M J Daly

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. ncbi request reprint High-resolution haplotype structure in the human genome
    M J Daly
    Whitehead Institute Massachusetts Institute of Technology, Center for Genome Research, Cambridge, Massachusetts, USA
    Nat Genet 29:229-32. 2001
  2. ncbi request reprint Genetic investigation of chromosome 5q GABAA receptor subunit genes in schizophrenia
    T L Petryshen
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA, USA
    Mol Psychiatry 10:1074-88, 1057. 2005
  3. pmc Familial eosinophilia maps to the cytokine gene cluster on human chromosomal region 5q31-q33
    J D Rioux
    Whitehead Institute MIT Center for Genome Research, Cambridge, MA, USA
    Am J Hum Genet 63:1086-94. 1998
  4. pmc Genomewide search in Canadian families with inflammatory bowel disease reveals two novel susceptibility loci
    J D Rioux
    Whitehead Institute Massachusetts Institute of Technology, Center for Genome Research, Cambridge, MA 02139, USA
    Am J Hum Genet 66:1863-70. 2000
  5. ncbi request reprint Genetic variation in the 5q31 cytokine gene cluster confers susceptibility to Crohn disease
    J D Rioux
    Whitehead Institute/Massachusetts Institute of Technology, Center for Genome Research, Cambridge, Massachusetts, USA
    Nat Genet 29:223-8. 2001
  6. ncbi request reprint Support for involvement of neuregulin 1 in schizophrenia pathophysiology
    T L Petryshen
    Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
    Mol Psychiatry 10:366-74, 328. 2005
  7. ncbi request reprint Serrate2 is disrupted in the mouse limb-development mutant syndactylism
    A Sidow
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Nature 389:722-5. 1997
  8. ncbi request reprint The vibrator mutation causes neurodegeneration via reduced expression of PITP alpha: positional complementation cloning and extragenic suppression
    B A Hamilton
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Neuron 18:711-22. 1997
  9. pmc Parametric and nonparametric linkage analysis: a unified multipoint approach
    L Kruglyak
    Whitehead Institute for Biomedical Research, Cambridge
    Am J Hum Genet 58:1347-63. 1996
  10. ncbi request reprint Haploview: analysis and visualization of LD and haplotype maps
    J C Barrett
    Whitehead Institute for Biomedical Research Cambridge, MA 02142, USA
    Bioinformatics 21:263-5. 2005

Detail Information

Publications33

  1. ncbi request reprint High-resolution haplotype structure in the human genome
    M J Daly
    Whitehead Institute Massachusetts Institute of Technology, Center for Genome Research, Cambridge, Massachusetts, USA
    Nat Genet 29:229-32. 2001
    ..If our observed structure is general (and published data suggest that it may be), it offers a coherent framework for creating a haplotype map of the human genome...
  2. ncbi request reprint Genetic investigation of chromosome 5q GABAA receptor subunit genes in schizophrenia
    T L Petryshen
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA, USA
    Mol Psychiatry 10:1074-88, 1057. 2005
    ..Taken together, these results support the involvement of the chromosome 5q GABAA receptor gene cluster in schizophrenia, and suggest that schizophrenia-associated haplotypes may alter expression of GABA-related genes...
  3. pmc Familial eosinophilia maps to the cytokine gene cluster on human chromosomal region 5q31-q33
    J D Rioux
    Whitehead Institute MIT Center for Genome Research, Cambridge, MA, USA
    Am J Hum Genet 63:1086-94. 1998
    ....
  4. pmc Genomewide search in Canadian families with inflammatory bowel disease reveals two novel susceptibility loci
    J D Rioux
    Whitehead Institute Massachusetts Institute of Technology, Center for Genome Research, Cambridge, MA 02139, USA
    Am J Hum Genet 66:1863-70. 2000
    ..Both of these genomic regions contain numerous genes that are important to the immune and inflammatory systems and that provide good targets for future candidate-gene studies...
  5. ncbi request reprint Genetic variation in the 5q31 cytokine gene cluster confers susceptibility to Crohn disease
    J D Rioux
    Whitehead Institute/Massachusetts Institute of Technology, Center for Genome Research, Cambridge, Massachusetts, USA
    Nat Genet 29:223-8. 2001
    ..These results have important implications for Crohn disease in particular and LD mapping in general...
