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Evol2Circos: A Web-Based Tool for Genome Synteny and Collinearity Analysis and its Visualization in Fishes

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Title Evol2Circos: A Web-Based Tool for Genome Synteny and Collinearity Analysis and its Visualization in Fishes
Not Available
 
Creator Manmohan Pandey
Basdeo Kushwaha
Ravindra Kumar
Prachi Srivastava
Suman Saroj
Mahender Singh
 
Subject collinearity
Evol2Circos
phylogeny
software tool
synteny
 
Description Not Available
The advent of high throughput next-generation sequencing technologies and improved assembly algorithms have resulted in the accumulation of voluminous genomic data in public domains. These technologies have opened up entries for large scale comparative genome studies, especially the identification of conserved syntenic blocks among species, facilitating studies of the evolutionary importance of the conservation and variation in genomic organization. Synteny construction and visualization require computational and bioinformatics skills to prepare input files for the synteny analysis pipeline. The syntenic information for fishes is still in a juvenile stage and is scattered among different research domains. Here, we present a web-based tool “Evol2Circos” to provide a user-friendly graphical user interface (GUI) to analyze user-specific data for synteny construction and visualization, and to facilitate the browsing of syntenic information of different fishes using the Circos, bar, dual, and dot plots. The information generated from the tool can also be used for
further downstream analyses. Evol2Circos software tool is tested under Ubuntu Linux. The webbrowser,
source code, documentation, user manual, example dataset and scripts are available online at 203.190.147.148/evole2circos/
 
Date 2021-07-28T10:30:05Z
2021-07-28T10:30:05Z
2020-07-01
 
Type Research Paper
 
Identifier Pandey, M., Kushwaha, B., Kumar, R., Srivastava, P., Saroj, S. and Singh, M., 2020. Evol2circos: a web-based tool for genome synteny and collinearity analysis and its visualization in fishes. Journal of Heredity, 111(5), pp.486-490.
0022-1503 (print)
1465-7333 (web)
http://krishi.icar.gov.in/jspui/handle/123456789/50785
 
Language English
 
Relation Not Available;
 
Publisher Oxford Academic (Oxford University Press)