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Items: 1 to 20 of 47

1.

Functional genetic discovery of enzymes using full-scan mass spectrometry metabolomics.

Caudy AA, Hanchard JA, Hsieh A, Shaan S, Rosebrock AP.

Biochem Cell Biol. 2018 Jul 12:1-12. doi: 10.1139/bcb-2018-0058. [Epub ahead of print]

PMID:
30001498
2.

Metabolomics in Yeast.

Caudy AA, Mülleder M, Ralser M.

Cold Spring Harb Protoc. 2017 Sep 1;2017(9):pdb.top083576. doi: 10.1101/pdb.top083576.

PMID:
28864573
3.

Spectrophotometric Analysis of Ethanol and Glucose Concentrations in Yeast Culture Media.

Caudy AA.

Cold Spring Harb Protoc. 2017 Sep 1;2017(9):pdb.prot089102. doi: 10.1101/pdb.prot089102.

PMID:
28864566
4.

Metabolite Extraction from Saccharomyces cerevisiae for Liquid Chromatography-Mass Spectrometry.

Rosebrock AP, Caudy AA.

Cold Spring Harb Protoc. 2017 Sep 1;2017(9):pdb.prot089086. doi: 10.1101/pdb.prot089086.

PMID:
28864564
5.

Drosophila larvae synthesize the putative oncometabolite L-2-hydroxyglutarate during normal developmental growth.

Li H, Chawla G, Hurlburt AJ, Sterrett MC, Zaslaver O, Cox J, Karty JA, Rosebrock AP, Caudy AA, Tennessen JM.

Proc Natl Acad Sci U S A. 2017 Feb 7;114(6):1353-1358. doi: 10.1073/pnas.1614102114. Epub 2017 Jan 23.

6.

Proteomic analysis of the human KEOPS complex identifies C14ORF142 as a core subunit homologous to yeast Gon7.

Wan LC, Maisonneuve P, Szilard RK, Lambert JP, Ng TF, Manczyk N, Huang H, Laister R, Caudy AA, Gingras AC, Durocher D, Sicheri F.

Nucleic Acids Res. 2017 Jan 25;45(2):805-817. doi: 10.1093/nar/gkw1181. Epub 2016 Nov 29.

7.

Mitochondrial control through nutritionally regulated global histone H3 lysine-4 demethylation.

Soloveychik M, Xu M, Zaslaver O, Lee K, Narula A, Jiang R, Rosebrock AP, Caudy AA, Meneghini MD.

Sci Rep. 2016 Nov 29;6:37942. doi: 10.1038/srep37942.

8.

A global genetic interaction network maps a wiring diagram of cellular function.

Costanzo M, VanderSluis B, Koch EN, Baryshnikova A, Pons C, Tan G, Wang W, Usaj M, Hanchard J, Lee SD, Pelechano V, Styles EB, Billmann M, van Leeuwen J, van Dyk N, Lin ZY, Kuzmin E, Nelson J, Piotrowski JS, Srikumar T, Bahr S, Chen Y, Deshpande R, Kurat CF, Li SC, Li Z, Usaj MM, Okada H, Pascoe N, San Luis BJ, Sharifpoor S, Shuteriqi E, Simpkins SW, Snider J, Suresh HG, Tan Y, Zhu H, Malod-Dognin N, Janjic V, Przulj N, Troyanskaya OG, Stagljar I, Xia T, Ohya Y, Gingras AC, Raught B, Boutros M, Steinmetz LM, Moore CL, Rosebrock AP, Caudy AA, Myers CL, Andrews B, Boone C.

Science. 2016 Sep 23;353(6306). pii: aaf1420.

9.

Challenges of analyzing different classes of metabolites by a single analytical method.

Mirnaghi FS, Caudy AA.

Bioanalysis. 2014;6(24):3393-416. doi: 10.4155/bio.14.236. Review.

PMID:
25534794
10.

Targeted metabolomics in cultured cells and tissues by mass spectrometry: method development and validation.

Abdel Rahman AM, Pawling J, Ryczko M, Caudy AA, Dennis JW.

Anal Chim Acta. 2014 Oct 3;845:53-61. doi: 10.1016/j.aca.2014.06.012. Epub 2014 Jun 12.

PMID:
25201272
11.

Heritability and genetic basis of protein level variation in an outbred population.

Parts L, Liu YC, Tekkedil MM, Steinmetz LM, Caudy AA, Fraser AG, Boone C, Andrews BJ, Rosebrock AP.

Genome Res. 2014 Aug;24(8):1363-70. doi: 10.1101/gr.170506.113. Epub 2014 May 13.

12.

Broad metabolic sensitivity profiling of a prototrophic yeast deletion collection.

VanderSluis B, Hess DC, Pesyna C, Krumholz EW, Syed T, Szappanos B, Nislow C, Papp B, Troyanskaya OG, Myers CL, Caudy AA.

