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Items: 1 to 50 of 302

1.

Drug combinations: a strategy to extend the life of antibiotics in the 21st century.

Tyers M, Wright GD.

Nat Rev Microbiol. 2019 Mar;17(3):141-155. doi: 10.1038/s41579-018-0141-x. Epub 2019 Jan 25. Review.

PMID:
30683887
2.

Proteome-Wide, Structure-Based Prediction of Protein-protein Interactions / New Molecular Interactions Viewer.

Dong S, Lau V, Song R, Ierullo M, Esteban E, Wu Y, Sivieng T, Nahal-Bose HK, Gaudinier A, Pasha A, Oughtred R, Dolinski K, Tyers M, Brady SM, Grene R, Usadel B, Provart NJ.

Plant Physiol. 2019 Jan 24. pii: pp.01216.2018. doi: 10.1104/pp.18.01216. [Epub ahead of print]

3.

The BioGRID interaction database: 2019 update.

Oughtred R, Stark C, Breitkreutz BJ, Rust J, Boucher L, Chang C, Kolas N, O'Donnell L, Leung G, McAdam R, Zhang F, Dolma S, Willems A, Coulombe-Huntington J, Chatr-Aryamontri A, Dolinski K, Tyers M.

Nucleic Acids Res. 2019 Jan 8;47(D1):D529-D541. doi: 10.1093/nar/gky1079.

4.

Real-time tracking of complex ubiquitination cascades using a fluorescent confocal on-bead assay.

Koszela J, Pham NT, Evans D, Mann S, Perez-Pi I, Shave S, Ceccarelli DFJ, Sicheri F, Tyers M, Auer M.

BMC Biol. 2018 Aug 10;16(1):88. doi: 10.1186/s12915-018-0554-z.

5.

Combined Enrichment/Enzymatic Approach To Study Tightly Clustered Multisite Phosphorylation on Ser-Rich Domains.

Kanshin E, Pascariu M, Tyers M, D'Amours D, Thibault P.

J Proteome Res. 2018 Sep 7;17(9):3050-3060. doi: 10.1021/acs.jproteome.8b00205. Epub 2018 Aug 9.

PMID:
30063138
6.

Condensin ATPase motifs contribute differentially to the maintenance of chromosome morphology and genome stability.

Palou R, Dhanaraman T, Marrakchi R, Pascariu M, Tyers M, D'Amours D.

PLoS Biol. 2018 Jun 27;16(6):e2003980. doi: 10.1371/journal.pbio.2003980. eCollection 2018 Jun.

7.

G1/S Transcription Factor Copy Number Is a Growth-Dependent Determinant of Cell Cycle Commitment in Yeast.

Dorsey S, Tollis S, Cheng J, Black L, Notley S, Tyers M, Royer CA.

Cell Syst. 2018 May 23;6(5):539-554.e11. doi: 10.1016/j.cels.2018.04.012.

PMID:
29792825
8.

At Long Last, a C-Terminal Bookend for the Ubiquitin Code.

Chatr-Aryamontri A, van der Sloot A, Tyers M.

Mol Cell. 2018 May 17;70(4):568-571. doi: 10.1016/j.molcel.2018.05.006.

PMID:
29775575
9.

Cdc48/VCP Promotes Chromosome Morphogenesis by Releasing Condensin from Self-Entrapment in Chromatin.

Thattikota Y, Tollis S, Palou R, Vinet J, Tyers M, D'Amours D.

Mol Cell. 2018 Feb 15;69(4):664-676.e5. doi: 10.1016/j.molcel.2018.01.030.

PMID:
29452641
10.

Multivalent Interactions with Fbw7 and Pin1 Facilitate Recognition of c-Jun by the SCFFbw7 Ubiquitin Ligase.

Csizmok V, Montecchio M, Lin H, Tyers M, Sunnerhagen M, Forman-Kay JD.

Structure. 2018 Jan 2;26(1):28-39.e2. doi: 10.1016/j.str.2017.11.003. Epub 2017 Dec 7.

11.

Revealing the Determinants of Widespread Alternative Splicing Perturbation in Cancer.

Li Y, Sahni N, Pancsa R, McGrail DJ, Xu J, Hua X, Coulombe-Huntington J, Ryan M, Tychhon B, Sudhakar D, Hu L, Tyers M, Jiang X, Lin SY, Babu MM, Yi S.

