Kerstin Lindblad-Toh

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. pmc Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes
    Walter L Eckalbar
    School of Life Sciences, Arizona State University, PO Box 874501, Tempe, AZ, 85287 4501, USA
    BMC Genomics 14:49. 2013
  2. ncbi request reprint Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
    Tarjei S Mikkelsen
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 447:167-77. 2007
  3. ncbi request reprint Genome sequence, comparative analysis and haplotype structure of the domestic dog
    Kerstin Lindblad-Toh
    Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, Massachusetts 02141, USA
    Nature 438:803-19. 2005
  4. pmc The dog and rat olfactory receptor repertoires
    Pascale Quignon
    UMR 6061, Génétique et Développement CNRS Université de Rennes 1, 35043 Rennes Cedex, France
    Genome Biol 6:R83. 2005
  5. pmc Analysis of a set of Australian northern brown bandicoot expressed sequence tags with comparison to the genome sequence of the South American grey short tailed opossum
    Michelle L Baker
    Center for Evolutionary and Theoretical Immunology, Department of Biology, University of New Mexico, Albuquerque, NM 87131, USA
    BMC Genomics 8:50. 2007
  6. pmc Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus)
    Lucile Soler
    CIRAD PERSYST, Aquaculture Research Unit, TA B 20 A, Campus International de Baillarguet, 34398 Montpellier Cedex 5, France
    BMC Genomics 11:636. 2010
  7. pmc High resolution mapping and positional cloning of ENU-induced mutations in the Rw region of mouse chromosome 5
    Yung Hao Ching
    Department of Biomedical Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York 14853, USA
    BMC Genet 11:106. 2010
  8. pmc A high-resolution map of human evolutionary constraint using 29 mammals
    Kerstin Lindblad-Toh
    Broad Institute of Harvard and Massachusetts Institute of Technology, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 478:476-82. 2011
  9. pmc Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals
    Xiaohui Xie
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02141, USA
    Nature 434:338-45. 2005
  10. pmc Genome-wide synteny through highly sensitive sequence alignment: Satsuma
    Manfred G Grabherr
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
    Bioinformatics 26:1145-51. 2010

