Peter Keightley - Publications

Affiliations: 
Intitute of Evolutionary Biology University of Edinburgh, Edinburgh, Scotland, United Kingdom 

80 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Craig RJ, Böndel KB, Arakawa K, Nakada T, Ito T, Bell G, Colegrave N, Keightley PD, Ness RW. Patterns of population structure and complex haplotype sharing among field isolates of the green alga Chlamydomonas reinhardtii. Molecular Ecology. PMID 31338894 DOI: 10.1111/mec.15193  0.64
2019 Böndel KB, Kraemer SA, Samuels T, McClean D, Lachapelle J, Ness RW, Colegrave N, Keightley PD. Inferring the distribution of fitness effects of spontaneous mutations in Chlamydomonas reinhardtii. Plos Biology. 17: e3000192. PMID 31242179 DOI: 10.1371/journal.pbio.3000192  0.64
2018 Booker TR, Keightley PD. Understanding the factors that shape patterns of nucleotide diversity in the house mouse genome. Molecular Biology and Evolution. PMID 30295866 DOI: 10.1093/molbev/msy188  0.44
2017 Booker TR, Jackson BC, Keightley PD. Detecting positive selection in the genome. Bmc Biology. 15: 98. PMID 29084517 DOI: 10.1186/s12915-017-0434-y  0.44
2017 Kraemer S, Böndel KB, Ness RW, Keightley PD, Colegrave N. Fitness change in relation to mutation number in spontaneous mutation accumulation lines of Chlamydomonas reinhardtii. Evolution; International Journal of Organic Evolution. PMID 28884790 DOI: 10.1111/evo.13360  0.64
2017 Booker TR, Ness RW, Keightley PD. The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data. Genetics. PMID 28751421 DOI: 10.1534/genetics.117.300063  0.64
2016 Puckett EE, Park J, Combs M, Blum MJ, Bryant JE, Caccone A, Costa F, Deinum EE, Esther A, Himsworth CG, Keightley PD, Ko A, Lundkvist Å, McElhinney LM, Morand S, et al. Global population divergence and admixture of the brown rat (Rattus norvegicus). Proceedings. Biological Sciences. 283. PMID 27798305 DOI: 10.1098/rspb.2016.1762  0.32
2016 Keightley PD, Campos JL, Booker TR, Charlesworth B. Inferring the Frequency Spectrum of Derived Variants to Quantify Adaptive Molecular Evolution in Protein-Coding Genes of Drosophila melanogaster. Genetics. PMID 27098912 DOI: 10.1534/genetics.116.188102  0.44
2015 Kraemer SA, Morgan AD, Ness RW, Keightley PD, Colegrave N. Fitness effects of new mutations in Chlamydomonas reinhardtii across two stress gradients. Journal of Evolutionary Biology. PMID 26663473 DOI: 10.1111/jeb.12807  0.64
2015 Ness RW, Kraemer SA, Colegrave N, Keightley PD. Direct estimate of the spontaneous mutation rate uncovers the effects of drift and recombination in the Chlamydomonas reinhardtii plastid genome. Molecular Biology and Evolution. PMID 26615203 DOI: 10.1093/molbev/msv272  0.64
2015 Caballero A, Tenesa A, Keightley PD. The Nature of Genetic Variation for Complex Traits Revealed by GWAS and Regional Heritability Mapping Analyses. Genetics. PMID 26482794 DOI: 10.1534/genetics.115.177220  0.64
2015 Wiberg RA, Halligan DL, Ness RW, Necsulea A, Kaessmann H, Keightley PD. Assessing Recent Selection and Functionality at Long Noncoding RNA Loci in the Mouse Genome. Genome Biology and Evolution. 7: 2432-44. PMID 26272717 DOI: 10.1093/gbe/evv155  0.96
2015 Ness RW, Morgan AD, Vasanthakrishnan RB, Colegrave N, Keightley PD. Extensive de novo mutation rate variation between individuals and across the genome of Chlamydomonas reinhardtii. Genome Research. 25: 1739-49. PMID 26260971 DOI: 10.1101/gr.191494.115  0.64
2015 Deinum EE, Halligan DL, Ness RW, Zhang YH, Cong L, Zhang JX, Keightley PD. Recent Evolution in Rattus norvegicus Is Shaped by Declining Effective Population Size. Molecular Biology and Evolution. PMID 26037536 DOI: 10.1093/molbev/msv126  0.64