Cell Rep. 2017 Oct 17;21(3):798-812. doi: 10.1016/j.celrep.2017.09.071.

12.

A High-Resolution Genome-Wide CRISPR/Cas9 Viability Screen Reveals Structural Features and Contextual Diversity of the Human Cell-Essential Proteome.

Bertomeu T, Coulombe-Huntington J, Chatr-Aryamontri A, Bourdages KG, Coyaud E, Raught B, Xia Y, Tyers M.

Mol Cell Biol. 2017 Dec 13;38(1). pii: e00302-17. doi: 10.1128/MCB.00302-17. Print 2018 Jan 1.

13.

WD40 repeat domain proteins: a novel target class?

Schapira M, Tyers M, Torrent M, Arrowsmith CH.

Nat Rev Drug Discov. 2017 Nov;16(11):773-786. doi: 10.1038/nrd.2017.179. Epub 2017 Oct 13. Review.

14.

CLMSVault: A Software Suite for Protein Cross-Linking Mass-Spectrometry Data Analysis and Visualization.

Courcelles M, Coulombe-Huntington J, Cossette É, Gingras AC, Thibault P, Tyers M.

J Proteome Res. 2017 Jul 7;16(7):2645-2652. doi: 10.1021/acs.jproteome.7b00205. Epub 2017 Jun 5.

15.

Synthetic Genomics: Rewriting the Genome Chromosome by Chromosome.

van der Sloot A, Tyers M.

Mol Cell. 2017 May 18;66(4):441-443. doi: 10.1016/j.molcel.2017.05.007.

16.

Machine Learning of Global Phosphoproteomic Profiles Enables Discrimination of Direct versus Indirect Kinase Substrates.

Kanshin E, Giguère S, Jing C, Tyers M, Thibault P.

Mol Cell Proteomics. 2017 May;16(5):786-798. doi: 10.1074/mcp.M116.066233. Epub 2017 Mar 6.

17.

The BioC-BioGRID corpus: full text articles annotated for curation of protein-protein and genetic interactions.

Islamaj Dogan R, Kim S, Chatr-Aryamontri A, Chang CS, Oughtred R, Rust J, Wilbur WJ, Comeau DC, Dolinski K, Tyers M.

Database (Oxford). 2017 Jan 10;2017. doi: 10.1093/database/baw147. Print 2017.

18.

An allosteric conduit facilitates dynamic multisite substrate recognition by the SCFCdc4 ubiquitin ligase.

Csizmok V, Orlicky S, Cheng J, Song J, Bah A, Delgoshaie N, Lin H, Mittag T, Sicheri F, Chan HS, Tyers M, Forman-Kay JD.

Nat Commun. 2017 Jan 3;8:13943. doi: 10.1038/ncomms13943.

19.

The BioGRID interaction database: 2017 update.

Chatr-Aryamontri A, Oughtred R, Boucher L, Rust J, Chang C, Kolas NK, O'Donnell L, Oster S, Theesfeld C, Sellam A, Stark C, Breitkreutz BJ, Dolinski K, Tyers M.

Nucleic Acids Res. 2017 Jan 4;45(D1):D369-D379. doi: 10.1093/nar/gkw1102. Epub 2016 Dec 14.

20.

Systematic chemical-genetic and chemical-chemical interaction datasets for prediction of compound synergism.

Wildenhain J, Spitzer M, Dolma S, Jarvik N, White R, Roy M, Griffiths E, Bellows DS, Wright GD, Tyers M.

Sci Data. 2016 Nov 22;3:160095. doi: 10.1038/sdata.2016.95.

21.

Data Independent Acquisition analysis in ProHits 4.0.

Liu G, Knight JD, Zhang JP, Tsou CC, Wang J, Lambert JP, Larsen B, Tyers M, Raught B, Bandeira N, Nesvizhskii AI, Choi H, Gingras AC.

J Proteomics. 2016 Oct 21;149:64-68. doi: 10.1016/j.jprot.2016.04.042. Epub 2016 Apr 29.

22.

Discovery of Ibomycin, a Complex Macrolactone that Exerts Antifungal Activity by Impeding Endocytic Trafficking and Membrane Function.

Robbins N, Spitzer M, Wang W, Waglechner N, Patel DJ, O'Brien JS, Ejim L, Ejim O, Tyers M, Wright GD.

