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Items: 1 to 50 of 173

1.

Genetic Network Complexity Shapes Background-Dependent Phenotypic Expression.

Hou J, van Leeuwen J, Andrews BJ, Boone C.

Trends Genet. 2018 Jun 11. pii: S0168-9525(18)30091-X. doi: 10.1016/j.tig.2018.05.006. [Epub ahead of print] Review.

PMID:
29903533
2.

Systematic analysis of complex genetic interactions.

Kuzmin E, VanderSluis B, Wang W, Tan G, Deshpande R, Chen Y, Usaj M, Balint A, Mattiazzi Usaj M, van Leeuwen J, Koch EN, Pons C, Dagilis AJ, Pryszlak M, Wang JZY, Hanchard J, Riggi M, Xu K, Heydari H, San Luis BJ, Shuteriqi E, Zhu H, Van Dyk N, Sharifpoor S, Costanzo M, Loewith R, Caudy A, Bolnick D, Brown GW, Andrews BJ, Boone C, Myers CL.

Science. 2018 Apr 20;360(6386). pii: eaao1729. doi: 10.1126/science.aao1729.

PMID:
29674565
3.

Integrating images from multiple microscopy screens reveals diverse patterns of change in the subcellular localization of proteins.

Lu AX, Chong YT, Hsu IS, Strome B, Handfield LF, Kraus O, Andrews BJ, Moses AM.

Elife. 2018 Apr 5;7. pii: e31872. doi: 10.7554/eLife.31872.

4.

Reporter-Based Synthetic Genetic Array Analysis: A Functional Genomics Approach for Investigating Transcript or Protein Abundance Using Fluorescent Proteins in Saccharomyces cerevisiae.

Göttert H, Mattiazzi Usaj M, Rosebrock AP, Andrews BJ.

Methods Mol Biol. 2018;1672:613-629. doi: 10.1007/978-1-4939-7306-4_40.

PMID:
29043651
5.

The Candida albicans transcription factor Cas5 couples stress responses, drug resistance and cell cycle regulation.

Xie JL, Qin L, Miao Z, Grys BT, Diaz JC, Ting K, Krieger JR, Tong J, Tan K, Leach MD, Ketela T, Moran MF, Krysan DJ, Boone C, Andrews BJ, Selmecki A, Ho Wong K, Robbins N, Cowen LE.

Nat Commun. 2017 Sep 11;8(1):499. doi: 10.1038/s41467-017-00547-y.

6.

Taxonomically Restricted Genes with Essential Functions Frequently Play Roles in Chromosome Segregation in Caenorhabditis elegans and Saccharomyces cerevisiae.

Verster AJ, Styles EB, Mateo A, Derry WB, Andrews BJ, Fraser AG.

G3 (Bethesda). 2017 Oct 5;7(10):3337-3347. doi: 10.1534/g3.117.300193.

7.

Evaluation and Design of Genome-Wide CRISPR/SpCas9 Knockout Screens.

Hart T, Tong AHY, Chan K, Van Leeuwen J, Seetharaman A, Aregger M, Chandrashekhar M, Hustedt N, Seth S, Noonan A, Habsid A, Sizova O, Nedyalkova L, Climie R, Tworzyanski L, Lawson K, Sartori MA, Alibeh S, Tieu D, Masud S, Mero P, Weiss A, Brown KR, Usaj M, Billmann M, Rahman M, Constanzo M, Myers CL, Andrews BJ, Boone C, Durocher D, Moffat J.

G3 (Bethesda). 2017 Aug 7;7(8):2719-2727. doi: 10.1534/g3.117.041277.

8.

Mechanisms of suppression: The wiring of genetic resilience.

van Leeuwen J, Pons C, Boone C, Andrews BJ.

Bioessays. 2017 Jul;39(7). doi: 10.1002/bies.201700042. Epub 2017 Jun 5. Review.

PMID:
28582599
9.

Identifying pathogenicity of human variants via paralog-based yeast complementation.