Detail Information

Publications22

  1. pmc Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes
    Walter L Eckalbar
    School of Life Sciences, Arizona State University, PO Box 874501, Tempe, AZ, 85287 4501, USA
    BMC Genomics 14:49. 2013
    ..A second generation annotation based on tissue-specific transcriptomes would provide a valuable resource for molecular studies...
  2. ncbi request reprint Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
    Tarjei S Mikkelsen
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 447:167-77. 2007
    ..A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation...
  3. ncbi request reprint Genome sequence, comparative analysis and haplotype structure of the domestic dog
    Kerstin Lindblad-Toh
    Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, Massachusetts 02141, USA
    Nature 438:803-19. 2005
    ..The current SNP map now makes it possible for genome-wide association studies to identify genes responsible for diseases and traits, with important consequences for human and companion animal health...
  4. pmc The dog and rat olfactory receptor repertoires
    Pascale Quignon
    UMR 6061, Génétique et Développement CNRS Université de Rennes 1, 35043 Rennes Cedex, France
    Genome Biol 6:R83. 2005
    ..Previous analyses have shown that the olfactory receptors (ORs) that specifically bind odorant molecules are encoded by the largest gene family sequenced in mammals so far...
  5. pmc Analysis of a set of Australian northern brown bandicoot expressed sequence tags with comparison to the genome sequence of the South American grey short tailed opossum
    Michelle L Baker
    Center for Evolutionary and Theoretical Immunology, Department of Biology, University of New Mexico, Albuquerque, NM 87131, USA
    BMC Genomics 8:50. 2007
    ....
  6. pmc Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus)
    Lucile Soler
    CIRAD PERSYST, Aquaculture Research Unit, TA B 20 A, Campus International de Baillarguet, 34398 Montpellier Cedex 5, France
    BMC Genomics 11:636. 2010
    ..Here we analyze BAC end-sequences to develop comparative physical maps, and estimate the number of genome rearrangements, between tilapia and other model fish species...
  7. pmc High resolution mapping and positional cloning of ENU-induced mutations in the Rw region of mouse chromosome 5
    Yung Hao Ching
    Department of Biomedical Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York 14853, USA
    BMC Genet 11:106. 2010
    ..Previously, a large scale ENU mutagenesis screen was conducted to query the functional content of a ~50 Mb region of the mouse genome on proximal Chr 5. The majority of phenotypic mutants recovered were embryonic lethals...
  8. pmc A high-resolution map of human evolutionary constraint using 29 mammals
    Kerstin Lindblad-Toh
    Broad Institute of Harvard and Massachusetts Institute of Technology, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 478:476-82. 2011
    ..Overlap with disease-associated variants indicates that our findings will be relevant for studies of human biology, health and disease...
  9. pmc Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals
    Xiaohui Xie
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02141, USA
    Nature 434:338-45. 2005
    ..The overall results provide a systematic view of gene regulation in the human, which will be refined as additional mammalian genomes become available...
  10. pmc Genome-wide synteny through highly sensitive sequence alignment: Satsuma
    Manfred G Grabherr
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
    Bioinformatics 26:1145-51. 2010
    ..From an engineering perspective, the problem here is to provide maximum sensitivity (to find all there is to find), specificity (to only find real homology) and speed (to accommodate the billions of base pairs of vertebrate genomes)...
  11. ncbi request reprint Efficient mapping of mendelian traits in dogs through genome-wide association
    Elinor K Karlsson
    Broad Institute of Harvard and Massachusetts Institute of Technology MIT, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nat Genet 39:1321-8. 2007
    ....
  12. pmc The genome of the green anole lizard and a comparative analysis with birds and mammals
    Jessica Alföldi
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA
    Nature 477:587-91. 2011
    ..Comparative gene analysis shows that amniote egg proteins have evolved significantly more rapidly than other proteins. An anole phylogeny resolves basal branches to illuminate the history of their repeated adaptive radiations...
  13. pmc Whole-genome sequence assembly for mammalian genomes: Arachne 2
    David B Jaffe
    Whitehead Institute MIT Center for Genome Research, Cambridge, Massachusetts 02141, USA
    Genome Res 13:91-6. 2003
    ..The outcome of this mouse assembly and its analysis are described in (Mouse Genome Sequencing Consortium 2002)...
  14. pmc Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites
    Xiaohui Xie
    Broad Institute of MIT and Harvard, Massachusetts Institute of Technology and Harvard Medical School, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 104:7145-50. 2007
    ..These sites may thus partition the human genome into domains of expression...
  15. ncbi request reprint The mosaic structure of variation in the laboratory mouse genome
    Claire M Wade
    Whitehead Institute for Biomedical Research and Whitehead MIT Center for Genome Research, 9 Cambridge Center, Cambridge, Massachusetts 02139, USA
    Nature 420:574-8. 2002
    ..These observations have important implications for the design and interpretation of positional cloning experiments...
  16. pmc Distinguishing protein-coding and noncoding genes in the human genome
    Michele Clamp
    Broad Institute of Massachusetts Institute of Technology and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 104:19428-33. 2007
    ..It also provides a principled methodology for evaluating future proposed additions to the human gene catalog. Finally, the results indicate that there has been relatively little true innovation in mammalian protein-coding genes...
  17. ncbi request reprint Genomic maps and comparative analysis of histone modifications in human and mouse
    Bradley E Bernstein
    Howard Hughes Medical Institute, Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA 02138, USA
    Cell 120:169-81. 2005
    ..This suggests that the DNA elements that direct the methylation represent only a small fraction of the region or lie at some distance from the site...
  18. pmc Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing
    Andrew Kirby
    Broad Institute of Harvard and MIT, Cambridge, Massachusetts, USA
    Nat Genet 45:299-303. 2013
    ..These results provide a cautionary tale about the challenges in identifying the genes responsible for mendelian, let alone more complex, disorders through massively parallel sequencing...
  19. pmc Assisted assembly: how to improve a de novo genome assembly by using related species
    Sante Gnerre
    Broad Institute of Harvard and MIT, Cambridge Center, Cambridge, Massachusetts 02142, USA
    Genome Biol 10:R88. 2009
    ..We show that the information provided by aligning the whole-genome shotgun reads of the target against a reference genome can be used to substantially improve the quality of the resulting assembly...
  20. pmc Comparative genomics as a tool to understand evolution and disease
    Jessica Alföldi
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA
    Genome Res 23:1063-8. 2013
    ..Furthermore, we anticipate discoveries related to evolutionary mechanisms, adaptation, and disease to quickly accelerate in the coming years. ..
  21. pmc Full-length transcriptome assembly from RNA-Seq data without a reference genome
    Manfred G Grabherr
    Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA
    Nat Biotechnol 29:644-52. 2011
    ..Our approach provides a unified solution for transcriptome reconstruction in any sample, especially in the absence of a reference genome...
  22. ncbi request reprint Heart development in fibronectin-null mice is governed by a genetic modifier on chromosome four
    Sophie Astrof
    Howard Hughes Medical Institute, Center for Cancer Research, Department of Biology, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Mech Dev 124:551-8. 2007
    ..Identification of the modifier would significantly enhance our understanding of the molecular underpinning of heart development and disease...