Carlos D. Bustamante Lab
 
Bustamante Lab Template
List of previous papers

  1. Title: The Origins of Eukaryotic Gene Structure
    Author: Michael Lynch
    Journal: MBE
    link: http://mbe.oxfordjournals.org/cgi/content/full/23/2/450

  2. Title: Apparent Trends of Amino Acid Gain and Loss in Protein Evolution Due to Nearly Neutral Variation
    Author: John H. McDonald
    Journal: MBE
    link: http://mbe.oxfordjournals.org/cgi/content/full/23/2/240

  3. Title: The sampling distribution of disease-associated alleles.
    Author: Slatkin M, Rannala B.
    Journal: Genetics 147(4):1855-61
    link: http://www.genetics.org/cgi/reprint/147/4/1855

  4. Title: High-Resolution Association Mapping of Quantitative Trait Loci: A Population-Based Approach
    Author: Ruzong Fan, Jeesun Jung and Lei Jin
    Journal: Genetics, Vol. 172, 663-686, January 2006
    link: http://www.genetics.org/cgi/content/full/172/1/663

  5. Title: Possible Ancestral Structure in Human Populations
    Author: Vincent Plagnol
    Journal: PLOS Genetics
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pgen.0020105

  6. Title: Deep Haplotype Divergence and Long-Range Linkage Disequilibrium at Xp21.1 Provide Evidence That Humans Descend From a Structured Ancestral Population
    Author: M.F. Hammer
    Journal: Genetics
    link: http://www.genetics.org/cgi/content/abstract/170/4/1849?maxtoshow=

  7. Title: Maximum-likelihood methods for detecting recent positive selection and localizing the selected site in the genome.
    Author: Li and Stephan
    Journal: Genetics, Vol. 171, 377-384
    link: http://www.genetics.org/cgi/content/full/171/1/377

  8. Title: A Single Amino Acid Mutation Contributes to Adaptive Beach Mouse Color Pattern
    Author: Hoekstra, Hirschmann, Bundey, Insel, Crossland
    Journal: Science 7 July 2006 Vol. 313. no. 5783, pp. 101 - 104
    link: http://www.sciencemag.org/cgi/content/abstract/313/5783/101

  9. Title: Hotspots for copy number variation in chimpanzees and humans
    Author: Perry, George et al.
    Journal: PNAS
    link: http://www.pnas.org/cgi/reprint/103/21/8006

  10. Title: A unified mixed-model method for association mapping that accounts for multiple levels of relatedness
    Author: Yu, et al.
    Journal: Nature Genetics
    link: http://gautlab.bio.uci.edu/images/pdfs/YuNatureGenetics2006.pdf

  11. Title: Joint analysis is more efficient than replication-based analysis for two-stage genome-wide association studies
    Author: A.D. Skol, L.J. Scott, G.R. Abecasis, M. Boehnke
    Journal: Nature Genetics
    link: http://www.sph.umich.edu/csg/abecasis/publications/pdf/Nat.Genet.vol.38-pp.209.pdf

  12. Title: Relaxed Significance Criteria for Linkage Analysis
    Author: Lin Chen and John D. Storey
    Journal: Genetics, Vol. 173, 2371-2381, August 2006
    link: http://www.genetics.org/cgi/reprint/173/4/2371

  13. Title: A Bayesian Heterogeneous Analysis of Variance Approach to Inferring Recent Selective Sweeps
    Author: John M. Marshall and Robert E. Weiss
    Journal: Genetics 2006 173: 2357-2370
    link: http://www.genetics.org/cgi/content/full/173/4/2357

  14. Title: Estimating the tempo and mode of gene family evolution from comparative genomic data
    Author: Hahn et al
    Journal: Genome Research
    link: http://www.genome.org/cgi/content/full/15/8/1153