Yang F, Sun S, Tan G, Costanzo M, Hill DE, Vidal M, Andrews BJ, Boone C, Roth FP.

PLoS Genet. 2017 May 25;13(5):e1006779. doi: 10.1371/journal.pgen.1006779. eCollection 2017 May.

10.

Automated analysis of high-content microscopy data with deep learning.

Kraus OZ, Grys BT, Ba J, Chong Y, Frey BJ, Boone C, Andrews BJ.

Mol Syst Biol. 2017 Apr 18;13(4):924. doi: 10.15252/msb.20177551.

11.

Machine learning and computer vision approaches for phenotypic profiling.

Grys BT, Lo DS, Sahin N, Kraus OZ, Morris Q, Boone C, Andrews BJ.

J Cell Biol. 2017 Jan 2;216(1):65-71. doi: 10.1083/jcb.201610026. Epub 2016 Dec 9. Review.

12.

Exploring genetic suppression interactions on a global scale.

van Leeuwen J, Pons C, Mellor JC, Yamaguchi TN, Friesen H, Koschwanez J, Ušaj MM, Pechlaner M, Takar M, Ušaj M, VanderSluis B, Andrusiak K, Bansal P, Baryshnikova A, Boone CE, Cao J, Cote A, Gebbia M, Horecka G, Horecka I, Kuzmin E, Legro N, Liang W, van Lieshout N, McNee M, San Luis BJ, Shaeri F, Shuteriqi E, Sun S, Yang L, Youn JY, Yuen M, Costanzo M, Gingras AC, Aloy P, Oostenbrink C, Murray A, Graham TR, Myers CL, Andrews BJ, Roth FP, Boone C.

Science. 2016 Nov 4;354(6312). pii: aag0839.

13.

Exploring Quantitative Yeast Phenomics with Single-Cell Analysis of DNA Damage Foci.

Styles EB, Founk KJ, Zamparo LA, Sing TL, Altintas D, Ribeyre C, Ribaud V, Rougemont J, Mayhew D, Costanzo M, Usaj M, Verster AJ, Koch EN, Novarina D, Graf M, Luke B, Muzi-Falconi M, Myers CL, Mitra RD, Shore D, Brown GW, Zhang Z, Boone C, Andrews BJ.

Cell Syst. 2016 Sep 28;3(3):264-277.e10. doi: 10.1016/j.cels.2016.08.008. Epub 2016 Sep 8.

14.

High-Content Screening for Quantitative Cell Biology.

Mattiazzi Usaj M, Styles EB, Verster AJ, Friesen H, Boone C, Andrews BJ.

Trends Cell Biol. 2016 Aug;26(8):598-611. doi: 10.1016/j.tcb.2016.03.008. Epub 2016 Apr 22. Review.

PMID:
27118708
15.

High-Throughput Microscopy-Based Screening in Saccharomyces cerevisiae.

Styles EB, Friesen H, Boone C, Andrews BJ.

Cold Spring Harb Protoc. 2016 Apr 1;2016(4):pdb.top087593. doi: 10.1101/pdb.top087593.

PMID:
27037080
16.

An extended set of yeast-based functional assays accurately identifies human disease mutations.

Sun S, Yang F, Tan G, Costanzo M, Oughtred R, Hirschman J, Theesfeld CL, Bansal P, Sahni N, Yi S, Yu A, Tyagi T, Tie C, Hill DE, Vidal M, Andrews BJ, Boone C, Dolinski K, Roth FP.

Genome Res. 2016 May;26(5):670-80. doi: 10.1101/gr.192526.115. Epub 2016 Mar 14.

17.

The effect of FES-rowing training on cardiac structure and function: pilot studies in people with spinal cord injury.

Gibbons RS, Stock CG, Andrews BJ, Gall A, Shave RE.

Spinal Cord. 2016 Oct;54(10):822-829. doi: 10.1038/sc.2015.228. Epub 2016 Jan 12.

PMID:
26754476
18.

Thermal vesiculation during volcanic eruptions.