2015 Keightley PD, Pinharanda A, Ness RW, Simpson F, Dasmahapatra KK, Mallet J, Davey JW, Jiggins CD. Estimation of the spontaneous mutation rate in Heliconius melpomene. Molecular Biology and Evolution. 32: 239-43. PMID 25371432 DOI: 10.1093/molbev/msu302  0.64
2015 Katju V, Packard LB, Bu L, Keightley PD, Bergthorsson U. Fitness decline in spontaneous mutation accumulation lines of Caenorhabditis elegans with varying effective population sizes. Evolution; International Journal of Organic Evolution. 69: 104-16. PMID 25338758 DOI: 10.1111/evo.12554  0.64
2015 Keightley PD, Pinharanda A, Ness RW, Simpson F, Dasmahapatra KK, Mallet J, Davey JW, Jiggins CD. Estimation of the Spontaneous Mutation Rate in Heliconius melpomene Molecular Biology and Evolution. 32: 239-243. DOI: 10.1093/molbev/msu302  0.64
2014 Morgan AD, Ness RW, Keightley PD, Colegrave N. Spontaneous mutation accumulation in multiple strains of the green alga, Chlamydomonas reinhardtii. Evolution; International Journal of Organic Evolution. 68: 2589-602. PMID 24826801 DOI: 10.1111/evo.12448  0.64
2014 Kousathanas A, Halligan DL, Keightley PD. Faster-X adaptive protein evolution in house mice. Genetics. 196: 1131-43. PMID 24361937 DOI: 10.1534/genetics.113.158246  1
2014 Keightley PD, Ness RW, Halligan DL, Haddrill PR. Estimation of the spontaneous mutation rate per nucleotide site in a Drosophila melanogaster full-sib family. Genetics. 196: 313-20. PMID 24214343 DOI: 10.1534/genetics.113.158758  0.96
2013 Halligan DL, Kousathanas A, Ness RW, Harr B, Eöry L, Keane TM, Adams DJ, Keightley PD. Contributions of protein-coding and regulatory change to adaptive molecular evolution in murid rodents. Plos Genetics. 9: e1003995. PMID 24339797 DOI: 10.1371/journal.pgen.1003995  0.64
2013 Kousathanas A, Keightley PD. A comparison of models to infer the distribution of fitness effects of new mutations. Genetics. 193: 1197-208. PMID 23341416 DOI: 10.1534/genetics.112.148023  1
2012 Ness RW, Zhang YH, Cong L, Wang Y, Zhang JX, Keightley PD. Nuclear gene variation in wild brown rats. G3 (Bethesda, Md.). 2: 1661-4. PMID 23275888 DOI: 10.1534/g3.112.004713  0.64
2012 Hartfield M, Otto SP, Keightley PD. The maintenance of obligate sex in finite, structured populations subject to recurrent beneficial and deleterious mutation Evolution. 66: 3658-3669. PMID 23206126 DOI: 10.1111/j.1558-5646.2012.01733.x  0.64
2012 Ness RW, Morgan AD, Colegrave N, Keightley PD. Estimate of the spontaneous mutation rate in Chlamydomonas reinhardtii. Genetics. 192: 1447-54. PMID 23051642 DOI: 10.1534/genetics.112.145078  0.64
2012 Hartfield M, Keightley PD. Current hypotheses for the evolution of sex and recombination. Integrative Zoology. 7: 192-209. PMID 22691203 DOI: 10.1111/j.1749-4877.2012.00284.x  1
2012 Lesecque Y, Keightley PD, Eyre-Walker A. A resolution of the mutation load paradox in humans. Genetics. 191: 1321-30. PMID 22661324 DOI: 10.1534/genetics.112.140343  0.36
2012 Gossmann TI, Keightley PD, Eyre-Walker A. The effect of variation in the effective population size on the rate of adaptive molecular evolution in eukaryotes. Genome Biology and Evolution. 4: 658-67. PMID 22436998 DOI: 10.1093/gbe/evs027  0.36
2012 Keightley PD, Eyre-Walker A. Estimating the rate of adaptive molecular evolution when the evolutionary divergence between species is small. Journal of Molecular Evolution. 74: 61-8. PMID 22327123 DOI: 10.1007/s00239-012-9488-1  0.36
2011 Schneider A, Charlesworth B, Eyre-Walker A, Keightley PD. A method for inferring the rate of occurrence and fitness effects of advantageous mutations. Genetics. 189: 1427-37. PMID 21954160 DOI: 10.1534/genetics.111.131730  0.64