  6. ncbi request reprint Support for involvement of neuregulin 1 in schizophrenia pathophysiology
    T L Petryshen
    Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
    Mol Psychiatry 10:366-74, 328. 2005
    ..In summary, our results suggest that haplotypes across NRG1 and multiple NRG1 variants are involved in schizophrenia...
  7. ncbi request reprint Serrate2 is disrupted in the mouse limb-development mutant syndactylism
    A Sidow
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Nature 389:722-5. 1997
    ..In addition to cloning the sm gene, we have mapped three modifiers of sm, for which we suggest possible candidate genes...
  8. ncbi request reprint The vibrator mutation causes neurodegeneration via reduced expression of PITP alpha: positional complementation cloning and extragenic suppression
    B A Hamilton
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Neuron 18:711-22. 1997
    ..The vibrator phenotype is suppressed in one intercross. We performed a complete genome scan and mapped a major suppressor locus (Mvb-1) to proximal chromosome 19...
  9. pmc Parametric and nonparametric linkage analysis: a unified multipoint approach
    L Kruglyak
    Whitehead Institute for Biomedical Research, Cambridge
    Am J Hum Genet 58:1347-63. 1996
    ..The package allows efficient multipoint analysis of pedigree data to be performed rapidly in a single user-friendly environment...
  10. ncbi request reprint Haploview: analysis and visualization of LD and haplotype maps
    J C Barrett
    Whitehead Institute for Biomedical Research Cambridge, MA 02142, USA
    Bioinformatics 21:263-5. 2005
    ..Haploview is a software package that provides computation of linkage disequilibrium statistics and population haplotype patterns from primary genotype data in a visually appealing and interactive interface...
  11. ncbi request reprint A comprehensive genetic map of the mouse genome
    W F Dietrich
    Whitehead MIT Center for Genome Research, Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Nature 380:149-52. 1996
    ..The average spacing between markers is about 0.2 centimorgans or 400 kilobases...
  12. ncbi request reprint Large-scale discovery and genotyping of single-nucleotide polymorphisms in the mouse
    K Lindblad-Toh
    Whitehead Institute MIT Center for Genome Research, Whitehead Institute for Biomedical Research, Cambridge, MA, USA
    Nat Genet 24:381-6. 2000
    ..We have also developed a multiplex genotyping procedure by which a genome scan can be performed with only six genotyping reactions per animal...
  13. pmc Genomewide linkage analysis of stature in multiple populations reveals several regions with evidence of linkage to adult height
    J N Hirschhorn
    Whitehead MIT Center for Genome Research, One Kendall Square, Cambridge, MA 02139, USA
    Am J Hum Genet 69:106-16. 2001
    ..These studies suggest that highly heritable complex traits such as stature may be genetically tractable and provide insight into the genetic architecture of complex traits...
  14. pmc Genomewide linkage analysis of bipolar disorder by use of a high-density single-nucleotide-polymorphism (SNP) genotyping assay: a comparison with microsatellite marker assays and finding of significant linkage to chromosome 6q22
    F A Middleton
    Department of Neuroscience and Physiology, State University of New York SUNY, Syracuse, NY, USA
    Am J Hum Genet 74:886-97. 2004
    ....
  15. ncbi request reprint Genome-wide scan in Portuguese Island families implicates multiple loci in bipolar disorder: fine mapping adds support on chromosomes 6 and 11
    Carlos N Pato
    Veterans Affairs Medical Center, Washington, DC 20422, USA
    Am J Med Genet B Neuropsychiatr Genet 127:30-4. 2004
    ..Our findings provide additional support for a susceptibility locus for bipolar disorder on 6q, as well as, suggesting the importance of denser scans. Published 2004 Wiley-Liss, Inc...
  16. pmc A genomewide linkage-disequilibrium scan localizes the Saguenay-Lac-Saint-Jean cytochrome oxidase deficiency to 2p16
    N Lee
    Metabolism Research Programme, Research Institute, Hospital for Sick Children, Toronto, Ontario, Canada
    Am J Hum Genet 68:397-409. 2001
    ..Although the LSFC gene remains to be elucidated, the present study demonstrates the feasibility of using a genomewide LD strategy to localize the critical region for a rare genetic disease in a founder population...