Lavallée Y, Dingwell DB, Johnson JB, Cimarelli C, Hornby AJ, Kendrick JE, von Aulock FW, Kennedy BM, Andrews BJ, Wadsworth FB, Rhodes E, Chigna G.

Nature. 2015 Dec 24;528(7583):544-7. doi: 10.1038/nature16153.

PMID:
26701056
19.

HUMAN GENOME. The indispensable genome.

Boone C, Andrews BJ.

Science. 2015 Nov 27;350(6264):1028-9. doi: 10.1126/science.aad7925. No abstract available.

PMID:
26612934
20.

Screw Versus Plate Fixation for Chevron Osteotomy: A Retrospective Study.

Andrews BJ, Fallat LM, Kish JP.

J Foot Ankle Surg. 2016 Jan-Feb;55(1):81-4. doi: 10.1053/j.jfas.2015.06.024. Epub 2015 Aug 12.

PMID:
26277241
21.

Pullulanase and Starch Synthase III Are Associated with Formation of Vitreous Endosperm in Quality Protein Maize.

Wu H, Clay K, Thompson SS, Hennen-Bierwagen TA, Andrews BJ, Zechmann B, Gibbon BC.

PLoS One. 2015 Jun 26;10(6):e0130856. doi: 10.1371/journal.pone.0130856. eCollection 2015.

22.

CYCLoPs: A Comprehensive Database Constructed from Automated Analysis of Protein Abundance and Subcellular Localization Patterns in Saccharomyces cerevisiae.

Koh JL, Chong YT, Friesen H, Moses A, Boone C, Andrews BJ, Moffat J.

G3 (Bethesda). 2015 Apr 15;5(6):1223-32. doi: 10.1534/g3.115.017830.

23.

Yeast Proteome Dynamics from Single Cell Imaging and Automated Analysis.

Chong YT, Koh JL, Friesen H, Duffy SK, Cox MJ, Moses A, Moffat J, Boone C, Andrews BJ.

Cell. 2015 Jun 4;161(6):1413-24. doi: 10.1016/j.cell.2015.04.051. Erratum in: Cell. 2015 Jul 2;162(1):221. Duffy, Kaluarachchi [corrected to Duffy, Supipi Kaluarachchi].

24.

Can FES-rowing mediate bone mineral density in SCI: a pilot study.

Gibbons RS, McCarthy ID, Gall A, Stock CG, Shippen J, Andrews BJ.

Spinal Cord. 2014 Nov;52 Suppl 3:S4-5. doi: 10.1038/sc.2014.112.

PMID:
25376313
25.

Reply to "Letter to the editor: Consistency among musculoskeletal models: caveat utilitor".

Wagner DW, Stepanyan V, Shippen JM, DeMers MS, Gibbons RS, Andrews BJ, Creasey GH, Beaupre GS.

Ann Biomed Eng. 2015 Apr;43(4):1055-6. doi: 10.1007/s10439-014-1152-z. No abstract available.

PMID:
25366902
26.

FES-rowing in tetraplegia: a preliminary report.

Gibbons RS, Shave RE, Gall A, Andrews BJ.

Spinal Cord. 2014 Dec;52(12):880-6. doi: 10.1038/sc.2014.159. Epub 2014 Sep 30.

PMID:
25266698
27.

Synthetic genetic array analysis for global mapping of genetic networks in yeast.

Kuzmin E, Sharifpoor S, Baryshnikova A, Costanzo M, Myers CL, Andrews BJ, Boone C.

Methods Mol Biol. 2014;1205:143-68. doi: 10.1007/978-1-4939-1363-3_10.

PMID:
25213244
28.

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.

29.

eIF5A has a function in the cotranslational translocation of proteins into the ER.

Rossi D, Galvão FC, Bellato HM, Boldrin PE, Andrews BJ, Valentini SR, Zanelli CF.

Amino Acids. 2014 Mar;46(3):645-53. doi: 10.1007/s00726-013-1618-6. Epub 2013 Dec 5.

PMID:
24306454
30.

