Proteomics & Metabolomics

In addition to doing work on existing IGBB projects, the IGBB proteomics staff can perform a variety of mass spectrometry and other proteomics services for MS State principal investigators and IGBB collaborators. Such research can be performed through a Proposal Partnership, a Research Agreement, or the Service Center.

The IGBB's proteomics staff has considerable expertise in...

Protein isolation/purification from all types of organisms/tissues
1D & 2D gel electrophoresis
Gel- and non-gel-based mass spectrometry
Protein identification
Discovery and characterization of post-translational modifications;
Quantitative proteomics
Comparative proteomics & metabolomics
Western blotting & protein visualization
Integration of proteomic and nucleic acids data (e.g., proteogenomic mapping)
Functional annotation of proteins using Gene Ontology (GO) standards and procedures

With regard to mass spectrometers, the IGBB's proteomics staff utilizes a ThermoFisher LTQ Orbitrap Velos, a Waters Nano ESI Q-TOF (model Xevo G2-S), and an Applied Biosystems (now ThermoFisher) MALDI TOF TOF. The LTQ Orbitrap Velos and the Nano ESI Q-TOF are fitted with upstream HPLC sample purification systems.

To discuss the possibility of having the IGBB conduct proteomics research in collaboration with you, please submit a ticket through the MyIGBB HelpDesk. An IGBB proteomics consultant will respond to your query as quickly as possible (usually within 24 hours).

A listing of IGBB Standard Services and their prices -- including information and prices for Training and Self-Service Equipment Usage -- is available in the Standard Services Catalog in MyIGBB and in PDF form via the link below.

Price List

ALSO SEE: Genomics (including Transcriptomics) | Biocomputing (Bioinformatics & Computational Biology)

NOTE: PIs are asked to consider whether the participation of an IGBB employee in a project merits that employee's inclusion as a co-author on a resulting manuscript(s). The decision ultimately lies with the PI. However, the IGBB encourages IGBB staff and faculty involved in Proposal Partnerships and Research Agreements to discuss/negotiate co-authorship with PIs before starting work on a project.

Agricultural & Biological Engineering Animal & Dairy Sciences Biochem., Mol. Biol., Entomol. & Plant Pathol. Chemistry Forestry Plant & Soil Sciences Sustainable Bioproducts

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Gene ontology annotations and resources

High Impact Research

IGBB Authors:
Susan M. Bridges, Shane C. Burgess, Teresia J. Buza, Fiona M. McCarthy, Lakshmi Pillai

PUBLICATION YEAR: 2013
IMPACT FACTOR: 8.212
CITATION COUNT: 475

Blake JA, Dolan M, Drabkin H, Hill DP, Ni L, Sitnikov D, Bridges S, Burgess S, Buza T, McCarthy F, Peddinti D, Pillai L, Carbon S, Dietze H, Ireland A, Lewis SE, Mungall CJ, Gaudet P, Chisholm RL, Fey P, Kibbe WA, Basu S, Siegele DA, McIntosh BK, Renfro DP, Zweifel AE, Hu JC, Brown NH, Tweedie S, Alam-Faruque Y, Apweiler R, Auchinchloss A, Axelsen K, Bely B, Blatter MC, Bonilla C, Bougueleret L, Boutet E, Breuza L, Bridge A, Chan WM, Chavali G, Coudert E, Dimmer E, Estreicher A, Famiglietti L, Feuermann M, Gos A, Gruaz-Gumowski N, Hieta R, Hinz U, Hulo C, Huntley R, James J, Jungo F, Keller G, Laiho K, Legge D, Lemercier P, Lieberherr D, Magrane M, Martin MJ, Masson P, Mutowo-Muellenet P, O'Donovan C, Pedruzzi I, Pichler K, Poggioli D, Porras Millan P, Poux S, Rivoire C, Roechert B, Sawford T, Schneider M, Stutz A, Sundaram S, Tognolli M, Xenarios I, Foulger R, Lomax J, Roncaglia P, Khodiyar VK, Lovering RC, Talmud PJ, Chibucos M, Gwinn Giglio M, Chang HY, Hunter S, McAnulla C, Mitchell A, Sangrador A, Stephan R, Harris MA, Oliver SG, Rutherford K, Wood V, Bahler J, Lock A, Kersey PJ, McDowall MD, Staines DM, Dwinell M, Shimoyama M, Laulederkind S, Hayman T, Wang SJ, Petri V, Lowry T, D'Eustachio P, Matthews L, Balakrishnan R, Binkley G, Cherry JM, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hitz BC, Hong EL, Karra K, Miyasato SR, Nash RS, Park J, Skrzypek MS, Weng S, Wong ED, Berardini TZ, Li D, Huala E, Mi H, Thomas PD, Chan J, Kishore R, Sternberg P, Van Auken K, Howe D, Westerfield M (2013) Gene ontology annotations and resources. Nucleic Acids Research 41(D1): D530-D535.

DOI: 10.1093/nar/gks1050
EID: 2-s2.0-84874253819
PMID: 23161678

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ABSTRACT
The Gene Ontology (GO) Consortium (GOC, http://www.geneontology.org) is a community-based bio-informatics resource that classifies gene product function through the use of structured, controlled vocabularies. Over the past year, the GOC has implemented several processes to increase the quantity, quality and specificity of GO annotations. First, the number of manual, literature-based annotations has grown at an increasing rate. Second, as a result of a new 'phylogenetic annotation' process, manually reviewed, homology-based annotations are becoming available for a broad range of species. Third, the quality of GO annotations has been improved through a streamlined process for, and automated quality checks of, GO annotations deposited by different annotation groups. Fourth, the consistency and correctness of the ontology itself has increased by using automated reasoning tools. Finally, the GO has been expanded not only to cover new areas of biology through focused interaction with experts, but also to capture greater specificity in all areas of the ontology using tools for adding new combinatorial terms. The GOC works closely with other ontology developers to support integrated use of terminologies. The GOC supports its user community through the use of e-mail lists, social media and web-based resources. -¬ The Author(s) 2012.

More High Impact Papers

The IGBB is supported, in part, by the following units:

Missisippi Agricultural & Forestry Experiment Station - MAFES

Office of Research & Economic Development - ORED

Division of Agriculture, Forestry & Veterinary Medicine - DAFVM

The IGBB is an HPC² member center.