Mobile element scanning (ME-Scan) by targeted high-throughput sequencing

[1]  M. Lynch,et al.  DNA transposon dynamics in populations of Daphnia pulex with and without sex , 2010, Proceedings of the Royal Society B: Biological Sciences.

[2]  D. Grzebelus,et al.  DcMaster transposon display markers as a tool for diversity evaluation of carrot breeding materials and for hybrid seed purity testing , 2010, Journal of Applied Genetics.

[3]  B. Gaut,et al.  The evolution of transposable elements in natural populations of self-fertilizing Arabidopsis thaliana and its outcrossing relative Arabidopsis lyrata , 2010, BMC Evolutionary Biology.

[4]  M. Batzer,et al.  Alu repeats increase local recombination rates , 2009, BMC Genomics.

[5]  G. Giaever,et al.  Quantitative Phenotyping via Deep Barcode Sequencing , 2022 .

[6]  A. Camilli,et al.  Tn-seq; high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms , 2009, Nature Methods.

[7]  E. Kirkness,et al.  Mobile elements create structural variation: analysis of a complete human genome. , 2009, Genome research.

[8]  G. Hannon,et al.  DNA Sudoku--harnessing high-throughput sequencing for multiplexed specimen analysis. , 2009, Genome research.

[9]  D. Coleman-Derr,et al.  Rapid development of PCR-based genome-specific repetitive DNA junction markers in wheat. , 2009, Genome.

[10]  Richard Durbin,et al.  Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .

[11]  Derek Y. Chiang,et al.  A conditional transposon-based insertional mutagenesis screen for genes associated with mouse hepatocellular carcinoma , 2009, Nature Biotechnology.

[12]  P. Etter,et al.  Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers , 2008, PloS one.

[13]  B. Gaut,et al.  Demography and weak selection drive patterns of transposable element diversity in natural populations of Arabidopsis lyrata , 2008, Proceedings of the National Academy of Sciences.

[14]  Matthew J. Huentelman,et al.  IDENTIFICATION OF GENETIC VARIANTS USING BARCODED MULTIPLEXED SEQUENCING , 2008, Nature Methods.

[15]  J. Zethof,et al.  Generation of a 3D indexed Petunia insertion database for reverse genetics. , 2008, The Plant journal : for cell and molecular biology.

[16]  M. Pabijan,et al.  Contrasting patterns of variation in MHC loci in the Alpine newt , 2008, Molecular ecology.

[17]  R. Knight,et al.  Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex , 2008, Nature Methods.

[18]  M. Ronaghi,et al.  A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing , 2007, Nucleic acids research.

[19]  J. Jurka,et al.  Repetitive sequences in complex genomes: structure and evolution. , 2007, Annual review of genomics and human genetics.

[20]  Timothy B. Stockwell,et al.  The Diploid Genome Sequence of an Individual Human , 2007, PLoS biology.

[21]  U. Stenzel,et al.  Targeted high-throughput sequencing of tagged nucleic acid samples , 2007, Nucleic acids research.

[22]  F. Bushman,et al.  DNA bar coding and pyrosequencing to identify rare HIV drug resistance mutations , 2007, Nucleic acids research.

[23]  M. Stoneking,et al.  In search of polymorphic Alu insertions with restricted geographic distributions. , 2007, Genomics.

[24]  Jonathan P. Bollback,et al.  The Use of Coded PCR Primers Enables High-Throughput Sequencing of Multiple Homolog Amplification Products by 454 Parallel Sequencing , 2007, PloS one.

[25]  M. Batzer,et al.  Mobile DNA elements in primate and human evolution. , 2007, American journal of physical anthropology.

[26]  S. Boissinot,et al.  Human Population Genetic Structure and Diversity Inferred from Polymorphic L1(LINE-1) and Alu Insertions , 2006, Human Heredity.

[27]  S. Boissinot,et al.  Fitness cost of LINE-1 (L1) activity in humans. , 2006, Proceedings of the National Academy of Sciences of the United States of America.

