Glyco-centric lectin magnetic bead array (LeMBA) − proteomics dataset of human serum samples from healthy, Barrett׳s esophagus and esophageal adenocarcinoma individuals
Alok K. Shah,
Kim-Anh Lê Cao,
Eunju Choi,
David Chen,
Benoît Gautier,
Derek Nancarrow,
David C. Whiteman,
Peter R. Baker,
Karl R. Clauser,
Robert J. Chalkley,
Nicholas A. Saunders,
Andrew P. Barbour,
Virendra Joshi,
Michelle M. Hill
Affiliations
Alok K. Shah
The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia
Kim-Anh Lê Cao
The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia
Eunju Choi
The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia; School of Veterinary Science, The University of Queensland, Gatton, Queensland, Australia
David Chen
School of Information and Communication Technology, Griffith University, Brisbane, Queensland, Australia
Benoît Gautier
The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia
Derek Nancarrow
QIMR Berghofer Medical Research Institute, Brisbane, Queensland, Australia
David C. Whiteman
QIMR Berghofer Medical Research Institute, Brisbane, Queensland, Australia
Peter R. Baker
Mass Spectrometry Facility, Department of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA
Karl R. Clauser
Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Robert J. Chalkley
Mass Spectrometry Facility, Department of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA
Nicholas A. Saunders
The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia
Andrew P. Barbour
School of Medicine, The University of Queensland, Brisbane, Queensland, Australia
Virendra Joshi
Ochsner Health System, Gastroenterology, New Orleans, LA, USA
Michelle M. Hill
The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia; Correspondence to: The University of Queensland Diamantina Institute Level 5, Translational Research Institute, 37 Kent Street, Woolloongabba, QLD 4102, Australia. Tel.: +61 7 3443 7049; fax: +61 7 3443 5946.
This data article describes serum glycoprotein biomarker discovery and qualification datasets generated using lectin magnetic bead array (LeMBA) – mass spectrometry techniques, “Serum glycoprotein biomarker discovery and qualification pipeline reveals novel diagnostic biomarker candidates for esophageal adenocarcinoma” [1]. Serum samples collected from healthy, metaplastic Barrett׳s esophagus (BE) and esophageal adenocarcinoma (EAC) individuals were profiled for glycoprotein subsets via differential lectin binding. The biomarker discovery proteomics dataset consisting of 20 individual lectin pull-downs for 29 serum samples with a spiked-in internal standard chicken ovalbumin protein has been deposited in the PRIDE partner repository of the ProteomeXchange Consortium with the data set identifier PRIDE: http://www.ebi.ac.uk/pride/archive/projects/PXD002442. Annotated MS/MS spectra for the peptide identifications can be viewed using MS-Viewer (〈http://prospector2.ucsf.edu/prospector/cgi-bin/msform.cgi?form=msviewer〉) using search key “jn7qafftux”. The qualification dataset contained 6-lectin pulldown-coupled multiple reaction monitoring-mass spectrometry (MRM-MS) data for 41 protein candidates, from 60 serum samples. This dataset is available as a supplemental files with the original publication [1]. Keywords: Proteomics, Glycoprotein, Biomarker, Esophageal adenocarcinoma, Barrett׳s esophagus
