R Script for the analysis of "Gastrointestinal microbiota composition predicts peripheral inflammatory state during treatment of human tuberculosis"

Default Boolean Operator: Terms in a search string will be connected by the AND operator, EXAMPLE: searching genomic melanoma will produce the same results as genomic AND melanoma .
AND, OR, NOT: Combine terms in a search with the boolean operators AND (to add specificity), OR (to broaden), or NOT (to eliminate a term). Operators must be capitalized (all other search terms are not case-sensitive).
Wild Card: Add wild card symbols * (open-ended) and ? (single character) to truncate terms. EXAMPLE: searching gen* shows results for 'gene', 'genetic', 'genomic, etc. Searching gene? returns results for 'gene' or 'genes' but not for 'genome'.
Phrase Searching: Enclose search in quotation marks "keyword or search term" to search for an exact phrase. EXAMPLE: "transcription factors" returns results for records where transcription is immediately followed by the word factors .
Diacritics: Words containing diacritics translate those characters to non-diacritic form. EXAMPLE: massague returns results for Massague&#769 .
Filter by: Located on the homepage (left panel), use filters to search for records or narrow the search. From search results page, filters can be removed by clicking on the term at the top of the page.

UID: 10748

Author(s): Bhattarai, Shakti

Description: R scripts used to for data analysis and figure support for the manuscript: Wipperman, M.F., Bhattarai, S.K., Vorkas, C.K. et al. Gastrointestinal microbiota composition predicts peripheral inflammatory state during treatment of human tuberculosis. Nat Commun 12, 1141 (2021).

Data is available for download from Dropbox and the scripts listed are accessible from GitHub.

Subject of Study

Subject(s)

Access via GitHub
R scripts and CSV files supporting the publication
Access Restrictions: Free to All
Access Instructions: R scripts necessary for processing are listed. RDS and CSV files are deposited in the UMass Medical School Dropbox, accessible via hyperlink.
Associated Publications: Wipperman M, Bhattarai S, Vorkas C, et al. Gastrointestinal microbiota composition predicts peripheral inflammatory state during treatment of human tuberculosis. Nature Communications. 2021; 12:1141.
Data Type: Genomic
Dataset Format(s): R, CSV
Dataset Size: 32 MB

Do you have or know of a dataset that should be added to the catalog? Let us know!