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Selected Publications:


JS Bloom, J Boocock, S Treusch, MJ Sadhu, L Day, H Oates-Barker, L Kruglyak. Rare variants contribute disproportionately to quantitative trait variation in yeast. bioRxiv. 2019; 607291 [link to preprint]

A Burga, E Ben-David, TL Vergara, J Boocock, L Kruglyak. Fast genetic mapping of complex traits in C. elegans using millions of individuals in bulk. Nat Commun. 2019; 10, 110 [link to publication]

D Zeevi, JS Bloom, MJ Sadhu, AB Yehuda, D Zangen, E Levy-Lahad, L Kruglyak. Analysis of the genetic basis of height in large Jewish nuclear families. PLoS Genet. 2019; 15, e100808222 [link to publication]

L Gou, JS Bloom, L Kruglyak. The Genetic Basis of Mutation Rate Variation in Yeast. Genetics. 2019; Feb;211(2):731-740. doi: 10.1534/genetics.118.301609 [link to publication]

FW Albert, JS Bloom, J Siegel, L Day, L Kruglyak. Genetics of trans-regulatory variation in gene expression. Elife. 2018; Jul 17;7. pii: e35471. doi: 10.7554/eLife.35471. [link to publication]

MJ Sadhu, JS Bloom, L Day, JJ Siegel, S Kosuri, L Kruglyak. Highly parallel genome variant engineering with CRISPR-Cas9. Nat Genet. 2018; Apr;50(4):510-514. doi: 10.1038/s41588-018-0087-y [link to publication]

A Burga, W Wang, E Ben-David, P Wolf, A Ramey, C Verdugo, K Lyons, P Parker, and L Kruglyak, A genetic signature of the evolution of loss of flight in the Galapagos cormorant. Science. 2017; 356 [link to publication]

E Ben-David, A Burga, L Kruglyak, A maternal-effect selfish genetic element in Caenorhabditis elegans. Science. 2017; Jun 9;356(6342):1051-1055. doi: 10.1126/science.aan0621 [link to publication]

MJ Sadhu, JS Bloom, L Day, L Kruglyak CRISPR-directed mitotic recombination enables genetic mapping without crosses. Science. 2016; Vol. 352, Issue 6289, pp. 1113-1116 DOI: 10.1126/science.aaf5124. [link to publication]

FW Albert, L Kruglyak The role of regulatory variation in complex traits and disease Nature Reviews Genetics (2015), doi:10.1038/nrg3891. [link to publication]

KM Balla, EC Andersen, L Kruglyak, ER Troemel A Wild C. Elegans Strain Has Enhanced Epithelial Immunity to a Natural Microsporidian Parasite PLoS pathogens (2015) 11 (2), e1004583-e1004583. [link to publication]

S Treusch, FW Albert, JS Bloom, IE Kotenko, L Kruglyak Genetic Mapping of MAPK-Mediated Complex Traits Across S. cerevisiae PLoS Genetics (2015) 11 (1), e1004913. [link to publication]

X Wang, L Kruglyak Genetic Basis of Haloperidol Resistance in Saccharomyces cerevisiae Is Complex and Dose Dependent PLoS Genetics (2014) 10 (12), e1004894. [link to publication]

Albert FW, Muzzey D, Weissman J, and Kruglyak L Genetic influences on translation in yeast PLoS Genetics (2014) 10 (10), e1004692. [link to publication]

Heyne HO, Lautenschl?ger S, Nelson R, Besnier F, Rotival M, Cagan A, Kozhemyakina R, Plyusnina IZ, Trut L, Carlborg ?, Petretto E, Kruglyak L, P??bo S, Sch?neberg T, Albert FW Genetic Influences on Brain Gene Expression in Rats Selected for Tameness and Aggression Genetics (2014) 198 (3): 1277-1290. [link to publication]

JS Breunig, SR Hackett, JD Rabinowitz, L Kruglyak. (2014) Genetic basis of metabolome variation in yeast. PLoS genetics 10 (3), e1004142. [link to publication]

EC Andersen, JS Bloom, JP Gerke, L Kruglyak. (2014) A Variant in the Neuropeptide Receptor npr-1 is a Major Determinant of Caenorhabditis elegans Growth and Physiology. PLoS genetics 10 (2), e1004156. [link to publication]

