Incorporation of a unified protein abundance dataset into the Saccharomyces genome database.

Database : the Journal of Biological Databases and Curation
Robert NashSGD Project

Abstract

The identification and accurate quantitation of protein abundance has been a major objective of proteomics research. Abundance studies have the potential to provide users with data that can be used to gain a deeper understanding of protein function and regulation and can also help identify cellular pathways and modules that operate under various environmental stress conditions. One of the central missions of the Saccharomyces Genome Database (SGD; https://www.yeastgenome.org) is to work with researchers to identify and incorporate datasets of interest to the wider scientific community, thereby enabling hypothesis-driven research. A large number of studies have detailed efforts to generate proteome-wide abundance data, but deeper analyses of these data have been hampered by the inability to compare results between studies. Recently, a unified protein abundance dataset was generated through the evaluation of more than 20 abundance datasets, which were normalized and converted to common measurement units, in this case molecules per cell. We have incorporated these normalized protein abundance data and associated metadata into the SGD database, as well as the SGD YeastMine data warehouse, resulting in the addition of 56 487 values ...Continue Reading

References

Oct 17, 2003·Nature·Sina GhaemmaghamiJonathan S Weissman
Mar 5, 2010·Bioinformatics·James MaloneHelen Parkinson
Feb 4, 2011·Molecular Biology of the Cell·George S DavidsonMargaret Werner-Washburne
May 19, 2011·Molecular & Cellular Proteomics : MCP·Suman S ThakurMatthias Mann
Jul 21, 2011·Molecular Systems Biology·M Violet LeeAudrey P Gasch
Nov 24, 2011·Nucleic Acids Research·J Michael CherryEdith D Wong
Mar 22, 2012·Database : the Journal of Biological Databases and Curation·Rama BalakrishnanJ Michael Cherry
Jun 7, 2012·Nature Methods·Mao PengAlbert J R Heck
Feb 27, 2013·Molecular Cell·Matthias MannJürgen Cox
Mar 20, 2013·The Journal of Cell Biology·Michal BrekerMaya Schuldiner
Apr 2, 2013·Journal of Proteome Research·Kristofor J WebbJohn R Yates
Sep 11, 2013·Proceedings of the National Academy of Sciences of the United States of America·Nicolas DénervaudSebastian J Maerkl
Jun 6, 2015·Cell·Yolanda T ChongBrenda J Andrews
Oct 16, 2015·Nucleic Acids Research·Janna HastingsChristoph Steinbeck
Jan 12, 2016·Molecular & Cellular Proteomics : MCP·Craig LawlessSimon J Hubbard
Feb 20, 2016·Critical Reviews in Biochemistry and Molecular Biology·Nikko P TorresGrant W Brown
Apr 4, 2017·Database : the Journal of Biological Databases and Curation·Sage T HellerstedtJ Michael Cherry
Nov 9, 2018·Nucleic Acids Research·Michelle GiglioMarcus C Chibucos

❮ Previous
Next ❯

Methods Mentioned

BETA
fluorescence
flow
tandem affinity purification
chemical treatments

Software Mentioned

Locus
YeastMine

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Nucleic Acids Research
J Michael CherryDavid Botstein
Current Protocols in Bioinformatics
Marek Skrzypek, Jodi E Hirschman
Methods in Molecular Biology
Olivia W LangSGD Project
© 2021 Meta ULC. All rights reserved