Publications

Recent Publications

2011:

Choi, H., Larsen, B., Lin., Z.-Y., Breitkreutz, A., Mellacheruvu, D., Fermin, D., Qin, Z.S., Tyers, M., Gingras, A.-C.*, Nesvizhskii, A.I*. SAINT: probabilistic scoring of affinity purification - mass spectrometry data.  Nature Methods. 2010 ; 8:70-3.

Templeton, G., Nimixk, M., Morrice, N.A., Campbell, D.G., Goudreault, M., Gingras, A.-C., Takemiya, A., Shimazaki, K.I., Moorhead, G.B. Identification and characterization of Atl-2, an Arabidopsis homolog of an ancient protein phosphatase (PP1) regulatory subunit.  Biochem J. 2010 ; 435(1):73-83.

Skarra, D.V., Goudreault, M., Choi, H., Mullin, M., Nesvizhskii, A., Gingras, A.-C.*, and Honkanen, R*. Label-free quantitative proteomics and SAINT analysis enable interactome mapping for the human Ser/Thr protein phosphatase 5.  Proteomics. 2010 ; in press.

Kean, M.J., Ceccarelli, D., Goudreault, M., Tate, S., Larsen, B., Sanches, M., Gibson, L.D., Derry., W.B., Scott, I.C., Pelletier, L., Baillie, G.S., Sicheri, F., and Gingras, A.-C.* Structure-function analysis of core STRIPAK: a signaling complex implicated in Golgi polarization  J Biol Chem. 2010 ; PMID 21561863.

Ceccarelli, D.F., Laister, R.C., Kean, M.J., Goudreault, M., Scott, I., Derry, W.B., Gingras, A.-C.* and Sicheri, F.* CCM3/PDCD10 is a scaffold for GCKIII kinases.  J Biol Chem. 2011 Jun 27; PMID 21561863.

Dunham, W.H., Larsen, B., Tate, S., Gonzalez Badillo, B., Tehami, Y., Kislinger, T., and Gingras, A.-C.* A cost-benefit analysis of multidimensional fractionation of affinity purification – mass spectrometry samples  Proteomics. 2011 Jun 27; PMID 21630450.

Li, Z., Vizeacoumar, F., Bahr, S., Li, J., Warringer, J., Vizeacoumar, F., VanderSluis, B., Bellay, J., DeVit, M., Fleming, J., Stephens, A., Haase, J., Lin, Z.-Y., Baryshnikova, A., Min, R., Lu, H., Yan, Z., Jin, K., Barker, S., Datti, A., Giaever, G., Nislow, C., Bulawa, C., Costanzo, M., Myers, C., Gingras, A.-C., Zhang, Z., Blomberg, A., Bloom, K., Andrews, B. and Boone, C. Systematic exploration of essential gene function with temperature-sensitive mutants  Nature Biotech. 2010 ; 29:361-7.

Olhovsky, M., Williton, K., Dai, A., Pasculescu, A., Lee, J.P., Goudreault, M., Wells, C.D., Park, J.G., Gingras, A.-C., Linding, R., Pawson, T., and Colwill, K. OpenFreezer: A web-based laboratory information and workflow management system for reagents.  Nature Methods. 2010 ; in press.

Nakada S, Tai I, Panier S, Al-Hakim A, Iemura S, Juang YC, O'Donnell L, Kumakubo A, Munro M, Sicheri F, Gingras AC, Natsume T, Suda T, Durocher D. Non-canonical inhibition of DNA damage-dependent ubiquitination by OTUB1.  Nature. 2010 Aug 19; 466(7309):941-6.

Sydorskyy Y, Srikumar T, Jeram SM, Wheaton S, Vizeacoumar FJ, Makhnevych T, Chong YT, Gingras AC, Raught B. A novel mechanism for SUMO system control: regulated Ulp1 nucleolar sequestration.  Mol Cell Biol. 2010 Jul 19; .

Choi H, Kim S, Gingras AC, Nesvizhskii AI. Analysis of protein complexes through model-based biclustering of label-free quantitative AP-MS data.  Mol Syst Biol. 2010 Jun 22; 6:385.

Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC*, Nesvizhskii AI*, Tyers M*. A global protein kinase and phosphatase interaction network in yeast.  Science. 2010 May 21; 328(5981):1043-6.