[28]  Deepak Grover,et al.  dbRIP: A highly integrated database of retrotransposon insertion polymorphisms in humans , 2006, Human mutation.

[29]  I. Mamedov,et al.  Whole-genome experimental identification of insertion/deletion polymorphisms of interspersed repeats by a new general approach , 2005, Nucleic acids research.

[30]  Circe W. Tsui,et al.  Natural Genetic Variation Caused by Transposable Elements in Humans , 2004, Genetics.

[31]  S. Boissinot,et al.  The insertional history of an active family of L1 retrotransposons in humans. , 2004, Genome research.

[32]  P. Herron,et al.  Mobile DNA II , 2004, Heredity.

[33]  M. Batzer,et al.  Alu elements and hominid phylogenetics , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[34]  Jerilyn A. Walker,et al.  Genetic variation among world populations: inferences from 100 Alu insertion polymorphisms. , 2003, Genome research.

[35]  J. V. Moran,et al.  ATLAS: a system to selectively identify human-specific L1 insertions. , 2003, American journal of human genetics.

[36]  A. Buzdin,et al.  Genome-wide targeted search for human specific and polymorphic L1 integrations , 2003, Human Genetics.

[37]  M. Batzer,et al.  Comprehensive Analysis of Two Alu Yd Subfamilies , 2003, Journal of Molecular Evolution.

[38]  J. V. Moran,et al.  A comprehensive analysis of recently integrated human Ta L1 elements. , 2002, American journal of human genetics.

[39]  Milovan Krnjajic,et al.  Active Alu elements are passed primarily through paternal germlines. , 2002, Theoretical population biology.

[40]  Tom H. Pringle,et al.  The human genome browser at UCSC. , 2002, Genome research.

[41]  M. Batzer,et al.  Alu repeats and human genomic diversity , 2002, Nature Reviews Genetics.

[42]  Alan M. Lambowitz,et al.  Mobile DNA III , 2002 .

[43]  E. Ostertag,et al.  Biology of mammalian L1 retrotransposons. , 2001, Annual review of genetics.

[44]  A. Troxel,et al.  Genomic characterization of recent human LINE-1 insertions: evidence supporting random insertion. , 2001, Genome research.

[45]  M. Batzer,et al.  Alu insertion polymorphisms for the study of human genomic diversity. , 2001, Genetics.

[46]  W S Watkins,et al.  Large-scale analysis of the Alu Ya5 and Yb8 subfamilies and their contribution to human genomic diversity. , 2001, Journal of molecular biology.

[47]  S. Boissinot,et al.  Selection against deleterious LINE-1-containing loci in the human lineage. , 2001, Molecular biology and evolution.

[48]  International Human Genome Sequencing Consortium Initial sequencing and analysis of the human genome , 2001, Nature.

[49]  S T Sherry,et al.  Reading between the LINEs: human genomic variation induced by LINE-1 retrotransposition. , 2000, Genome research.

[50]  M. Van Montagu,et al.  Transposon Display identifies individual transposable elements in high copy number lines. , 2002, The Plant journal : for cell and molecular biology.

[51]  S. Sherry,et al.  Alu evolution in human populations: using the coalescent to estimate effective population size. , 1997, Genetics.

[52]  M. Stoneking,et al.  Alu insertion polymorphisms and human evolution: evidence for a larger population size in Africa. , 1997, Genome research.

[53]  Thomas L. Madden,et al.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. , 1997, Nucleic acids research.

[54]  W. Lam,et al.  Active transposition in zebrafish. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[55]  Sandra Fillebrown,et al.  The MathWorks' MATLAB , 1996 .

[56]  W S Watkins,et al.  Origins and affinities of modern humans: a comparison of mitochondrial and nuclear genetic data. , 1995, American journal of human genetics.

[57]  B. Charlesworth,et al.  The distribution of transposable elements within and between chromosomes in a population of Drosophila melanogaster. II. Inferences on the nature of selection against elements. , 1992, Genetical research.