Genome Biol. 2014 Apr 10;15(4):R64. doi: 10.1186/gb-2014-15-4-r64.

13.

Uniform nomenclature for the mitochondrial contact site and cristae organizing system.

Pfanner N, van der Laan M, Amati P, Capaldi RA, Caudy AA, Chacinska A, Darshi M, Deckers M, Hoppins S, Icho T, Jakobs S, Ji J, Kozjak-Pavlovic V, Meisinger C, Odgren PR, Park SK, Rehling P, Reichert AS, Sheikh MS, Taylor SS, Tsuchida N, van der Bliek AM, van der Klei IJ, Weissman JS, Westermann B, Zha J, Neupert W, Nunnari J.

J Cell Biol. 2014 Mar 31;204(7):1083-6. doi: 10.1083/jcb.201401006.

14.

Interspecies Systems Biology Uncovers Metabolites Affecting C. elegans Gene Expression and Life History Traits.

Watson E, MacNeil LT, Ritter AD, Yilmaz LS, Rosebrock AP, Caudy AA, Walhout AJM.

Cell. 2014 Mar 13;156(6):1336-1337. doi: 10.1016/j.cell.2014.02.036. Epub 2014 Mar 13. No abstract available.

15.

Interspecies systems biology uncovers metabolites affecting C. elegans gene expression and life history traits.

Watson E, MacNeil LT, Ritter AD, Yilmaz LS, Rosebrock AP, Caudy AA, Walhout AJ.

Cell. 2014 Feb 13;156(4):759-70. doi: 10.1016/j.cell.2014.01.047. Erratum in: Cell. 2014 Mar 13;156(6):1336-7.

16.

Biochemical and structural studies of conserved Maf proteins revealed nucleotide pyrophosphatases with a preference for modified nucleotides.

Tchigvintsev A, Tchigvintsev D, Flick R, Popovic A, Dong A, Xu X, Brown G, Lu W, Wu H, Cui H, Dombrowski L, Joo JC, Beloglazova N, Min J, Savchenko A, Caudy AA, Rabinowitz JD, Murzin AG, Yakunin AF.

Chem Biol. 2013 Nov 21;20(11):1386-98. doi: 10.1016/j.chembiol.2013.09.011. Epub 2013 Oct 24.

17.

Yeast metabolic and signaling genes are required for heat-shock survival and have little overlap with the heat-induced genes.

Gibney PA, Lu C, Caudy AA, Hess DC, Botstein D.

Proc Natl Acad Sci U S A. 2013 Nov 12;110(46):E4393-402. doi: 10.1073/pnas.1318100110. Epub 2013 Oct 28.

18.

A new system for comparative functional genomics of Saccharomyces yeasts.

Caudy AA, Guan Y, Jia Y, Hansen C, DeSevo C, Hayes AP, Agee J, Alvarez-Dominguez JR, Arellano H, Barrett D, Bauerle C, Bisaria N, Bradley PH, Breunig JS, Bush E, Cappel D, Capra E, Chen W, Clore J, Combs PA, Doucette C, Demuren O, Fellowes P, Freeman S, Frenkel E, Gadala-Maria D, Gawande R, Glass D, Grossberg S, Gupta A, Hammonds-Odie L, Hoisos A, Hsi J, Hsu YH, Inukai S, Karczewski KJ, Ke X, Kojima M, Leachman S, Lieber D, Liebowitz A, Liu J, Liu Y, Martin T, Mena J, Mendoza R, Myhrvold C, Millian C, Pfau S, Raj S, Rich M, Rokicki J, Rounds W, Salazar M, Salesi M, Sharma R, Silverman S, Singer C, Sinha S, Staller M, Stern P, Tang H, Weeks S, Weidmann M, Wolf A, Young C, Yuan J, Crutchfield C, McClean M, Murphy CT, Llinás M, Botstein D, Troyanskaya OG, Dunham MJ.

Genetics. 2013 Sep;195(1):275-87. doi: 10.1534/genetics.113.152918. Epub 2013 Jul 12.

19.

Nucleotide degradation and ribose salvage in yeast.

Xu YF, Létisse F, Absalan F, Lu W, Kuznetsova E, Brown G, Caudy AA, Yakunin AF, Broach JR, Rabinowitz JD.

Mol Syst Biol. 2013 May 14;9:665. doi: 10.1038/msb.2013.21.

20.

Reconstitution and characterization of eukaryotic N6-threonylcarbamoylation of tRNA using a minimal enzyme system.

Wan LC, Mao DY, Neculai D, Strecker J, Chiovitti D, Kurinov I, Poda G, Thevakumaran N, Yuan F, Szilard RK, Lissina E, Nislow C, Caudy AA, Durocher D, Sicheri F.

Nucleic Acids Res. 2013 Jul;41(12):6332-46. doi: 10.1093/nar/gkt322. Epub 2013 Apr 25.

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