HeLa sequencing and genomic privacy: the next chapter.

Andrews BJ, DePellegrin T.

G3 (Bethesda). 2013 Aug 7;3(8):vii. doi: 10.1534/g3.113.007427. No abstract available.

31.

Unsupervised clustering of subcellular protein expression patterns in high-throughput microscopy images reveals protein complexes and functional relationships between proteins.

Handfield LF, Chong YT, Simmons J, Andrews BJ, Moses AM.

PLoS Comput Biol. 2013;9(6):e1003085. doi: 10.1371/journal.pcbi.1003085. Epub 2013 Jun 13.

32.

Consistency among musculoskeletal models: caveat utilitor.

Wagner DW, Stepanyan V, Shippen JM, Demers MS, Gibbons RS, Andrews BJ, Creasey GH, Beaupre GS.

Ann Biomed Eng. 2013 Aug;41(8):1787-99. doi: 10.1007/s10439-013-0843-1. Epub 2013 Jun 18.

PMID:
23775441
33.

SGAtools: one-stop analysis and visualization of array-based genetic interaction screens.

Wagih O, Usaj M, Baryshnikova A, VanderSluis B, Kuzmin E, Costanzo M, Myers CL, Andrews BJ, Boone CM, Parts L.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W591-6. doi: 10.1093/nar/gkt400. Epub 2013 May 15.

34.

Bck2 acts through the MADS box protein Mcm1 to activate cell-cycle-regulated genes in budding yeast.

Bastajian N, Friesen H, Andrews BJ.

PLoS Genet. 2013 May;9(5):e1003507. doi: 10.1371/journal.pgen.1003507. Epub 2013 May 9.

35.

Global analysis of SUMO chain function reveals multiple roles in chromatin regulation.

Srikumar T, Lewicki MC, Costanzo M, Tkach JM, van Bakel H, Tsui K, Johnson ES, Brown GW, Andrews BJ, Boone C, Giaever G, Nislow C, Raught B.

J Cell Biol. 2013 Apr 1;201(1):145-63. doi: 10.1083/jcb.201210019.

36.

Functional analysis with a barcoder yeast gene overexpression system.

Douglas AC, Smith AM, Sharifpoor S, Yan Z, Durbic T, Heisler LE, Lee AY, Ryan O, Göttert H, Surendra A, van Dyk D, Giaever G, Boone C, Nislow C, Andrews BJ.

G3 (Bethesda). 2012 Oct;2(10):1279-89. doi: 10.1534/g3.112.003400. Epub 2012 Oct 1.

37.

Conserved rules govern genetic interaction degree across species.

Koch EN, Costanzo M, Bellay J, Deshpande R, Chatfield-Reed K, Chua G, D'Urso G, Andrews BJ, Boone C, Myers CL.

Genome Biol. 2012 Jul 2;13(7):R57. doi: 10.1186/gb-2012-13-7-r57.

38.

The budding yeast nuclear envelope adjacent to the nucleolus serves as a membrane sink during mitotic delay.

Witkin KL, Chong Y, Shao S, Webster MT, Lahiri S, Walters AD, Lee B, Koh JL, Prinz WA, Andrews BJ, Cohen-Fix O.

Curr Biol. 2012 Jun 19;22(12):1128-33. doi: 10.1016/j.cub.2012.04.022. Epub 2012 May 31.

39.

Proteome-wide discovery of evolutionary conserved sequences in disordered regions.

Nguyen Ba AN, Yeh BJ, van Dyk D, Davidson AR, Andrews BJ, Weiss EL, Moses AM.

Sci Signal. 2012 Mar 13;5(215):rs1. doi: 10.1126/scisignal.2002515.

40.

G3, GENETICS, and the GSA: Two Journals, One Mission.

Andrews BJ, Johnston M, Hawley RS, Sternberg PW, Hieter P, Schedl T.

G3 (Bethesda). 2011 Sep;1(4):245-6. doi: 10.1534/g3.111.000877. Epub 2011 Sep 1. No abstract available.

41.

