Search: onr:"swepub:oai:DiVA.org:uu-455527" >
MetaFetcheR :
MetaFetcheR : An R Package for Complete Mapping of Small-Compound Data
-
- Yones, Sara A. (author)
- Uppsala universitet,Beräkningsbiologi och bioinformatik,Institutionen för cell- och molekylärbiologi
-
- Csombordi, Rajmund (author)
- Uppsala universitet,Institutionen för cell- och molekylärbiologi
-
- Komorowski, Jan (author)
- Uppsala universitet,Beräkningsbiologi och bioinformatik,Kollegiet för avancerade studier (SCAS),Institute of Computer Science, Polish Academy of Sciences, Warsaw, Poland.; Washington National Primate Research Center, Seattle, WA, USA.
-
show more...
-
- Diamanti, Klev, 1987- (author)
- Uppsala universitet,Beräkningsbiologi och bioinformatik,Medicinsk genetik och genomik
-
show less...
-
(creator_code:org_t)
- 2021-10-28
- 2021
- English.
-
In: Metabolites. - : MDPI. - 2218-1989 .- 2218-1989. ; 11:11
- Related links:
-
https://doi.org/10.3...
-
show more...
-
https://doi.org/10.1...
-
https://uu.diva-port... (primary) (Raw object)
-
https://www.mdpi.com...
-
https://uu.diva-port...
-
https://uu.diva-port... (primary) (Raw object)
-
https://urn.kb.se/re...
-
https://doi.org/10.3...
-
https://urn.kb.se/re...
-
show less...
Abstract
Subject headings
Close
- Small-compound databases contain a large amount of information for metabolites and metabolic pathways. However, the plethora of such databases and the redundancy of their information lead to major issues with analysis and standardization. A lack of preventive establishment of means of data access at the infant stages of a project might lead to mislabelled compounds, reduced statistical power, and large delays in delivery of results. We developed MetaFetcheR, an open-source R package that links metabolite data from several small-compound databases, resolves inconsistencies, and covers a variety of use-cases of data fetching. We showed that the performance of MetaFetcheR was superior to existing approaches and databases by benchmarking the performance of the algorithm in three independent case studies based on two published datasets.
Subject headings
- NATURVETENSKAP -- Data- och informationsvetenskap -- Datavetenskap (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Computer Sciences (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Bioinformatik (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Bioinformatics (hsv//eng)
Keyword
- small-compound databases
- metabolomics
- metabolites
- queue-based algorithm
Publication and Content Type
- ref (subject category)
- art (subject category)
Find in a library
To the university's database