Martin Kircher

Summary

Affiliation: Max Planck Institute for Evolutionary Anthropology
Country: Germany

Publications

  1. doi request reprint High-throughput DNA sequencing--concepts and limitations
    Martin Kircher
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
    Bioessays 32:524-36. 2010
  2. pmc Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform
    Martin Kircher
    Max Planck Institute for Evolutionary Anthropology, Department of Evolutionary Genetics, 04103 Leipzig, Germany
    Nucleic Acids Res 40:e3. 2012
  3. pmc Structural conservation versus functional divergence of maternally expressed microRNAs in the Dlk1/Gtl2 imprinting region
    Martin Kircher
    Max Planck Institut für Informatik, Saarbrucken, Germany
    BMC Genomics 9:346. 2008
  4. pmc Improved base calling for the Illumina Genome Analyzer using machine learning strategies
    Martin Kircher
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz, 04103 Leipzig, Germany
    Genome Biol 10:R83. 2009
  5. doi request reprint Analysis of high-throughput ancient DNA sequencing data
    Martin Kircher
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Methods Mol Biol 840:197-228. 2012
  6. doi request reprint The complete genome sequence of a Neanderthal from the Altai Mountains
    Kay Prüfer
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany
    Nature 505:43-9. 2014
  7. pmc Removal of deaminated cytosines and detection of in vivo methylation in ancient DNA
    Adrian W Briggs
    Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Nucleic Acids Res 38:e87. 2010
  8. doi request reprint Illumina sequencing library preparation for highly multiplexed target capture and sequencing
    Matthias Meyer
    Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Cold Spring Harb Protoc 2010:pdb.prot5448. 2010
  9. doi request reprint A draft sequence of the Neandertal genome
    Richard E Green
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Science 328:710-22. 2010
  10. pmc Road blocks on paleogenomes--polymerase extension profiling reveals the frequency of blocking lesions in ancient DNA
    Patricia Heyn
    Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Nucleic Acids Res 38:e161. 2010

Detail Information

Publications15

  1. doi request reprint High-throughput DNA sequencing--concepts and limitations
    Martin Kircher
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
    Bioessays 32:524-36. 2010
    ..We review the relevant concepts and compare the issues raised by the current high-throughput DNA sequencing technologies. We analyze how future developments may overcome these limitations and what challenges remain...
  2. pmc Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform
    Martin Kircher
    Max Planck Institute for Evolutionary Anthropology, Department of Evolutionary Genetics, 04103 Leipzig, Germany
    Nucleic Acids Res 40:e3. 2012
    ..Double-indexing eliminates these problems and increases both the scope and accuracy of multiplex sequencing on the Illumina platform...
  3. pmc Structural conservation versus functional divergence of maternally expressed microRNAs in the Dlk1/Gtl2 imprinting region
    Martin Kircher
    Max Planck Institut für Informatik, Saarbrucken, Germany
    BMC Genomics 9:346. 2008
    ..This cluster contains more than 40 microRNA genes that are expressed only from the maternal chromosome in mouse...
  4. pmc Improved base calling for the Illumina Genome Analyzer using machine learning strategies
    Martin Kircher
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz, 04103 Leipzig, Germany
    Genome Biol 10:R83. 2009
    ..Ibis is faster and more robust with respect to chemistry and technology than other publicly available packages. Ibis is freely available under the GPL from http://bioinf.eva.mpg.de/Ibis/...
  5. doi request reprint Analysis of high-throughput ancient DNA sequencing data
    Martin Kircher
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Methods Mol Biol 840:197-228. 2012
    ....
  6. doi request reprint The complete genome sequence of a Neanderthal from the Altai Mountains
    Kay Prüfer
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany
    Nature 505:43-9. 2014
    ..In addition, the high-quality Neanderthal genome allows us to establish a definitive list of substitutions that became fixed in modern humans after their separation from the ancestors of Neanderthals and Denisovans. ..
  7. pmc Removal of deaminated cytosines and detection of in vivo methylation in ancient DNA
    Adrian W Briggs
    Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Nucleic Acids Res 38:e87. 2010
    ..In addition, our results demonstrate that Neandertal DNA retains in vivo patterns of CpG methylation, potentially allowing future studies of gene inactivation and imprinting in ancient organisms...
  8. doi request reprint Illumina sequencing library preparation for highly multiplexed target capture and sequencing
    Matthias Meyer
    Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Cold Spring Harb Protoc 2010:pdb.prot5448. 2010
    ..Libraries can be prepared from any type of double-stranded DNA, even if present in subnanogram quantity...
  9. doi request reprint A draft sequence of the Neandertal genome
    Richard E Green
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Science 328:710-22. 2010
    ....
  10. pmc Road blocks on paleogenomes--polymerase extension profiling reveals the frequency of blocking lesions in ancient DNA
    Patricia Heyn
    Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Nucleic Acids Res 38:e161. 2010
    ....
  11. pmc A high-coverage genome sequence from an archaic Denisovan individual
    Matthias Meyer
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Science 338:222-6. 2012
    ....
  12. doi request reprint A complete mtDNA genome of an early modern human from Kostenki, Russia
    Johannes Krause
    Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Curr Biol 20:231-6. 2010
    ..We use these features to determine a complete mtDNA sequence from a approximately 30,000-year-old EMH from the Kostenki 14 site in Russia...
  13. pmc freeIbis: an efficient basecaller with calibrated quality scores for Illumina sequencers
    Gabriel Renaud
    Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Bioinformatics 29:1208-9. 2013
    ..We have continued active development of Ibis to take into account developments in the Illumina technology, as well as to make Ibis fully open source...
  14. pmc Addressing challenges in the production and analysis of illumina sequencing data
    Martin Kircher
    Max Planck Institute for Evolutionary Anthropology, Department of Evolutionary Genetics Deutscher Platz 6 04103 Leipzig, Germany
    BMC Genomics 12:382. 2011
    ..Further, we present a set of general principles for good analysis practice that enable problems with sequencing runs to be identified and dealt with...
  15. doi request reprint Comparative population genomics of the ejaculate in humans and the great apes
    Jeffrey M Good
    Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
    Mol Biol Evol 30:964-76. 2013
    ..Thus, general patterns of male reproductive protein evolution among apes and humans depend strongly on gene function but not on inferred differences in the intensity of sperm competition among extant species...