FW Albert, S Treusch, AH Shockley, JS Bloom, L Kruglyak. (2014) Genetics of single-cell protein abundance variation in large yeast populations. Nature 506 (7489), 494-497. [link to publication]

C Reisser, C Dick, L Kruglyak, D Botstein, J Schacherer, DC Hess. (2013) Genetic basis of ammonium toxicity resistance in a sake strain of yeast: a Mendelian case. G3: Genes| Genomes| Genetics 3 (4), 733-740. [link to publication]

EX Kwan, EJ Foss, S Tsuchiyama, GM Alvino, L Kruglyak, M Kaeberlein, MK Raghuraman, BJ Brewer, BK Kennedy, A Bedalov. (2013) A natural polymorphism in rDNA replication origins links origin activation with calorie restriction and lifespan. PLoS genetics 9 (3), e1003329. [link to publication]

J.S Bloom, I.M. Ehrenreich, W. Loo, T.L. Vo Lite and L. Kruglyak. (2013) Finding the sources of missing heritability in a yeast cross. Nature 494, 234-237. [link to publication]

A. Bendesky, J. Pitts, M.V. Rockman, L. Kruglyak and C.I. Bargmann (2012). Long-range regulatory polymorphisms affecting a GABA receptor constitute a quantitative trait locus (QTL) for social behavior in C. elegans. PLoS Genetics 8(12):e1003157. [link to publication]

B.E. Gaertner, M.R. Parmenter, M.V. Rockman, L. Kruglyak and P.C. Phillips (2012). More than the sum of its parts: a complex epistatic network underlies natural variation in thermal preference behavior in Caenorhabditis elegans. Genetics 192:1533-42. [link to publication]

R. Ghosh, A. Mohammadi, L. Kruglyak, W.S. Ryu. (2012) Multiparameter behavioral profiling reveals distinct thermal response regimes in Caenorhabditis elegans. BMC Biol. 2012 Oct 31;10 (1):85. [Epub ahead of print] [link to publication]

Z. Khan, J.S. Bloom, S. Amini, M. Singh, D.H. Perlman, A.A. Caudy and L. Kruglyak (2012). Quantitative measurement of allele specific protein expression in a diploid yeast hybrid by LC-MS. Mol. Syst. Biol 8:602. [link to publication]

M. L. Reaves, S. Sinha, J. Rabinowitz, L. Kruglyak, R.J. Redfield (2012) Absence of Detectable Arsenate in DNA from Arsenate-Grown GFAJ-1 Cells. Science 337, 470-473. [link to publication]

I.M. Ehrenreich, J.S. Bloom, N. Torabi, X. Wang, Y. Jia and L. Kruglyak (2012). Genetic architecture of highly complex chemical resistance traits across four yeast strains. PLoS Genetics e1002570. Published online 15 March 2012.[link to publication]

N. Torabi, L. Kruglyak (2012) Genetic Basis of Hidden Phenotypic Variation Revealed by Increased Translational Readthrough in Yeast. PLoS Genetics 8(3) e1002546. [link to publication]

R. Ghosh, E.C. Andersen, J.A. Shapiro, J.P. Gerke, L. Kruglyak. (2012) Natural variation in a chloride channel subunit confers avermectin resistance in C. elegans. Science Feb 3. 335(6068):574-8. [link to publication][link to reprints]

E.C. Andersen, J.P. Gerke, J.A. Shapiro, J.R. Crissman, R. Ghosh, J.S. Bloom, M.A. F?lix, L. Kruglyak. (2012) Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity. Nat Genet. Jan. 29 doi: 10.1038/ng.1050. [Epub ahead of print] [link to publication]

E.J. Foss, D. Radulovic, S.A. Shaffer, D.R. Goodlett, L. Krugylak and A. Bedalov (2011). Natural genetic variation shapes protein networks mainly through non-transcriptional mechanisms. PLoS Biology 9(9): e1001144. [link to publication]

