Guiding the choice of informatics software and tools for lipidomics research applications.
Journal
Nature methods
ISSN: 1548-7105
Titre abrégé: Nat Methods
Pays: United States
ID NLM: 101215604
Informations de publication
Date de publication:
02 2023
02 2023
Historique:
received:
24
05
2022
accepted:
02
11
2022
pubmed:
22
12
2022
medline:
14
2
2023
entrez:
21
12
2022
Statut:
ppublish
Résumé
Progress in mass spectrometry lipidomics has led to a rapid proliferation of studies across biology and biomedicine. These generate extremely large raw datasets requiring sophisticated solutions to support automated data processing. To address this, numerous software tools have been developed and tailored for specific tasks. However, for researchers, deciding which approach best suits their application relies on ad hoc testing, which is inefficient and time consuming. Here we first review the data processing pipeline, summarizing the scope of available tools. Next, to support researchers, LIPID MAPS provides an interactive online portal listing open-access tools with a graphical user interface. This guides users towards appropriate solutions within major areas in data processing, including (1) lipid-oriented databases, (2) mass spectrometry data repositories, (3) analysis of targeted lipidomics datasets, (4) lipid identification and (5) quantification from untargeted lipidomics datasets, (6) statistical analysis and visualization, and (7) data integration solutions. Detailed descriptions of functions and requirements are provided to guide customized data analysis workflows.
Identifiants
pubmed: 36543939
doi: 10.1038/s41592-022-01710-0
pii: 10.1038/s41592-022-01710-0
pmc: PMC10263382
mid: NIHMS1899835
doi:
Substances chimiques
Lipids
0
Types de publication
Journal Article
Review
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
193-204Subventions
Organisme : NIGMS NIH HHS
ID : R35 GM130385
Pays : United States
Organisme : NCI NIH HHS
ID : U01 CA235493
Pays : United States
Organisme : NHLBI NIH HHS
ID : U01 HL148860
Pays : United States
Organisme : Wellcome Trust
ID : 203014/Z/16/Z
Pays : United Kingdom
Informations de copyright
© 2022. Springer Nature America, Inc.
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