Distributions of protein abundance and functional enrichment

Range Figure - link
Organism Budding yeast Saccharomyces cerevisiae
Reference Brandon Ho et al., Comparative analysis of protein abundance studies to quantify the Saccharomyces cerevisiae proteome, bioRxiv preprint first posted online Feb. 2, 2017, doi: link p.5 figure 3 and beneath it p.2 table 1
Method P.7 right column bottom paragraph: "Here [investigators] provide a comprehensive view of protein abundance in yeast by normalizing and combining 19 abundance datasets, collected by mass spectrometry (Lu et al. 2007, de Godoy et al. 2008, Lee et al. 2011, Thakur et al. 2011, Peng et al. 2012, Nagaraj et al. 2012, Kulak et al. 2014, Lawless et al. 2016), GFP fluorescence flow cytometry (Newman et. al. 2006, Lee et al. 2007, Davidson et al. 2011), GFP fluorescence microscopy (Tkach et al. 2012, Breker et al. 2013, Denervaud et al. 2013, Mazumder et al. 2013, Chong et al. 2015, Yofe et al. 2016), and western blotting (Ghaemmaghami et al. 2003)." See table 1, beneath figure, 3rd column from left
Comments P.5 right column 2nd paragraph: "Genetic interaction networks have been extensively characterized in yeast, mapping genes and pathways into functional modules (Costanzo et al. 2016). [Investigators] used spatial analysis of functional enrichment (SAFE) (Baryshnikova 2016) to identify the regions of the genetic interaction similarity network (Costanzo et al. 2016) that are enriched for high and low abundance proteins in [their] normalized protein abundance dataset (Figure 3B). [They] found high abundance proteins were specifically overrepresented in network regions associated with cell polarity and morphogenesis, and with ribosome biogenesis (Figure 3B, orange). Low abundance proteins were overrepresented in the region associated with DNA replication and repair (Figure 3B, teal)." See table 1 beneath figure for details on the 19 studies depicted in figure
Entered by Uri M
ID 114179