Michael F Lin

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. pmc PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions
    Michael F Lin
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, 32 Vassar Street 32 D510, Cambridge, MA 02139, USA
    Bioinformatics 27:i275-82. 2011
  2. pmc Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes
    Michael F Lin
    Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Genome Res 21:1916-28. 2011
  3. 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
  4. pmc Identification of functional elements and regulatory circuits by Drosophila modENCODE
    Sushmita Roy
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology MIT, Cambridge, MA 02139, USA
    Science 330:1787-97. 2010
  5. pmc Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
    Alexander Stark
    The Broad Institute, Massachusetts Institute of Technology and Harvard University, Cambridge, Massachusetts 02140, USA
    Nature 450:219-32. 2007
  6. pmc Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
    Andrea Pauli
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
    Genome Res 22:577-91. 2012
  7. pmc Evidence of abundant stop codon readthrough in Drosophila and other metazoa
    Irwin Jungreis
    MIT Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Genome Res 21:2096-113. 2011
  8. pmc Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
    Mitchell Guttman
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 458:223-7. 2009
  9. 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
  10. pmc Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes
    Michael F Lin
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02139, USA
    Genome Res 17:1823-36. 2007

Detail Information

Publications10

  1. pmc PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions
    Michael F Lin
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, 32 Vassar Street 32 D510, Cambridge, MA 02139, USA
    Bioinformatics 27:i275-82. 2011
    ....
  2. pmc Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes
    Michael F Lin
    Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Genome Res 21:1916-28. 2011
    ..Our results show that overlapping functional elements are common in mammalian genes, despite the vast genomic landscape...
  3. 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...
  4. pmc Identification of functional elements and regulatory circuits by Drosophila modENCODE
    Sushmita Roy
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology MIT, Cambridge, MA 02139, USA
    Science 330:1787-97. 2010
    ..Our results provide a foundation for directed experimental and computational studies in Drosophila and related species and also a model for systematic data integration toward comprehensive genomic and functional annotation...
  5. pmc Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
    Alexander Stark
    The Broad Institute, Massachusetts Institute of Technology and Harvard University, Cambridge, Massachusetts 02140, USA
    Nature 450:219-32. 2007
    ..We also study how discovery power scales with the divergence and number of species compared, and we provide general guidelines for comparative studies...
  6. pmc Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
    Andrea Pauli
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
    Genome Res 22:577-91. 2012
    ..Our study provides the first systematic identification of lncRNAs in a vertebrate embryo and forms the foundation for future genetic, genomic, and evolutionary studies...
  7. pmc Evidence of abundant stop codon readthrough in Drosophila and other metazoa
    Irwin Jungreis
    MIT Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Genome Res 21:2096-113. 2011
    ....
  8. pmc Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
    Mitchell Guttman
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 458:223-7. 2009
    ..Together, these results define a unique collection of functional lincRNAs that are highly conserved and implicated in diverse biological processes...
  9. 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...
  10. pmc Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes
    Michael F Lin
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02139, USA
    Genome Res 17:1823-36. 2007
    ..These results affect >10% of annotated fly genes and demonstrate the power of comparative genomics to enhance our understanding of genome organization, even in a model organism as intensively studied as Drosophila melanogaster...