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http://krishi.icar.gov.in/jspui/handle/123456789/50785| Title: | Evol2Circos: A Web-Based Tool for Genome Synteny and Collinearity Analysis and its Visualization in Fishes |
| Other Titles: | Not Available |
| Authors: | Manmohan Pandey Basdeo Kushwaha Ravindra Kumar Prachi Srivastava Suman Saroj Mahender Singh |
| ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
| Author's Affiliated institute: | ICAR::National Bureau of Fish Genetic Resources, Lucknow AMITY University, Uttar Pradesh, Lucknow Campus, Lucknow |
| Published/ Complete Date: | 2020-07-01 |
| Project Code: | Not Available |
| Keywords: | collinearity Evol2Circos phylogeny software tool synteny |
| Publisher: | Oxford Academic (Oxford University Press) |
| Citation: | 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. |
| Series/Report no.: | Not Available; |
| Abstract/Description: | 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/ |
| Description: | Not Available |
| ISSN: | 0022-1503 (print) 1465-7333 (web) |
| Type(s) of content: | Research Paper |
| Language: | English |
| Name of Journal: | Journal of Heredity |
| Journal Type: | The Journal of Heredity is a peer-reviewed scientific journal which publishes research articles concerned with heredity in a biological sense, covering all aspects of genetics. It is published by Oxford University Press on behalf of the American Genetic Association. |
| NAAS Rating: | 8.81 |
| Impact Factor: | 2.809 |
| Volume No.: | 111 (5) |
| Page Number: | 486-490. |
| Name of the Division/Regional Station: | Molecular Biology and Biotechnology |
| Source, DOI or any other URL: | 10.1093/jhered/esaa025 https://academic.oup.com/jhered/article/111/5/486/5876397?login=true |
| URI: | http://krishi.icar.gov.in/jspui/handle/123456789/50785 |
| Appears in Collections: | FS-NBFGR-Publication |
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