Cell Chem Biol. 2016 Nov 17;23(11):1383-1394. doi: 10.1016/j.chembiol.2016.08.015. Epub 2016 Oct 13.

23.

Predictive computational phenotyping and biomarker discovery using reference-free genome comparisons.

Drouin A, Giguère S, Déraspe M, Marchand M, Tyers M, Loo VG, Bourgault AM, Laviolette F, Corbeil J.

BMC Genomics. 2016 Sep 26;17(1):754.

24.

BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID.

Kim S, Islamaj Doğan R, Chatr-Aryamontri A, Chang CS, Oughtred R, Rust J, Batista-Navarro R, Carter J, Ananiadou S, Matos S, Santos A, Campos D, Oliveira JL, Singh O, Jonnagaddala J, Dai HJ, Su EC, Chang YC, Su YC, Chu CH, Chen CC, Hsu WL, Peng Y, Arighi C, Wu CH, Vijay-Shanker K, Aydın F, Hüsünbeyi ZM, Özgür A, Shin SY, Kwon D, Dolinski K, Tyers M, Wilbur WJ, Comeau DC.

Database (Oxford). 2016 Sep 1;2016. pii: baw121. doi: 10.1093/database/baw121. Print 2016.

25.

Inhibition of Dopamine Receptor D4 Impedes Autophagic Flux, Proliferation, and Survival of Glioblastoma Stem Cells.

Dolma S, Selvadurai HJ, Lan X, Lee L, Kushida M, Voisin V, Whetstone H, So M, Aviv T, Park N, Zhu X, Xu C, Head R, Rowland KJ, Bernstein M, Clarke ID, Bader G, Harrington L, Brumell JH, Tyers M, Dirks PB.

Cancer Cell. 2016 Jun 13;29(6):859-873. doi: 10.1016/j.ccell.2016.05.002.

26.

Prediction of Synergism from Chemical-Genetic Interactions by Machine Learning.

Wildenhain J, Spitzer M, Dolma S, Jarvik N, White R, Roy M, Griffiths E, Bellows DS, Wright GD, Tyers M.

Cell Syst. 2015 Dec 23;1(6):383-95. doi: 10.1016/j.cels.2015.12.003. Epub 2015 Dec 23.

27.

Inhibition of SCF ubiquitin ligases by engineered ubiquitin variants that target the Cul1 binding site on the Skp1-F-box interface.

Gorelik M, Orlicky S, Sartori MA, Tang X, Marcon E, Kurinov I, Greenblatt JF, Tyers M, Moffat J, Sicheri F, Sidhu SS.

Proc Natl Acad Sci U S A. 2016 Mar 29;113(13):3527-32. doi: 10.1073/pnas.1519389113. Epub 2016 Mar 14.

28.

BioGRID: A Resource for Studying Biological Interactions in Yeast.

Oughtred R, Chatr-aryamontri A, Breitkreutz BJ, Chang CS, Rust JM, Theesfeld CL, Heinicke S, Breitkreutz A, Chen D, Hirschman J, Kolas N, Livstone MS, Nixon J, O'Donnell L, Ramage L, Winter A, Reguly T, Sellam A, Stark C, Boucher L, Dolinski K, Tyers M.

Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.top080754. doi: 10.1101/pdb.top080754.

29.

Use of the BioGRID Database for Analysis of Yeast Protein and Genetic Interactions.

Oughtred R, Chatr-aryamontri A, Breitkreutz BJ, Chang CS, Rust JM, Theesfeld CL, Heinicke S, Breitkreutz A, Chen D, Hirschman J, Kolas N, Livstone MS, Nixon J, O'Donnell L, Ramage L, Winter A, Reguly T, Sellam A, Stark C, Boucher L, Dolinski K, Tyers M.

Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.prot088880. doi: 10.1101/pdb.prot088880.

30.

An Antifungal Combination Matrix Identifies a Rich Pool of Adjuvant Molecules that Enhance Drug Activity against Diverse Fungal Pathogens.

Robbins N, Spitzer M, Yu T, Cerone RP, Averette AK, Bahn YS, Heitman J, Sheppard DC, Tyers M, Wright GD.

Cell Rep. 2015 Nov 17;13(7):1481-1492. doi: 10.1016/j.celrep.2015.10.018. Epub 2015 Nov 5.