2011 Keightley PD, Halligan DL. Inference of site frequency spectra from high-throughput sequence data: quantification of selection on nonsynonymous and synonymous sites in humans. Genetics. 188: 931-40. PMID 21596896 DOI: 10.1534/genetics.111.128355  0.96
2011 Halligan DL, Oliver F, Guthrie J, Stemshorn KC, Harr B, Keightley PD. Positive and negative selection in murine ultraconserved noncoding elements. Molecular Biology and Evolution. 28: 2651-60. PMID 21478460 DOI: 10.1093/molbev/msr093  0.96
2011 Keightley PD, Eöry L, Halligan DL, Kirkpatrick M. Inference of mutation parameters and selective constraint in mammalian coding sequences by approximate Bayesian computation. Genetics. 187: 1153-61. PMID 21288873 DOI: 10.1534/genetics.110.124073  0.64
2011 Kousathanas A, Oliver F, Halligan DL, Keightley PD. Positive and negative selection on noncoding DNA close to protein-coding genes in wild house mice. Molecular Biology and Evolution. 28: 1183-91. PMID 21059791 DOI: 10.1093/molbev/msq299  1
2010 Keightley PD, Eyre-Walker A. What can we learn about the distribution of fitness effects of new mutations from DNA sequence data? Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 365: 1187-93. PMID 20308093 DOI: 10.1098/rstb.2009.0266  0.36
2010 Hartfield M, Otto SP, Keightley PD. The role of advantageous mutations in enhancing the evolution of a recombination modifier Genetics. 184: 1153-1164. PMID 20139345 DOI: 10.1534/genetics.109.112920  0.64
2010 Halligan DL, Oliver F, Eyre-Walker A, Harr B, Keightley PD. Evidence for pervasive adaptive protein evolution in wild mice. Plos Genetics. 6: e1000825. PMID 20107605 DOI: 10.1371/journal.pgen.1000825  0.96
2010 Eory L, Halligan DL, Keightley PD. Distributions of selectively constrained sites and deleterious mutation rates in the hominid and murid genomes. Molecular Biology and Evolution. 27: 177-92. PMID 19759235 DOI: 10.1093/molbev/msp219  0.96
2009 Marion de Procé S, Halligan DL, Keightley PD, Charlesworth B. Patterns of DNA-sequence divergence between Drosophila miranda and D. pseudoobscura. Journal of Molecular Evolution. 69: 601-11. PMID 19859648 DOI: 10.1007/s00239-009-9298-2  0.64
2009 Eyre-Walker A, Keightley PD. Estimating the rate of adaptive molecular evolution in the presence of slightly deleterious mutations and population size change. Molecular Biology and Evolution. 26: 2097-108. PMID 19535738 DOI: 10.1093/molbev/msp119  0.36
2009 Keightley PD, Trivedi U, Thomson M, Oliver F, Kumar S, Blaxter ML. Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines. Genome Research. 19: 1195-201. PMID 19439516 DOI: 10.1101/gr.091231.109  0.64
2009 Keightley PD, Halligan DL. Analysis and implications of mutational variation. Genetica. 136: 359-69. PMID 18663587 DOI: 10.1007/s10709-008-9304-4  0.96
2008 Gaffney DJ, Keightley PD. Effect of the assignment of ancestral CpG state on the estimation of nucleotide substitution rates in mammals. Bmc Evolutionary Biology. 8: 265. PMID 18826599 DOI: 10.1186/1471-2148-8-265  0.64
2008 Haag-Liautard C, Coffey N, Houle D, Lynch M, Charlesworth B, Keightley PD. Direct estimation of the mitochondrial DNA mutation rate in Drosophila melanogaster. Plos Biology. 6: e204. PMID 18715119 DOI: 10.1371/journal.pbio.0060204  0.64
2008 Haag-Liautard C, Dorris M, Maside X, MacAskill S, Halligan DL, Houle D, Charlesworth B, Keightley PD. Direct estimation of per nucleotide and genomic deleterious mutation rates in Drosophila (Nature (2007) 445, (82-85)) Nature. 453: 128. DOI: 10.1038/nature06946  0.64
2007 Keightley PD, Eyre-Walker A. Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies. Genetics. 177: 2251-61. PMID 18073430 DOI: 10.1534/genetics.107.080663  0.36