E.X. Kwan, E. Foss, L. Kruglyak and A. Bedalov (2011). Natural polymorphism in BUL2 links cellular amino acid availability with chronological aging and telomere maintenance in yeast. PLoS Genetics 7(8): e1002250. [link to publication][Full Text] N. Torabi and L. Kruglyak (2011). Variants in SUP45 and TRM10 underlie natural variation in translation termination efficiency inS. cerevisiae. PLoS Genetics 7(7): e1002211. [link to publication]

H.S. Seidel, M. Ailion, J. Li, A. van Oudenaarden, M.V. Rockman and L. Kruglyak (2011). A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion in C. elegans. PLoS Biology 9(7): e1001115. doi:10.1371/ journal.pbio.1001115. [link to publication]

A. Bendesky, M. Tsunozaki, M. V. Rockman, L. Kruglyak, C. I. Bargmann. (2011) Catecholamine receptor polymorphisms affect decision-making in C. elegans. Nature. April 21. [Full Text]

Z. Khan, S. Amini, J.S. Bloom, C. Ruse, A.A. Caudy, L. Kruglyak, M. Singh, D.H. Perlman and S. Tavazoie. (2011) Accurate proteome-wide protein quantification from high-resolution 15N mass spectra. Genome Biol. 12(12):R122. [link to publication]

M. V. Rockman, S. Skrovanek, L. Kruglyak. (2010) Selection at linked sites shapes heritable phenotypic variation in C. elegans. Science. Oct. 15; 330(6002):372-6. [link to publication] [Full Text]

I. M. Ehrenreich, N. Torabi, Y. Jia, J. Kent, S. Martis, J. A. Shapiro, D. Gresham, A. A. Caudy, L. Kruglyak. (2010) Dissection of genetically complex traits with extremely large pools of yeast segregants. Nature Letter, April 15. [link to publication] [Full Text].

D. Gresham, B. Curry, A. Ward, D.B. Gordon, L. Brizuela, L. Kruglyak, D. Botstein. (2010) Optimized detection of sequence variation in heterozygous genomes using DNA microarrays with isothermal-melting probes. Proc Natl Acad Sci USA. Jan 8. [link to publication] [Full Text].

T. A. Manolio, F. S. Collins, N. J. Cox, D. B. Goldstein, L. A. Hindorff, D. J. Hunter, M. I. McCarthy, E. M. Ramos, L. R. Cardon, A. Chakravarti, J. H. Cho, A. E. Guttmacher, A. Kong, L. Kruglyak, E. Mardis, C. N. Rotimi, M. Slatkin, D. Valle, A. S. Whittemore, M. Boehnke, A. G. Clark, E. E. Eichler, G. Gibson, J. L. Haines, T. F. C. Mackay, S. A. McCarroll & P. M. Visscher (2009) Finding the Missing Heritability of Complex Diseases, Nature, Oct 8 [link to publication].

L.N. Dimitrov, R.B. Brem, L. Kruglyak, D.E. Gottschling. (2009) Polymorphisms in Multiple Genes Contribute to the Spontaneous Mitochondrial Genome Instability of Saccharomyces cerevisiae S288C Strains. Genetics. Jul 6. [Full Text]

L. Kruglyak, J.D. Storey. (2009) Cause and express. Nat Biotechnol. 2009 Jun;27(6):544-5. [link to publication]

J.S. Bloom, Z. Khan, L. Kruglyak, M. Singh, A.A. Caudy. (2009) Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays. BMC Genomics. May 12;10:221. [link to publication]

Z. Khan, J. S. Bloom, L. Kruglyak, M. Singh (2009). A Practical Algorithm for Finding Maximal Exact Matches in Large Sequence Data Sets Using Sparse Suffix Arrays; Bioinformatics 2009; doi:10.1093/ bioinformatics/btp275 [link to publication]

P.T. McGrath, M.V. Rockman, M. Zimmer, H. Jang, E.Z. Macosko, L. Kruglyak and C.I. Bargmann (2009). Quantitative mapping of a digenic behavioral trait implicates globin variation in C. elegans sensory behaviors. Neuron Mar 12;61(5):692-9. [link to abstract]

M.V. Rockman and L. Kruglyak (2009). Recombinational Landscape and Population Genomics of C. elegans. PLoS Genetics. Mar;5(3):e1000419. [link to publication]

