Biology:CIBERSORT
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Short description: Bioinformatics tool
CIBERSORT, also called CIBERSORTx, is a bioinformatics tool used to deconvolute cell type proportions and gene expression profiles from bulk RNA sequencing datasets.[1][2][3][4] It is among the fastest growing software tools in the life sciences.[5]
References
- ↑ Newman, Aaron M.; Liu, Chih Long; Green, Michael R.; Gentles, Andrew J.; Feng, Weiguo; Xu, Yue; Hoang, Chuong D.; Diehn, Maximilian et al. (2015). "Robust enumeration of cell subsets from tissue expression profiles" (in en). Nature Methods 12 (5): 453–457. doi:10.1038/nmeth.3337. ISSN 1548-7105. PMC 4739640. https://www.nature.com/articles/nmeth.3337.
- ↑ Newman, Aaron M.; Steen, Chloé B.; Liu, Chih Long; Gentles, Andrew J.; Chaudhuri, Aadel A.; Scherer, Florian; Khodadoust, Michael S.; Esfahani, Mohammad S. et al. (2019). "Determining cell type abundance and expression from bulk tissues with digital cytometry" (in en). Nature Biotechnology 37 (7): 773–782. doi:10.1038/s41587-019-0114-2. ISSN 1546-1696. PMC 6610714. https://www.nature.com/articles/s41587-019-0114-2.
- ↑ Chen, Binbin; Khodadoust, Michael S.; Liu, Chih Long; Newman, Aaron M.; Alizadeh, Ash A. (2018), von Stechow, Louise, ed., "Profiling Tumor Infiltrating Immune Cells with CIBERSORT" (in en), Cancer Systems Biology (New York, NY: Springer New York) 1711: pp. 243–259, doi:10.1007/978-1-4939-7493-1_12, ISBN 978-1-4939-7492-4, PMID 29344893, PMC 5895181, http://link.springer.com/10.1007/978-1-4939-7493-1_12, retrieved 2023-02-01
- ↑ Steen, Chloé B.; Liu, Chih Long; Alizadeh, Ash A.; Newman, Aaron M. (2020), Kidder, Benjamin L., ed., "Profiling Cell Type Abundance and Expression in Bulk Tissues with CIBERSORTx" (in en), Stem Cell Transcriptional Networks: Methods and Protocols (New York, NY: Springer US): pp. 135–157, doi:10.1007/978-1-0716-0301-7_7, ISBN 978-1-0716-0301-7, PMID 31960376, PMC 7695353, https://doi.org/10.1007/978-1-0716-0301-7_7, retrieved 2023-02-08
- ↑ Hutson, Matthew (2023-01-12). "Hunting for the best bioscience software tool? Check this database" (in en). Nature. doi:10.1038/d41586-023-00053-w. https://www.nature.com/articles/d41586-023-00053-w.
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