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

doi:10.1016/j.dib.2016.03.081

Glyco-centric lectin magnetic bead array (LeMBA) - proteomics dataset of human serum samples from healthy, Barrett׳s esophagus and esophageal adenocarcinoma individuals

Data Brief. 2016 Apr 1:7:1058-62. doi: 10.1016/j.dib.2016.03.081. eCollection 2016 Jun.

Authors

Affiliations

¹ The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia.
² 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.
³ School of Information and Communication Technology, Griffith University, Brisbane, Queensland, Australia.
⁴ QIMR Berghofer Medical Research Institute, Brisbane, Queensland, Australia.
⁵ Mass Spectrometry Facility, Department of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA.
⁶ Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
⁷ School of Medicine, The University of Queensland, Brisbane, Queensland, Australia.
⁸ Ochsner Health System, Gastroenterology, New Orleans, LA, USA.

Abstract

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: 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: Barrett׳s esophagus; Biomarker; Esophageal adenocarcinoma; Glycoprotein; Proteomics.