J. Schacherer, J.A. Shapiro, D.M. Ruderfer and L. Kruglyak (2009). Comprehensive polymorphism survey elucidates population structure of S. cerevisiae. Nature. Mar 19;458(7236):342-5. [link to publication] [link to commentary in Nature Highlights]

K.C. Reddy, E.C. Andersen, L. Kruglyak, D.H. Kim. (2009) A polymorphism in npr-1 is a behavioral determinant of pathogen susceptibility in C. elegans.Science. Jan 16;323(5912):382-4. [link to publication]

M.F. Palopoli, M.V. Rockman, A. TinMaung, C. Ramsey, S. Curwen, A. Aduna, J. Laurita and L. Kruglyak (2008). Molecular basis of the copulatory plug polymorphism in C. elegans. Nature Aug 21;454(7207):1019-22. [link to publication] [links to commentary in Current Biology and on Gene Expression blog]

A. Demogines, E.N. Smith, L. Kruglyak and E. Alani (2008). Identification and dissection of a complex DNA repair sensitivity phenotype in bakers yeast.PLoS Genetics. Jul 11;4(7):e1000123. [link to publication]

J. Zhu, B. Zhang, E.N. Smith, B. Drees, R. Brem, L. Kruglyak, R. Bumgarner and E.E. Schadt (2008). Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nat. Genet. (published online 15 June 2008; doi:10.1038/ng.167). [link to publication]

M.V. Rockman and L. Kruglyak (2008). Breeding designs for recombinant inbred advanced intercross lines. Genetics (published online May 27, 2008; doi:10.1534/genetics.107.083873). [link to publication]

E.N. Smith and L. Kruglyak (2008). Gene-environment interaction in yeast gene expression. PLoS Biol 6(4): e83. doi:10.1371/journal.pbio.0060083. [link to publication]

L. Kruglyak (2008). The road to genome-wide association studies. Nat. Rev. Genet. 9:314-318 (published online 19 February 2008; doi:10.1038/nrg2316). [link to publication]

H.S. Seidel, M.V. Rockman and L. Kruglyak (2008). Widespread genetic incompatibility in C. elegans maintained by balancing selection. Science319:589-594 (published online on Science Express January 10, 2008; doi:10.1126/science.1151107). [link to publication] [links to commentaries: Nature Reviews Genetics, Nature, This Week in Science, Nature Highlights]

E.J. Foss, D. Radulovic, S.A. Shaffer, D.M. Ruderfer, A. Bedalov, D.R. Goodlett and L. Kruglyak (2007). Genetic basis of proteome variation in yeast. Nat. Genet. 39:1369-1375 (published online 21 October 2007; doi:10.1038/ng.2007.22). [link to publication]

J. Schacherer, D. Ruderfer, D. Gresham, K. Dolinski, D. Botstein and L. Kruglyak (2007). Genome-wide analysis of nucleotide-level variation in commonly used Saccharomyces cerevisiae strains. PLoS ONE 2(3): e322. doi:10.1371/journal.pone.0000322. [link to publication]

Perlstein, Ruderfer, Roberts, Schreiber, Kruglyak (2007). Genetic basis of individual differences in the response to small-molecule drugs in yeast. Nat. Genet. 39:496-502. [link to publication]

Rockman, Kruglyak (2006). Genetics of global gene expression. Nat. Rev. Genet. 7:862-72. [link to publication]

Ruderfer, Pratt, Seidel, Kruglyak (2006). Population genomic analysis of outcrossing and recombination in yeast. Nat. Genet. 38:1077-1081. [link to publication]

Riehle, Markianos, Niare, Xu, Li, Toure, Podiougou, Oduol, Diawara, Diallo, Coulibaly, Ouatara, Kruglyak, Traore, Vernick (2006). Natural malaria parasite infection in Anopheles gambiae is regulated by a single genomic control region. Science 312:577-579. [link to publication]

Gresham, Ruderfer, Pratt, Schacherer, Dunham, Botstein, Kruglyak (2006). Genome-wide detection of polymorphisms at nucleotide resolution with a single DNA microarray. Science 311:1932-1936. [link to publication]