31.

Caenorhabditis elegans is a useful model for anthelmintic discovery.

Burns AR, Luciani GM, Musso G, Bagg R, Yeo M, Zhang Y, Rajendran L, Glavin J, Hunter R, Redman E, Stasiuk S, Schertzberg M, Angus McQuibban G, Caffrey CR, Cutler SR, Tyers M, Giaever G, Nislow C, Fraser AG, MacRae CA, Gilleard J, Roy PJ.

Nat Commun. 2015 Jun 25;6:7485. doi: 10.1038/ncomms8485.

32.

Sample Collection Method Bias Effects in Quantitative Phosphoproteomics.

Kanshin E, Tyers M, Thibault P.

J Proteome Res. 2015 Jul 2;14(7):2998-3004. doi: 10.1021/acs.jproteome.5b00404. Epub 2015 Jun 16.

PMID:
26040406
33.

Panspecies small-molecule disruptors of heterochromatin-mediated transcriptional gene silencing.

Castonguay E, White SA, Kagansky A, St-Cyr DJ, Castillo AG, Brugger C, White R, Bonilla C, Spitzer M, Earnshaw WC, Schalch T, Ekwall K, Tyers M, Allshire RC.

Mol Cell Biol. 2015 Feb;35(4):662-74. doi: 10.1128/MCB.01102-14. Epub 2014 Dec 8.

34.

The BioGRID interaction database: 2015 update.

Chatr-Aryamontri A, Breitkreutz BJ, Oughtred R, Boucher L, Heinicke S, Chen D, Stark C, Breitkreutz A, Kolas N, O'Donnell L, Reguly T, Nixon J, Ramage L, Winter A, Sellam A, Chang C, Hirschman J, Theesfeld C, Rust J, Livstone MS, Dolinski K, Tyers M.

Nucleic Acids Res. 2015 Jan;43(Database issue):D470-8. doi: 10.1093/nar/gku1204. Epub 2014 Nov 26.

35.

Targeting the INCENP IN-box-Aurora B interaction to inhibit CPC activity in vivo.

Gohard FH, St-Cyr DJ, Tyers M, Earnshaw WC.

Open Biol. 2014 Nov;4(11):140163. doi: 10.1098/rsob.140163.

36.

Structural basis for the recruitment of glycogen synthase by glycogenin.

Zeqiraj E, Tang X, Hunter RW, García-Rocha M, Judd A, Deak M, von Wilamowitz-Moellendorff A, Kurinov I, Guinovart JJ, Tyers M, Sakamoto K, Sicheri F.

Proc Natl Acad Sci U S A. 2014 Jul 15;111(28):E2831-40. doi: 10.1073/pnas.1402926111. Epub 2014 Jun 30.

37.

A loss of function analysis of host factors influencing Vaccinia virus replication by RNA interference.

Beard PM, Griffiths SJ, Gonzalez O, Haga IR, Pechenick Jowers T, Reynolds DK, Wildenhain J, Tekotte H, Auer M, Tyers M, Ghazal P, Zimmer R, Haas J.

PLoS One. 2014 Jun 5;9(6):e98431. doi: 10.1371/journal.pone.0098431. eCollection 2014.

38.

Regulation of the histone deacetylase Hst3 by cyclin-dependent kinases and the ubiquitin ligase SCFCdc4.

Delgoshaie N, Tang X, Kanshin ED, Williams EC, Rudner AD, Thibault P, Tyers M, Verreault A.

J Biol Chem. 2014 May 9;289(19):13186-96. doi: 10.1074/jbc.M113.523530. Epub 2014 Mar 19.

39.

BoxPlotR: a web tool for generation of box plots.

Spitzer M, Wildenhain J, Rappsilber J, Tyers M.

Nat Methods. 2014 Feb;11(2):121-2. doi: 10.1038/nmeth.2811. No abstract available.

40.

E2 enzyme inhibition by stabilization of a low-affinity interface with ubiquitin.

Huang H, Ceccarelli DF, Orlicky S, St-Cyr DJ, Ziemba A, Garg P, Plamondon S, Auer M, Sidhu S, Marinier A, Kleiger G, Tyers M, Sicheri F.

Nat Chem Biol. 2014 Feb;10(2):156-163. doi: 10.1038/nchembio.1412. Epub 2013 Dec 15.