2007 Wang J, Keightley PD, Halligan DL. Effect of divergence time and recombination rate on molecular evolution of Drosophila INE-1 transposable elements and other candidates for neutrally evolving sites. Journal of Molecular Evolution. 65: 627-39. PMID 17896069 DOI: 10.1007/s00239-007-9028-6  0.96
2007 Eyre-Walker A, Keightley PD. The distribution of fitness effects of new mutations. Nature Reviews. Genetics. 8: 610-8. PMID 17637733 DOI: 10.1038/nrg2146  0.36
2007 Haag-Liautard C, Dorris M, Maside X, Macaskill S, Halligan DL, Houle D, Charlesworth B, Keightley PD. Direct estimation of per nucleotide and genomic deleterious mutation rates in Drosophila. Nature. 445: 82-5. PMID 17203060 DOI: 10.1038/nature05388  0.64
2006 Gaffney DJ, Keightley PD. Genomic selective constraints in murid noncoding DNA. Plos Genetics. 2: e204. PMID 17166057 DOI: 10.1371/journal.pgen.0020204  0.64
2006 Keightley PD, Otto SP. Interference among deleterious mutations favours sex and recombination in finite populations Nature. 443: 89-92. PMID 16957730 DOI: 10.1038/nature05049  0.64
2006 Halligan DL, Keightley PD. Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison. Genome Research. 16: 875-84. PMID 16751341 DOI: 10.1101/gr.5022906  0.96
2006 Keightley PD, Lercher MJ, Eyre-Walker A. Understanding the degradation of hominid gene control. Plos Computational Biology. 2: e19; author reply e2. PMID 16604186 DOI: 10.1371/journal.pcbi.0020019  0.64
2005 Keightley PD, Kryukov GV, Sunyaev S, Halligan DL, Gaffney DJ. Evolutionary constraints in conserved nongenic sequences of mammals. Genome Research. 15: 1373-8. PMID 16204190 DOI: 10.1101/gr.3942005  0.64
2005 Gaffney DJ, Keightley PD. The scale of mutational variation in the murid genome. Genome Research. 15: 1086-94. PMID 16024822 DOI: 10.1101/gr.3895005  0.64
2005 Oliver F, Christians JK, Liu X, Rhind S, Verma V, Davison C, Brown SD, Denny P, Keightley PD. Regulatory variation at glypican-3 underlies a major growth QTL in mice. Plos Biology. 3: e135. PMID 15799711 DOI: 10.1371/journal.pbio.0030135  0.48
2005 Marais G, Nouvellet P, Keightley PD, Charlesworth B. Intron size and exon evolution in Drosophila. Genetics. 170: 481-5. PMID 15781704 DOI: 10.1534/genetics.104.037333  0.64
2005 Keightley PD, Lercher MJ, Eyre-Walker A. Evidence for widespread degradation of gene control regions in hominid genomes. Plos Biology. 3: e42. PMID 15678168 DOI: 10.1371/journal.pbio.0030042  0.64
2005 Keightley PD, Charlesworth B. Genetic instability of C. elegans comes naturally. Trends in Genetics : Tig. 21: 67-70. PMID 15661349 DOI: 10.1016/j.tig.2004.11.015  0.64
2005 Stylianou IM, Clinton M, Keightley PD, Pritchard C, Tymowska-Lalanne Z, Bünger L, Horvat S. Microarray gene expression analysis of the Fob3b obesity QTL identifies positional candidate gene Sqle and perturbed cholesterol and glycolysis pathways. Physiological Genomics. 20: 224-32. PMID 15598878 DOI: 10.1152/physiolgenomics.00183.2004  0.64
2005 Charlesworth B, Keightley P, Visscher P. Introduction: Population genetics, quantitative genetics and animal improvement: Papers in honour of William (Bill) Hill Philosophical Transactions of the Royal Society B: Biological Sciences. 360: 1365-1366. DOI: 10.1098/rstb.2005.1678  0.64
2004 Wesche PL, Gaffney DJ, Keightley PD. DNA sequence error rates in Genbank records estimated using the mouse genome as a reference. Dna Sequence : the Journal of Dna Sequencing and Mapping. 15: 362-4. PMID 15621661 DOI: 10.1080/10425170400008972  0.64
2004 Gaffney DJ, Keightley PD. Unexpected conserved non-coding DNA blocks in mammals. Trends in Genetics : Tig. 20: 332-7. PMID 15262402 DOI: 10.1016/j.tig.2004.06.011  0.64