Perlstein, Ramachandran, Ruderfer, Haggarty, Kruglyak, Schreiber (2006). Revealing complex traits using small molecules and naturally recombinant yeast strains. Chem Biol. 13:319-327. [link to publication]

Kruglyak (2005). Power tools for human genetics. Nature Genet. 37:1299-1300. [link to publication]

Ronald, Brem, Whittle, Kruglyak (2005). Local regulatory variation in Saccharomyces cerevisiae. PLoS Genetics 1(2):e25. [link to publication]

Storey, Akey, Kruglyak (2005). Multiple locus linkage analysis of genomewide expression in yeast. PLoS Biol. 3(8):e267. [link to publication]

Brem, Storey, Whittle, Kruglyak (2005). Genetic interactions between polymorphisms that affect gene expression in yeast. Nature 436:701-703. [link to publication]

Brem, Kruglyak (2005). The landscape of genetic complexity across 5,700 gene expression traits in yeast. Proc. Natl. Acad. Sci. USA 102:5 1572-1577. [link to publication]

Ronald, Akey, Whittle, Smith, Yvert, Kruglyak (2005). Simultaneous genotyping, gene expression measurement, and detection of allele-specific expression with oligonucleotide arrays. Genome Res. 12:284-291. [link to publication]

Akey, Eberle, Rieder, Carlson, Shriver, Nickerson, Kruglyak. (2004). Population history and natural selection shape patterns of genetic variation in 132 genes. PLoS Biol. 2(10):e286. [link to publication]

Parker, Kim, Sutter, Carlson, Lorentzen, Johnson, DeFrance, Ostrander, Kruglyak (2004). Genetic structure of the purebred domestic dog. Science304:1160-1164. [link to publication]

Carlson, Eberle, Kruglyak, Nickerson (2004). Mapping complex disease loci in whole-genome association studies. Nature 429:446-452. [link to publication]

The International HapMap Consortium (2003). The International HapMap Project. Nature 426:789-796. [link to publication]

Yvert, Brem, Whittle, Akey, Foss, Smith, Mackelprang, Kruglyak (2003). Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nat. Genet. 35:57-64. [link to publication]

Carlson, Eberle, Rieder, Smith, Kruglyak, Nickerson (2003) Additional SNPs and linkage-disequilibrium analyses are necessary for whole-genome association studies in humans. Nat Genet 33:518-521. [link to publication]

Niar?, Markianos, Volz, Oduol, Tour?, Bagayoko, Sangar?, Traor?, Wang, Blass, Dolo, Bouar?, Kafatos, Kruglyak, Tour?, Vernick (2002) Genetic loci affecting resistance to human malaria parasites in a West African mosquito vector population. Science 298: 213-216. [link to publication]

Brem, Yvert, Clinton, Kruglyak (2002) Genetic dissection of transcriptional regulation in budding yeast. Science 296:752-755. [link to publication]

Eberle, Pf?tzer, Pogue-Geile, Bronner, Crispin, Kimmey, Duerr, Kruglyak, Whitcomb, Brentnall (2002) A new susceptibility locus for autosomal dominant pancreatic cancer maps to chromosome 4q32-34. Am J Hum Genet 70:1044-1048. [link to publication]

Ardlie, Liu-Cordero, Eberle, Daly, Barrett, Winchester, Lander, Kruglyak (2001) Lower-than-expected linkage disequilibrium between tightly linked markers in humans suggests a role for gene conversion. Am J Hum Genet69:582-589. [link to publication]

Kruglyak, Nickerson (2001) Variation is the spice of life. Nature Genetics27:234-236. [link to publication]

Kruglyak (1999) Prospects for whole-genome linkage disequilibrium mapping of common disease genes. Nat Genet 22:139. [link to publication]

Kruglyak (1997) The use of a genetic map of biallelic markers in linkage studies. Nat Genet 17:21 [link to publication]

Kruglyak, Daly, Reeve-Daly, Lander (1996) Parametric and nonparametric linkage analysis: A unified multipoint approach. Am J Hum Genet 58:1347. [link to publication]

Lander, Kruglyak (1995) Genetic dissection of complex traits: Guidelines for interpreting and reporting linkage results. Nat Genet 11:241. [link to publication]