GSA Launches G3: Genes | Genomes | Genetics.

Andrews BJ, Sternberg PW, Depellegrin Connelly T.

G3 (Bethesda). 2011 Jun;1(1):1. doi: 10.1534/g3.111.000414. Epub 2011 Jun 1. No abstract available.

42.

Functional wiring of the yeast kinome revealed by global analysis of genetic network motifs.

Sharifpoor S, van Dyk D, Costanzo M, Baryshnikova A, Friesen H, Douglas AC, Youn JY, VanderSluis B, Myers CL, Papp B, Boone C, Andrews BJ.

Genome Res. 2012 Apr;22(4):791-801. doi: 10.1101/gr.129213.111. Epub 2012 Jan 26.

43.

Restriction of histone gene transcription to S phase by phosphorylation of a chromatin boundary protein.

Kurat CF, Lambert JP, van Dyk D, Tsui K, van Bakel H, Kaluarachchi S, Friesen H, Kainth P, Nislow C, Figeys D, Fillingham J, Andrews BJ.

Genes Dev. 2011 Dec 1;25(23):2489-501. doi: 10.1101/gad.173427.111.

44.

Systematic exploration of synergistic drug pairs.

Cokol M, Chua HN, Tasan M, Mutlu B, Weinstein ZB, Suzuki Y, Nergiz ME, Costanzo M, Baryshnikova A, Giaever G, Nislow C, Myers CL, Andrews BJ, Boone C, Roth FP.

Mol Syst Biol. 2011 Nov 8;7:544. doi: 10.1038/msb.2011.71.

45.

G3, GENETICS, and the GSA: Two Journals, One Mission.

Johnston M, Andrews BJ, Hawley RS, Sternberg PW, Hieter P, Schedl T.

Genetics. 2011 Sep;189(1):1-2. doi: 10.1534/genetics.111.133777. No abstract available.

46.

Developmental continuity in theory of mind: speed and accuracy of belief-desire reasoning in children and adults.

Apperly IA, Warren F, Andrews BJ, Grant J, Todd S.

Child Dev. 2011 Sep-Oct;82(5):1691-703. doi: 10.1111/j.1467-8624.2011.01635.x. Epub 2011 Aug 29.

PMID:
21883156
47.

Global functional map of the p23 molecular chaperone reveals an extensive cellular network.

Echtenkamp FJ, Zelin E, Oxelmark E, Woo JI, Andrews BJ, Garabedian M, Freeman BC.

Mol Cell. 2011 Jul 22;43(2):229-41. doi: 10.1016/j.molcel.2011.05.029.

48.

Putting genetic interactions in context through a global modular decomposition.

Bellay J, Atluri G, Sing TL, Toufighi K, Costanzo M, Ribeiro PS, Pandey G, Baller J, VanderSluis B, Michaut M, Han S, Kim P, Brown GW, Andrews BJ, Boone C, Kumar V, Myers CL.

Genome Res. 2011 Aug;21(8):1375-87. doi: 10.1101/gr.117176.110. Epub 2011 Jun 29.

49.

An integrated approach to characterize genetic interaction networks in yeast metabolism.

Szappanos B, Kovács K, Szamecz B, Honti F, Costanzo M, Baryshnikova A, Gelius-Dietrich G, Lercher MJ, Jelasity M, Myers CL, Andrews BJ, Boone C, Oliver SG, Pál C, Papp B.

Nat Genet. 2011 May 29;43(7):656-62. doi: 10.1038/ng.846.

50.

A quantitative literature-curated gold standard for kinase-substrate pairs.

Sharifpoor S, Nguyen Ba AN, Youn JY, van Dyk D, Friesen H, Douglas AC, Kurat CF, Chong YT, Founk K, Moses AM, Andrews BJ.

Genome Biol. 2011;12(4):R39. doi: 10.1186/gb-2011-12-4-r39. Epub 2011 Apr 14. Erratum in: Genome Biol. 2012;13(5):417. Young, Ji-Young [corrected to Youn, Ji-Young].

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