TY - JOUR
T1 - Rapid Automated Annotation and Analysis of N-Glycan Mass Spectrometry Imaging Data Sets Using NGlycDB in METASPACE
AU - Veličković, Dušan
AU - Bečejac, Tamara
AU - Mamedov, Sergii
AU - Sharma, Kumar
AU - Ambalavanan, Namasivayam
AU - Alexandrov, Theodore
AU - Anderton, Christopher R.
N1 - Funding Information:
We thank the University of Michigan for supplying us the kidney nephrectomy sample. This work was supported by the NIH-NIDDK through Grant No. 1UG3DK114920-01 (D.V., K.S., T.A., and C.A.), the NIH-NHLBI LungMAP U01 HL 122626 (T.A., N.A., and C.A.), and the NIH Common fund 3UH3DK114920-04S1 (D.V., K.S., and C.A.). Kidney and lung tissue was obtained per the first two grants listed, respectively. Much of this research was performed using the Environmental Molecular Sciences Laboratory, a DOE Office of Science User Facility sponsored by the Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory (PNNL). PNNL is operated for the DOE by Battelle Memorial Institute under Contract DE-AC05-76RLO1830.
Publisher Copyright:
© 2021 American Chemical Society
PY - 2021/10/12
Y1 - 2021/10/12
N2 - Imaging N-glycan spatial distribution in tissues using mass spectrometry imaging (MSI) is emerging as a promising tool in biological and clinical applications. However, there is currently no high-throughput tool for visualization and molecular annotation of N-glycans in MSI data, which significantly slows down data processing and hampers the applicability of this approach. Here, we present how METASPACE, an open-source cloud engine for molecular annotation of MSI data, can be used to automatically annotate, visualize, analyze, and interpret high-resolution mass spectrometry-based spatial N-glycomics data. METASPACE is an emerging tool in spatial metabolomics, but the lack of compatible glycan databases has limited its application for comprehensive N-glycan annotations from MSI data sets. We created NGlycDB, a public database of N-glycans, by adapting available glycan databases. We demonstrate the applicability of NGlycDB in METASPACE by analyzing MALDI-MSI data from formalin-fixed paraffin-embedded (FFPE) human kidney and mouse lung tissue sections. We added NGlycDB to METASPACE for public use, thus, facilitating applications of MSI in glycobiology.
AB - Imaging N-glycan spatial distribution in tissues using mass spectrometry imaging (MSI) is emerging as a promising tool in biological and clinical applications. However, there is currently no high-throughput tool for visualization and molecular annotation of N-glycans in MSI data, which significantly slows down data processing and hampers the applicability of this approach. Here, we present how METASPACE, an open-source cloud engine for molecular annotation of MSI data, can be used to automatically annotate, visualize, analyze, and interpret high-resolution mass spectrometry-based spatial N-glycomics data. METASPACE is an emerging tool in spatial metabolomics, but the lack of compatible glycan databases has limited its application for comprehensive N-glycan annotations from MSI data sets. We created NGlycDB, a public database of N-glycans, by adapting available glycan databases. We demonstrate the applicability of NGlycDB in METASPACE by analyzing MALDI-MSI data from formalin-fixed paraffin-embedded (FFPE) human kidney and mouse lung tissue sections. We added NGlycDB to METASPACE for public use, thus, facilitating applications of MSI in glycobiology.
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U2 - 10.1021/acs.analchem.1c02347
DO - 10.1021/acs.analchem.1c02347
M3 - Article
C2 - 34581565
AN - SCOPUS:85117217721
SN - 0003-2700
VL - 93
SP - 13421
EP - 13425
JO - Analytical Chemistry
JF - Analytical Chemistry
IS - 40
ER -