Dec;17(12):2392-401. doi: 10.1109/TVCG.2011.232.
9
Next-Generation Sequencing: The Translational Medicine Approach from "Bench to Bedside to Population".下一代测序技术:从“实验室到床边再到人群”的转化医学方法
Medicines (Basel). 2016 Jun 2;3(2):14. doi: 10.3390/medicines3020014.
10
SeqAssist: a novel toolkit for preliminary analysis of next-generation sequencing data.SeqAssist:一种用于下一代测序数据初步分析的新型工具包。
BMC Bioinformatics. 2014;15 Suppl 11(Suppl 11):S10. doi: 10.1186/1471-2105-15-S11-S10. Epub 2014 Oct 21.

引用本文的文献

1
The AnnotSV webserver in 2023: updated visualization and ranking.2023 年的 AnnotSV 网页服务器:更新的可视化和排名。
Nucleic Acids Res. 2023 Jul 5;51(W1):W39-W45. doi: 10.1093/nar/gkad426.
2
JWES: a new pipeline for whole genome/exome sequence data processing, management, and gene-variant discovery, annotation, prediction, and genotyping.JWES:一个用于全基因组/外显子组序列数据处理、管理以及基因变异发现、注释、预测和基因分型的新管道。
FEBS Open Bio. 2021 Sep;11(9):2441-2452. doi: 10.1002/2211-5463.13261. Epub 2021 Aug 11.
3
: drawing SVG graphics to visualize and map genome-wide data on the idiograms.

本文引用的文献

1
CGDV: a webtool for circular visualization of genomics and transcriptomics data.CGDV:一个用于基因组学和转录组学数据环形可视化的网络工具。
BMC Genomics. 2017 Oct 24;18(1):823. doi: 10.1186/s12864-017-4169-5.
2
Visualizing and comparing circular genomes using the CGView family of tools.使用 CGView 工具家族可视化和比较圆形基因组。
Brief Bioinform. 2019 Jul 19;20(4):1576-1582. doi: 10.1093/bib/bbx081.
3
CircosVCF: circos visualization of whole-genome sequence variations stored in VCF files.CircosVCF:VCF文件中存储的全基因组序列变异的Circos可视化。
绘制SVG图形以可视化并在染色体模式图上绘制全基因组数据。
PeerJ Comput Sci. 2020 Jan 20;6:e251. doi: 10.7717/peerj-cs.251. eCollection 2020.
Bioinformatics. 2017 May 1;33(9):1392-1393. doi: 10.1093/bioinformatics/btw834.
4
BioCircos.js: an interactive Circos JavaScript library for biological data visualization on web applications.BioCircos.js:一个用于在 Web 应用程序上进行生物数据可视化的交互式 Circos JavaScript 库。
Bioinformatics. 2016 Jun 1;32(11):1740-2. doi: 10.1093/bioinformatics/btw041. Epub 2016 Jan 27.
5
Crowdsourced direct-to-consumer genomic analysis of a family quartet.一个四口之家的众包直接面向消费者的基因组分析。
BMC Genomics. 2015 Nov 7;16:910. doi: 10.1186/s12864-015-1973-7.
6
I-PV: a CIRCOS module for interactive protein sequence visualization.I-PV:一个用于交互式蛋白质序列可视化的 CIRCOS 模块。
Bioinformatics. 2016 Feb 1;32(3):447-9. doi: 10.1093/bioinformatics/btv579. Epub 2015 Oct 10.
7
ClicO FS: an interactive web-based service of Circos.ClicO FS:Circos 的一个交互式网络服务。
Bioinformatics. 2015 Nov 15;31(22):3685-7. doi: 10.1093/bioinformatics/btv433. Epub 2015 Jul 29.
8
CiVi: circular genome visualization with unique features to analyze sequence elements.CiVi:具有独特功能的环状基因组可视化工具,用于分析序列元件。
Bioinformatics. 2015 Sep 1;31(17):2867-9. doi: 10.1093/bioinformatics/btv249. Epub 2015 Apr 24.
9
J-Circos: an interactive Circos plotter.J-Circos:一个交互式 Circos 绘图工具。
Bioinformatics. 2015 May 1;31(9):1463-5. doi: 10.1093/bioinformatics/btu842. Epub 2014 Dec 24.
10
Circleator: flexible circular visualization of genome-associated data with BioPerl and SVG.Circleator:使用 BioPerl 和 SVG 实现基因组相关数据的灵活圆形可视化。
Bioinformatics. 2014 Nov 1;30(21):3125-7. doi: 10.1093/bioinformatics/btu505. Epub 2014 Jul 29.