Research Data

Proteome data of the raw and the heated Pacific oyster (Crassostrea gigas)

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General
Title
Proteome data of the raw and the heated Pacific oyster (Crassostrea gigas)
Type
Dataset
Date Record Created
2017-01-30
Date Record Modified
2017-02-07
Language
English
Coverage
Date Coverage
2017-08-23
Time Period
(no information)
Geospatial Location
(no information)
Description
Descriptions
  1. Type: brief

    These datasets contain proteins identified by mass spectrometry in the raw and the heated sample of Pacific oyster (C. gigas)

  2. Type: full

    Protein compositions of the Pacific oyster extracts were identified through bottom-up mass spectrometry approach. The proteins were separated on an SDS-PAGE gel, cut into small pieces and tryptic digested (Fig 3A). The peptide mixtures were then subjected to LC-MS/MS analysis generating a total of 81831 spectra for the raw extract and 88130 spectra for the heated extract. Mascot searches were conducted against Pacific oyster proteomes, and the identified proteins were validated by Scaffold (version Scaffold_4.7.3) using criteria at least two peptides at a 99.0% probability. In total Scaffold identified 1,086 proteins from raw extract and 130 proteins from the heated extract, with 103 proteins are shared between the two extracts.

  3. Type: note

    This dataset consists of a spreadsheet in MS Excel (.xlsx) and Open Document formats (.ods)

Related Publications
  1. Nugreaha, Roni, Kamath, Sandip D., Ruethers, Thimo, Johnston, Elecia, Koeberl, Martina, Rolland, Jennifer M., O'Hehir, Robyn E., Zenger, Kyall R., and Lopata, Andreas L. (2016). Identification of novel oyster allergens using a combined transcriptomic and proteomic approach for improved component resolved diagnosis. Internal Medicine Journal, 46 (Suppl. 4). pp. 9.
    ASCIA-2016 Published Abstract
Related Websites
(no information)
Related Data
  1. Has association with: >> Identified proteins in the IgE-reactive spots
    • ID: 9860edb11625c55090b131132e24b4bb
Related Services
(no information)
Technical metadata
(no information)
People
Creators
  1. Managed by: Prof Andreas Lopata , andreas.lopata@jcu.edu.au , Discipline of Biochemistry & Molecular Biology, Centre for Biodiscovery and Molecular Development of Therapeutics, Centre for Sustainable Tropical Fisheries and Aquaculture
  2. Managed by: Dr Sandip Kamath , sandip.kamath@jcu.edu.au , Centre for Biodiscovery and Molecular Development of Therapeutics, Australian Institute of Tropical Medicine, Discipline of Biochemistry & Molecular Biology
  3. Aggregated by: Mr Roni Nugraha , roni.nugraha@my.jcu.edu.au , Discipline of Biochemistry & Molecular Biology, Centre for Biodiscovery and Molecular Development of Therapeutics
Primary Contact
A/Prof Andreas Lopata, andreas.lopata@jcu.edu.au
Supervisors
  1. Prof Andreas Lopata , andreas.lopata@jcu.edu.au
  2. Dr Sandip Kamath , sandip.kamath@jcu.edu.au
Collaborators
(no information)
Subject
Fields of Research
  1. 110701 - Allergy (110701)
  2. 110106 - Medical Biochemistry: Proteins and Peptides (incl. Medical Proteomics) (110106)
Socio-Economic Objective
  1. 920108 - Immune System and Allergy (920108)
  2. 920203 - Diagnostic Methods (920203)
Keywords
  1. Pacific oyster
  2. proteome
  3. mass spectrometry
Research Activity
(no information)
Research Themes
Industries and Economies in the Tropics
People and Societies in the Tropics
Tropical Health, Medicine and Biosecurity
Rights
License
CC BY-NC: Attribution-Noncommercial 3.0 AU
License - Other
(no information)
Access Rights/Conditions
Please contact the data manager or nominated primary contact to negotiate access to this data. If you have difficulty, please contact researchdata@jcu.edu.au for assistance.
Type
conditional
Rights
Once access to the data has been obtained via negotiation with the data manager, use of the dataset is governed by the CC-BY-NC AU licence.
Data
Data Location
Online Locations
Stored At
Secure data section of the Tropical Data Hub (TDH) archive - eResearch Centre, James Cook University, Townsville, Queensland, Australia
Citation
Cite:
Lopata, A.; Kamath, S.; Nugraha, R. (2017). Proteome data of the raw and the heated Pacific oyster (Crassostrea gigas). James Cook University. (dataset). http://dx.doi.org/10.4225/28/588eb674aa910
Digital Object Identifier (DOI):
10.4225/28/588eb674aa910