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- Title
The NCBI Comparative Genome Viewer (CGV) is an interactive visualization tool for the analysis of whole-genome eukaryotic alignments.
- Authors
Rangwala, Sanjida H.; Rudnev, Dmitry V.; Ananiev, Victor V.; Oh, Dong-Ha; Asztalos, Andrea; Benica, Barrett; Borodin, Evgeny A.; Bouk, Nathan; Evgeniev, Vladislav I.; Kodali, Vamsi K.; Lotov, Vadim; Mozes, Eyal; Omelchenko, Marina V.; Savkina, Sofya; Sukharnikov, Ekaterina; Virothaisakun, Joël; Murphy, Terence D.; Pruitt, Kim D.; Schneider, Valerie A.
- Abstract
We report a new visualization tool for analysis of whole-genome assembly-assembly alignments, the Comparative Genome Viewer (CGV) (https://ncbi.nlm.nih.gov/genome/cgv/). CGV visualizes pairwise same-species and cross-species alignments provided by National Center for Biotechnology Information (NCBI) using assembly alignment algorithms developed by us and others. Researchers can examine large structural differences spanning chromosomes, such as inversions or translocations. Users can also navigate to regions of interest, where they can detect and analyze smaller-scale deletions and rearrangements within specific chromosome or gene regions. RefSeq or user-provided gene annotation is displayed where available. CGV currently provides approximately 800 alignments from over 350 animal, plant, and fungal species. CGV and related NCBI viewers are undergoing active development to further meet needs of the research community in comparative genome visualization. Commonly used genome browsers only show one genome assembly at a time and cannot show comparisons between multiple genomes. This study develops a new visualization tool called the Comparative Genome Viewer (CGV) that aids in the pairwise comparison of whole-genome eukaryotic assembly-assembly alignments.
- Subjects
NATIONAL Center for Biotechnology Information (U.S.); DATA visualization; MULTIPLE comparisons (Statistics); CHROMOSOMES; RESEARCH personnel; SCIENTIFIC community; GENOMES
- Publication
PLoS Biology, 2024, Vol 22, Issue 5, p1
- ISSN
1544-9173
- Publication type
Article
- DOI
10.1371/journal.pbio.3002405