  15. Title: Perfect Simulation From Nonneutral Population Genetic Models: Variable Population Size and Population Subdivision
    Author: Paul Fearnhead
    Journal: Genetics
    link: http://www.ncbi.nlm.nih.gov/entrez/utils/fref.fcgi?itool=AbstractPlus-def&PrId=3051&uid=16951070&db=pubmed&url=http://www.genetics.org/cgi/pmidlookup?view=long&pmid=16951070

  16. Title: Forces Shaping the Fastest Evolving Regions in the Human Genome
    Author: Katherine S. Pollard et al.
    Journal: PLoS Genetics
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pgen.0020168

  17. Title: Possible Ancestral Structure in Human Populations
    Author: Vincent Plagnol
    Journal: Plos Genetics
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pgen.0020105

  18. Title: Population Structure and Eigenanalysis
    Author: Nick Patterson, Alkes L. Price, David Reich
    Journal: PLoS Genetics
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371%2Fjournal.pgen.0020190

  19. Title: Estimating diversifying selection and functional constraint in the presence of recombination.
    Author: Wilson, D. J. and G. McVean (2006)
    Journal: Genetics 172: 1411-1425
    link: http://www.genetics.org/cgi/reprint/172/3/1411

  20. Title: Improved Power by Use of a Weighted Score Test for Linkage Disequilibrium Mapping
    Author: Tao Wang and Robert C. Elston
    Journal: Am. J. Hum. Genet
    link: http://www.journals.uchicago.edu/AJHG/journal/issues/v80n2/44204/44204.web.pdf

  21. Title: Genomic Relationships and Speciation Times of Human, Chimpanzee, and Gorilla Inferred from a Coalescent Hidden Markov Model
    Author: Asger Hobolth, Ole F. Christensen, Thomas Mailund,
    Journal: PLoS Genetics
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pgen.0030007

  22. Title: Possible Ancestral Structure in Human Populations
    Author: Plangnol
    Journal: PLoS Genetics
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371%2Fjournal.pgen.0020105

  23. Title: Statistical Tests for Detecting Positive Selection by Utilizing High-Frequency Variants
    Author: Kai Zeng, Yun-Xin Fu, Suhua Shi, and Chung-I Wu
    Journal: Genetics 2006 174: 1431-1439
    link: http://www.genetics.org/cgi/search?volume=174&firstpage=1431&sendit=Search&DOI=&author1=&author2=&titleabstract=&fulltext=&fmonth=Jan&fyear=1916&tmonth=Mar&tyear=2007&hits=10&fdatedef=1+January+1916&tdatedef=15+March+2007

  24. Title: Combining Sperm Typing and Linkage Disequilibrium Analyses Reveals Differences in Selective Pressures or Recombination Rates Across Human Populations
    Author:
    Journal: Genetics, Vol. 175, 795-804, February 2007
    link: http://www.genetics.org/cgi/content/full/175/2/795

  25. Title: Distributions of epistasis in microbes fit predictions from a fitness landscape model
    Author: Guillaume Martin, Santiago Elena, Thomas Lenormand
    Journal: Nature Genetics
    link: http://www.nature.com/ng/journal/v39/n4/abs/ng1998.html

  26. Title: A new multipoint method for genome-wide association studies by imputation of genotypes
    Author: Marchini et al.
    Journal: Nature Genetics
    link: http://www.nature.com/ng/journal/v39/n7/full/ng2088.html

  27. Title: Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls
    Author: WTCCC
    Journal: Nature
    link: http://www.nature.com/nature/journal/v447/n7145/abs/nature05911.html

  28. Title: The coalescent process in models with selection
    Author: Kaplan NL, Darden T, Hudson RR
    Journal: Genetics. 1988 Nov;120(3):819-29.
    link: http://www.ncbi.nlm.nih.gov/entrez/utils/fref.fcgi?PrId=3051&itool=AbstractPlus-def&uid=3066685&db=pubmed&url=http://www.genetics.org/cgi/pmidlookup?view=long&pmid=3066685