41.

Structure of an SspH1-PKN1 complex reveals the basis for host substrate recognition and mechanism of activation for a bacterial E3 ubiquitin ligase.

Keszei AF, Tang X, McCormick C, Zeqiraj E, Rohde JR, Tyers M, Sicheri F.

Mol Cell Biol. 2014 Feb;34(3):362-73. doi: 10.1128/MCB.01360-13. Epub 2013 Nov 18.

42.

The PhosphoGRID Saccharomyces cerevisiae protein phosphorylation site database: version 2.0 update.

Sadowski I, Breitkreutz BJ, Stark C, Su TC, Dahabieh M, Raithatha S, Bernhard W, Oughtred R, Dolinski K, Barreto K, Tyers M.

Database (Oxford). 2013 May 13;2013:bat026. doi: 10.1093/database/bat026. Print 2013.

43.

Systematic curation of protein and genetic interaction data for computable biology.

Dolinski K, Chatr-Aryamontri A, Tyers M.

BMC Biol. 2013 Apr 15;11:43. doi: 10.1186/1741-7007-11-43. Review. No abstract available.

44.

A yeast chemical genetic screen identifies inhibitors of human telomerase.

Wong LH, Unciti-Broceta A, Spitzer M, White R, Tyers M, Harrington L.

Chem Biol. 2013 Mar 21;20(3):333-40. doi: 10.1016/j.chembiol.2012.12.008.

45.

A strategy for modulation of enzymes in the ubiquitin system.

Ernst A, Avvakumov G, Tong J, Fan Y, Zhao Y, Alberts P, Persaud A, Walker JR, Neculai AM, Neculai D, Vorobyov A, Garg P, Beatty L, Chan PK, Juang YC, Landry MC, Yeh C, Zeqiraj E, Karamboulas K, Allali-Hassani A, Vedadi M, Tyers M, Moffat J, Sicheri F, Pelletier L, Durocher D, Raught B, Rotin D, Yang J, Moran MF, Dhe-Paganon S, Sidhu SS.

Science. 2013 Feb 1;339(6119):590-5. doi: 10.1126/science.1230161. Epub 2013 Jan 3.

46.

The BioGRID interaction database: 2013 update.

Chatr-Aryamontri A, Breitkreutz BJ, Heinicke S, Boucher L, Winter A, Stark C, Nixon J, Ramage L, Kolas N, O'Donnell L, Reguly T, Breitkreutz A, Sellam A, Chen D, Chang C, Rust J, Livstone M, Oughtred R, Dolinski K, Tyers M.

Nucleic Acids Res. 2013 Jan;41(Database issue):D816-23. doi: 10.1093/nar/gks1158. Epub 2012 Nov 30.

47.

Using ProHits to store, annotate, and analyze affinity purification-mass spectrometry (AP-MS) data.

Liu G, Zhang J, Choi H, Lambert JP, Srikumar T, Larsen B, Nesvizhskii AI, Raught B, Tyers M, Gingras AC.

Curr Protoc Bioinformatics. 2012 Sep;Chapter 8:Unit8.16. doi: 10.1002/0471250953.bi0816s39.

48.

Analyzing protein-protein interactions from affinity purification-mass spectrometry data with SAINT.

Choi H, Liu G, Mellacheruvu D, Tyers M, Gingras AC, Nesvizhskii AI.

Curr Protoc Bioinformatics. 2012 Sep;Chapter 8:Unit8.15. doi: 10.1002/0471250953.bi0815s39.

49.

ALDH2 mediates 5-nitrofuran activity in multiple species.

Zhou L, Ishizaki H, Spitzer M, Taylor KL, Temperley ND, Johnson SL, Brear P, Gautier P, Zeng Z, Mitchell A, Narayan V, McNeil EM, Melton DW, Smith TK, Tyers M, Westwood NJ, Patton EE.

Chem Biol. 2012 Jul 27;19(7):883-92. doi: 10.1016/j.chembiol.2012.05.017.

50.

MolClass: a web portal to interrogate diverse small molecule screen datasets with different computational models.

Wildenhain J, Fitzgerald N, Tyers M.

Bioinformatics. 2012 Aug 15;28(16):2200-1. doi: 10.1093/bioinformatics/bts349. Epub 2012 Jun 17.

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