CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis

High throughput sequencing technologies have enabled cross-species comparative transcriptomic studies; however, there are numerous challenges for these studies due to biological and technical factors. We developed CoSIA (Cross-Species Investigation and Analysis), an Bioconductor R package and Shiny...

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Detalles Bibliográficos
Autores principales: Haldar, Anisha, Oza, Vishal H., DeVoss, Nathaniel S., Clark, Amanda D., Lasseigne, Brittany N.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2023
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10168259/
https://www.ncbi.nlm.nih.gov/pubmed/37163017
http://dx.doi.org/10.1101/2023.04.21.537877
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author Haldar, Anisha
Oza, Vishal H.
DeVoss, Nathaniel S.
Clark, Amanda D.
Lasseigne, Brittany N.
author_facet Haldar, Anisha
Oza, Vishal H.
DeVoss, Nathaniel S.
Clark, Amanda D.
Lasseigne, Brittany N.
author_sort Haldar, Anisha
collection PubMed
description High throughput sequencing technologies have enabled cross-species comparative transcriptomic studies; however, there are numerous challenges for these studies due to biological and technical factors. We developed CoSIA (Cross-Species Investigation and Analysis), an Bioconductor R package and Shiny app that provides an alternative framework for cross-species transcriptomic comparison of non-diseased wild-type RNA sequencing gene expression data from Bgee across tissues and species (human, mouse, rat, zebrafish, fly, and nematode) through visualization of variability, diversity, and specificity metrics.
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spelling pubmed-101682592023-05-10 CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis Haldar, Anisha Oza, Vishal H. DeVoss, Nathaniel S. Clark, Amanda D. Lasseigne, Brittany N. bioRxiv Article High throughput sequencing technologies have enabled cross-species comparative transcriptomic studies; however, there are numerous challenges for these studies due to biological and technical factors. We developed CoSIA (Cross-Species Investigation and Analysis), an Bioconductor R package and Shiny app that provides an alternative framework for cross-species transcriptomic comparison of non-diseased wild-type RNA sequencing gene expression data from Bgee across tissues and species (human, mouse, rat, zebrafish, fly, and nematode) through visualization of variability, diversity, and specificity metrics. Cold Spring Harbor Laboratory 2023-07-20 /pmc/articles/PMC10168259/ /pubmed/37163017 http://dx.doi.org/10.1101/2023.04.21.537877 Text en https://creativecommons.org/licenses/by-nc/4.0/This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License (https://creativecommons.org/licenses/by-nc/4.0/) , which allows reusers to distribute, remix, adapt, and build upon the material in any medium or format for noncommercial purposes only, and only so long as attribution is given to the creator.
spellingShingle Article
Haldar, Anisha
Oza, Vishal H.
DeVoss, Nathaniel S.
Clark, Amanda D.
Lasseigne, Brittany N.
CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis
title CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis
title_full CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis
title_fullStr CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis
title_full_unstemmed CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis
title_short CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis
title_sort cosia: an r bioconductor package for cross species investigation and analysis
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10168259/
https://www.ncbi.nlm.nih.gov/pubmed/37163017
http://dx.doi.org/10.1101/2023.04.21.537877
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