  29. Title: The Coalescent Process in Models With Selection and Recombination
    Author: Hudson RR and Kaplan NL
    Journal: Genetics
    link: http://www.amazon.com/Population-Genetics-Molecular-Evolution-Neutral/dp/0226435636/ref=sr_1_5/104-5608489-0343103?ie=UTF8&s=books&qid=1188770391&sr=8-5

  30. Title: Discordance of Species Trees with Their Most Likely Gene Trees
    Author: James H. Degnan and Noah A. Rosenberg
    Journal: PLoS Genet 2(5): e68
    link: http://genetics.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pgen.0020068

  31. Title: Efficient mapping of mendelian traits in dogs through genome-wide association
    Author: Karlsson et al.
    Journal: Nature Genetics
    link: http://www.nature.com/ng/journal/v39/n11/abs/ng.2007.10.html

  32. Title: Global variation in copy number in the human genome
    Author: Richard Redon et al
    Journal: Nature
    link: http://www.nature.com/nature/journal/v444/n7118/pdf/nature05329.pdf

  33. Title: Genome-wide patterns of gene flow across a house mouse hybrid zone
    Author: Katherine C. Teeter et. al.
    Journal: Genome Research
    link: http://www.genome.org/cgi/reprint/18/1/67

  34. Title: Time Dependency of Molecular Rate Estimates and Systematic Overestimation
    Author: Ho et al.
    Journal: MBE
    link: http://mbe.oxfordjournals.org/cgi/content/abstract/22/7/1561

  35. Title: Gene Tree Distributions under the Coalescent Process
    Author: James H. Degnan and Laura A. Salter
    Journal: Evolution, 59(1), 2005, pp. 24-37
    link: http://www.blackwell-synergy.com/doi/abs/10.1111/j.0014-3820.2005.tb00891.x

  36. Title: Constructing Minimal Ancestral Recombination Graphs
    Author: Yun Song and Jotun Hein
    Journal: Journal of Computational Biology, Vol. 12 Number 2, 2005, pp. 147-169
    link: http://www.liebertonline.com/doi/abs/10.1089/cmb.2005.12.147?cookieSet=1&journalCode=cmb

  37. Title: Statistical evaluation of alternative models of human evolution
    Author: Fagundes et al.
    Journal: PNAS, vol. 104, 2007, pp. 17614-17619.
    link: http://www.pnas.org/cgi/content/abstract/0708280104v1

  38. Title: Genotype, haplotype and copy-number variation in worldwide human populations
    Author: Jakobsson et al.
    Journal: Nature
    link: http://www.nature.com/nature/journal/v451/n7181/abs/nature06742.html

  39. Title: Measurement of the human allele frequency spectrum demonstrates greater genetic drift in East Asians than in Europeans
    Author: Alon Keinan, James C Mullikin, Nick Patterson & Da
    Journal: Nature Genetics 39, 1251 - 1255 (2007)
    link: http://www.nature.com/ng/journal/v39/n10/abs/ng2116.html

  40. Title: BAPS 2: enhanced possibilities for the analysis of genetic population structure
    Author: Jukka Corander, Patrik Waldmann , Pekka Marttinen and Mikko J. Sillanpaa
    Journal: Bioinformatics
    link: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/20/15/2363

  41. Title: Estimating Local Ancestry in Admixed Populations
    Author: Sankararaman S, Sridhar S, Kimmel G, Halperin E
    Journal: AJHG
    link: http://www.cell.com/AJHG/abstract/S0002-9297%2808%2900079-7

  42. Title: Pattern of polymorphism after strong artificial selection in a domestication event
    Author: Hideki Innan and Yuseob Kim
    Journal: PNAS
    link: http://www.pnas.org/content/101/29/10667.full.pdf+html

  43. Title: A Genealogical Interpretation of Principal Components Analysis
    Author: Gil McVean
    Journal: PLOS
    link: http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000686

  44. Title: Sensitive Detection of Chromosomal Segments of Distinct Ancestry in Admixed Populations
    Author: Price Et. Al.
    Journal: Plos
    link: http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1000519
 
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