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http://hdl.handle.net/1942/41435
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DC Field | Value | Language |
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dc.contributor.author | KODALCI, Leyla | - |
dc.contributor.author | THAS, Olivier | - |
dc.contributor.editor | Lingling, An | - |
dc.date.accessioned | 2023-09-28T10:03:09Z | - |
dc.date.available | 2023-09-28T10:03:09Z | - |
dc.date.issued | 2023 | - |
dc.date.submitted | 2023-09-28T07:03:58Z | - |
dc.identifier.citation | PLoS One, 18 (9) (Art N° e0292055) | - |
dc.identifier.uri | http://hdl.handle.net/1942/41435 | - |
dc.description.abstract | Microbiome data obtained with amplicon sequencing are considered as compositional data. It has been argued that these data can be analysed after appropriate transformation to log-ratios, but ratios and logarithms cause problems with the many zeroes in typical microbiome experiments. We demonstrate that some well chosen sign and rank transformations also allow for valid inference with compositional data, and we show how logistic regression and probabilistic index models can be used for testing for differential abundance, while inheriting the flexibility of a statistical modelling framework. The results of a simulation study demonstrate that the new methods perform better than most other methods, and that it is comparable with ANCOM-BC. These methods are implemented in an R-package 'signtrans' and can be installed from Github (https://github.com/lucp9827/signtrans). | - |
dc.description.sponsorship | This work was supported by the Special Research Fund (BOF) of Hasselt University [BOF21GP17]. The funders had no role in study | - |
dc.language.iso | en | - |
dc.publisher | PUBLIC LIBRARY SCIENCE | - |
dc.rights | 2023 Kodalci, Thas. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. | - |
dc.title | Simple and flexible sign and rank-based methods for testing for differential abundance in microbiome studies | - |
dc.type | Journal Contribution | - |
dc.identifier.issue | 9 | - |
dc.identifier.volume | 18 | - |
local.bibliographicCitation.jcat | A1 | - |
dc.description.notes | Kodalci, L (corresponding author), Hasselt Univ, Data Sci Inst, Diepenbeek, Belgium.; Kodalci, L (corresponding author), Hasselt Univ, I BioStat, Diepenbeek, Belgium. | - |
dc.description.notes | leyla.kodalci@uhasselt.be | - |
local.publisher.place | 1160 BATTERY STREET, STE 100, SAN FRANCISCO, CA 94111 USA | - |
local.type.refereed | Refereed | - |
local.type.specified | Article | - |
local.bibliographicCitation.artnr | e0292055 | - |
dc.identifier.doi | 10.1371/journal.pone.0292055 | - |
dc.identifier.pmid | 37751452 | - |
dc.identifier.isi | 001079916200014 | - |
local.provider.type | PubMed | - |
local.description.affiliation | [Kodalci, Leyla; Thas, Olivier] Hasselt Univ, Data Sci Inst, Diepenbeek, Belgium. | - |
local.description.affiliation | [Kodalci, Leyla; Thas, Olivier] Hasselt Univ, Data Sci Inst, Diepenbeek, Belgium. | - |
local.description.affiliation | [Thas, Olivier] Univ Ghent, Dept Appl Math Comp Sci & Stat, Ghent, Belgium. | - |
local.description.affiliation | [Thas, Olivier] Univ Wollongong, Natl Inst Appl Stat Res Australia NIASRA, Wollongong, NSW, Australia. | - |
local.uhasselt.international | yes | - |
item.fulltext | With Fulltext | - |
item.accessRights | Open Access | - |
item.contributor | KODALCI, Leyla | - |
item.contributor | THAS, Olivier | - |
item.contributor | Lingling, An | - |
item.fullcitation | KODALCI, Leyla & THAS, Olivier (2023) Simple and flexible sign and rank-based methods for testing for differential abundance in microbiome studies. In: PLoS One, 18 (9) (Art N° e0292055). | - |
crisitem.journal.issn | 1932-6203 | - |
crisitem.journal.eissn | 1932-6203 | - |
Appears in Collections: | Research publications |
Files in This Item:
File | Description | Size | Format | |
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journal.pone.0292055.pdf | Published version | 1.21 MB | Adobe PDF | View/Open |
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