Mak AB, Ni Z, Hewel JA, Chen GI, Zhong G, Karamboulas K, Blakely K, Smiley S, Marcon E, Roudeva D, Li J, Olsen JB, Wan C, Punna T, Isserlin R, Chetyrkin S, Gingras AC, Emili A, Greenblatt J, Moffat J. A lentiviral functional proteomics approach identifies chromatin remodeling complexes important for the induction of pluripotency.  Mol Cell Proteomics.. 2010 May ; 9(5):811-23.

Bidinosti M, Ran I, Sanchez-Carbente MR, Martineau Y, Gingras AC, Gkogkas C, Raught B, Bramham CR, Sossin WS, Costa-Mattioli M, DesGroseillers L, Lacaille JC, Sonenberg N. Postnatal deamidation of 4E-BP2 in brain enhances its association with raptor and alters kinetics of excitatory synaptic transmission.  Mol Cell.. 2010 Mar 26; 37(6):797-808.

Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, Alizadeh S, Bahr S, Brost RL, Chen Y, Cokol M, Deshpande R, Li Z, Lin ZY, Liang W, Marback M, Paw J, San Luis BJ, Shuteriqi E, Tong AH, van Dyk N, Wallace IM, Whitney JA, Weirauch MT, Zhong G, Zhu H, Houry WA, Brudno M, Ragibizadeh S, Papp B, Pal C, Roth FP, Giaever G, Nislow C, Troyanskaya OG, Bussey H, Bader GD, Gingras AC, Morris QD, Kim PM, Kaiser CA, Myers CL, Andrews BJ, Boone C The genetic landscape of a cell.  Science.. 2010 Jan 22; 327(5964):425-31.

Baryshnikova A, Costanzo M, Kim Y, Ding H, Koh J, Toufighi K, Youn JY, Ou J, San Luis BJ, Bandyopadhyay S, Hibbs M, Hess D, Gingras AC, Bader GD, Troyanskaya OG, Brown GW, Andrews B, Boone C, Myers CL. Quantitative analysis of fitness and genetic interactions on a genome scale.  Nat Methods. 2010 Nov 11; 7:1017-24.

O'Donnell L, Panier S, Wildenhain J, Tkach JM, Al-Hakim A, Landry MC, Escribano-Diaz C, Szilard RK, Young JT, Munro M, Canny MD, Kolas NK, Zhang W, Harding SM, Ylanko J, Mendez M, Mullin M, Sun T, Habermann B, Datti A, Bristow RG, Gingras AC, Tyers M, Brown G and Durocher D. The MMS22L-TONSL complex mediates recovery from replication stress and homologous recombination.  Mol Cell. 1999 ; 40:619-31.

Lawo S, Bashkurov M, Mullin M, Ferreria MG, Kittler R, Habermann B, Tagliaferro A, Poser I, Hutchins JR, Hegemann B, Pinchev D, Buchholz F, Peters JM, Hyman AA, Gingras AC, Pelletier L. HAUS, the 8-subunit human Augmin complex, regulates centrosome and spindle integrity.  Curr Biol.. 2009 May 26; 19(10):816-26.

Goudreault M, D'Ambrosio LM, Kean MJ, Mullin MJ, Larsen BG, Sanchez A, Chaudhry S, Chen GI, Sicheri F, Nesvizhskii AI, Aebersold R, Raught B, Gingras AC*. A PP2A phosphatase high density interaction network identifies a novel striatin-interacting phosphatase and kinase complex linked to th  Mol Cell Proteomics.. 2009 Jan ; 8(1):157-71.

Chen GI, Tisayakorn S, Jorgensen C, D'Ambrosio LM, Goudreault M, Gingras AC*. PP4R4/KIAA1622 forms a novel stable cytosolic complex with phosphoprotein phosphatase 4.  J Biol Chem.. 2008 Aug 24; 283(43):29273-84.

Rong L, Livingstone M, Sukarieh R, Petroulakis E, Gingras AC, Crosby K, Smith B, Polakiewicz RD, Pelletier J, Ferraiuolo MA, Sonenberg N. Control of eIF4E cellular localization by eIF4E-binding proteins, 4E-BPs.  RNA.. 2008 Jul 14; 14(7):1318-27.

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