2004 Stylianou IM, Christians JK, Keightley PD, Bünger L, Clinton M, Bulfield G, Horvat S. Genetic complexity of an obesity QTL ( Fob3) revealed by detailed genetic mapping. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 15: 472-81. PMID 15181539 DOI: 10.1007/s00335-004-3039-z  0.64
2004 Halligan DL, Eyre-Walker A, Andolfatto P, Keightley PD. Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila. Genome Research. 14: 273-9. PMID 14762063 DOI: 10.1101/gr.1329204  0.64
2003 Halligan DL, Peters AD, Keightley PD. Estimating numbers of EMS-induced mutations affecting life history traits in Caenorhabditis elegans in crosses between inbred sublines. Genetical Research. 82: 191-205. PMID 15134198  0.96
2003 Keightley PD, Gaffney DJ. Functional constraints and frequency of deleterious mutations in noncoding DNA of rodents. Proceedings of the National Academy of Sciences of the United States of America. 100: 13402-6. PMID 14597721 DOI: 10.1073/pnas.2233252100  0.64
2003 Keightley PD, Lynch M. Toward a realistic model of mutations affecting fitness Evolution. 57: 683-685. PMID 12703958  0.64
2003 Halligan DL, Keightley PD. How many lethal alleles? Trends in Genetics : Tig. 19: 57-9. PMID 12547508 DOI: 10.1016/S0168-9525(02)00045-8  0.96
2002 Eyre-Walker A, Keightley PD, Smith NG, Gaffney D. Quantifying the slightly deleterious mutation model of molecular evolution. Molecular Biology and Evolution. 19: 2142-9. PMID 12446806  0.36
2002 Azevedo RB, Keightley PD, Laurén-Määttä C, Vassilieva LL, Lynch M, Leroi AM. Spontaneous mutational variation for body size in Caenorhabditis elegans. Genetics. 162: 755-65. PMID 12399386  0.64
2002 Barton NH, Keightley PD. Understanding quantitative genetic variation. Nature Reviews. Genetics. 3: 11-21. PMID 11823787 DOI: 10.1038/nrg700  0.64
1999 Fry JD, Keightley PD, Heinsohn SL, Nuzhdin SV. New estimates of the rates and effects of mildly deleterious mutation in Drosophila melanogaster. Proceedings of the National Academy of Sciences of the United States of America. 96: 574-9. PMID 9892675 DOI: 10.1073/pnas.96.2.574  0.64
1998 Nuzhdin SV, Keightley PD, Pasyukova EG, Morozova EA. Mapping quantitative trait loci affecting sternopleural bristle number in Drosophila melanogaster using changes of marker allele frequencies in divergently selected lines. Genetical Research. 72: 79-91. PMID 9883095 DOI: 10.1017/S001667239800336X  0.64
1998 Rance KA, Hill WG, Keightley PD. Mapping quantitative trait loci for body weight on the X chromosome in mice. I. Analysis of a reciprocal F2 population. Genetical Research. 70: 117-24. PMID 9449188 DOI: 10.1017/S0016672397002917  0.32
1995 Caballero A, Keightley PD, Hill WG. Accumulation of mutations affecting body weight in inbred mouse lines. Genetical Research. 65: 145-9. PMID 7781996 DOI: 10.1017/S0016672300033152  0.36
1993 Nuzhdin SV, Keightley PD, Pasyukova EG. The use of retrotransposons as markers for mapping genes responsible for fitness differences between related Drosophila melanogaster strains. Genetical Research. 62: 125-31. PMID 8276230 DOI: 10.1017/S0016672300031712  0.64
1989 Keightley PD, Hill WG. Quantitative genetic variability maintained by mutation-stabilizing selection balance: sampling variation and response to subsequent directional selection. Genetical Research. 54: 45-57. PMID 2806906 DOI: 10.1017/s0016672300028366  0.68
1988 Keightley PD, Hill WG. Quantitative genetic variability maintained by mutation-stabilizing selection balance in finite populations. Genetical Research. 52: 33-43. PMID 3181758 DOI: 10.1017/S0016672300027282  0.4
1984 Keightley PD, Hill WG. Effects of linkage on response to directional selection from new mutations. Genetical Research. 42: 193-206. PMID 6667853 DOI: 10.1017/S0016672300021650  0.68
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