TY - JOUR
T1 - iMetaLab Suite: A one-stop toolset for metaproteomics
AU - Li, Leyuan
AU - Ning, Zhibin
AU - Cheng, Kai
AU - Zhang, Xu
AU - Simopoulos, Caitlin M.A.
AU - Figeys, Daniel
N1 - All LC‐MS/MS sequencing data have been deposited tothe ProteomeXchange Consortium via the PRIDE part-ner repository under submission number PXD033624.The database search results and reports are saved inGitHub (https://github.com/northomics/iMetaLab_paper).Supporting Information materials (graphical abstract,slides, videos, Chinese translated version, and updatematerials) may be found in the online DOI or iMetaScience http://www.imeta.science/.
PY - 2022/6
Y1 - 2022/6
N2 - Metaproteomics is a recently thriving technique that studies the collection of proteins in complex microbiomes of the human, animal, plant, and environment. The bioinformatics workflow required for metaproteomics research, from the database search and protein quantification to downstream functional and taxonomic analysis has been challenging and thus limiting the accessibility of metaproteomics to microbiome researchers. To overcome these challenges, we have developed a set of tools named iMetaLab Suite. iMetaLab Suite includes the following components: (1) MetaLab Desktop, an automated database search software that facilities proteins identification and quantitation from microbiomes; (2) the automated iMetaReport that allows users to quickly access database search results and data set profiles; and (3) an interactive online toolset, iMetaShiny, covering most frequently used functional, taxonomic, and statistical analysis in metaproteomics. iMetaLab Suite is a free, easily accessible, and actively updated toolset available to assist researchers to explore metaproteomic data.
AB - Metaproteomics is a recently thriving technique that studies the collection of proteins in complex microbiomes of the human, animal, plant, and environment. The bioinformatics workflow required for metaproteomics research, from the database search and protein quantification to downstream functional and taxonomic analysis has been challenging and thus limiting the accessibility of metaproteomics to microbiome researchers. To overcome these challenges, we have developed a set of tools named iMetaLab Suite. iMetaLab Suite includes the following components: (1) MetaLab Desktop, an automated database search software that facilities proteins identification and quantitation from microbiomes; (2) the automated iMetaReport that allows users to quickly access database search results and data set profiles; and (3) an interactive online toolset, iMetaShiny, covering most frequently used functional, taxonomic, and statistical analysis in metaproteomics. iMetaLab Suite is a free, easily accessible, and actively updated toolset available to assist researchers to explore metaproteomic data.
KW - bioinformatics
KW - database search
KW - metaproteomics
KW - microbiome
KW - statistical analysis
KW - visualization
UR - http://www.scopus.com/inward/record.url?scp=85137882262&partnerID=8YFLogxK
U2 - 10.1002/imt2.25
DO - 10.1002/imt2.25
M3 - Article
AN - SCOPUS:85137882262
SN - 2770-5986
VL - 1
SP - 1
EP - 7
JO - iMeta
JF - iMeta
IS - 2
M1 - e25
ER -