  17. pmc Acheiropodia is caused by a genomic deletion in C7orf2, the human orthologue of the Lmbr1 gene
    P Ianakiev
    Department of Pediatrics, University of Connecticut Health Center, Farmington, CT 06030, USA
    Am J Hum Genet 68:38-45. 2001
    ..Given the nature of the acheiropodia phenotype, it appears likely that the Lmbr1 gene plays an important role in limb development...
  18. pmc Glycerol as a correlate of impaired glucose tolerance: dissection of a complex system by use of a simple genetic trait
    D Gaudet
    Lipid Research Group, Chicoutimi Hospital, Chicoutimi, and Lipid Research Center, Laval University, Quebec, Canada ca
    Am J Hum Genet 66:1558-68. 2000
    ....
  19. pmc Genetic mapping of a murine locus controlling development of T helper 1/T helper 2 type responses
    J D Gorham
    Department of Pathology, Washington University School of Medicine, St Louis, MO 63110, USA
    Proc Natl Acad Sci U S A 93:12467-72. 1996
    ..1 shown to be associated with elevated serum IgE levels, suggesting that genetic control of Th1/Th2 differentiation in mouse, and of atopy development in humans, may be expressed through similar mechanisms...
  20. pmc Genomewide search for type 2 diabetes mellitus susceptibility loci in Finnish families: the Botnia study
    C M Lindgren
    Department of Endocrinology, Wallenberg Laboratory, Malmo University Hospital, Malmo, Sweden
    Am J Hum Genet 70:509-16. 2002
    ..04 was observed. Together with data from other published genomewide scans, these findings lend support to the hypothesis that regions on chromosome 9p13-q21 and 12q24 may harbor susceptibility genes for type 2 diabetes...
  21. ncbi request reprint A simple, direct method for x-ray scatter estimation and correction in digital radiography and cone-beam CT
    J H Siewerdsen
    Ontario Cancer Institute, Princess Margaret Hospital, Toronto, Ontario, Canada M5G 2M9
    Med Phys 33:187-97. 2006
    ..Operating without prior information, analytical modeling, or Monte Carlo, the technique is easily incorporated as a preprocessing step in CBCT reconstruction to provide significant scatter reduction...
  22. pmc IBD5 is associated with an extensive complicated Crohn's disease feature: implications from genotype-phenotype analysis
    S Brescianini
    Gut 56:149-50. 2007
  23. ncbi request reprint Association testing of common variants in the insulin receptor substrate-1 gene (IRS1) with type 2 diabetes
    J C Florez
    Simches Research Building CPZN 6820, Diabetes Unit Center for Human Genetic Research, Massachusetts General Hospital, Boston, MA 02114, USA
    Diabetologia 50:1209-17. 2007
    ..However, other nearby variants might account for the putative association signal...
  24. ncbi request reprint The role of the Toll receptor pathway in susceptibility to inflammatory bowel diseases
    P L De Jager
    Department of Neurology, Center for Neurologic Diseases, Brigham and Women s Hospital and Harvard Medical School, Boston, MA, USA
    Genes Immun 8:387-97. 2007
    ..16, 95% CI: 1.04-1.30; P=0.007) has a modest effect on risk of IBD. Our analysis, therefore, offers additional evidence that the TLR4 pathway - in this case, TLR4 and its signaling molecule TIRAP - plays a role in susceptibility to IBD...
  25. pmc Whole-genome association study of bipolar disorder
    P Sklar
    Center for Human Genetic Research, Massachusetts General Hospital, Boston, MA 02114, USA
    Mol Psychiatry 13:558-69. 2008
    ..Given the heritability of BP disorder, the lack of agreement between studies emphasizes that susceptibility alleles are likely to be modest in effect size and require even larger samples for detection...
  26. ncbi request reprint Genetic architecture of tuberculosis resistance in a mouse model of infection
    B S Yan
    Department of Immunology and Infectious Diseases, Harvard School of Public Health, Boston, MA 02115, USA
    Genes Immun 7:201-10. 2006
    ..We now present further studies controlling for the effect of the sst1, identify four additional tuberculosis susceptibility loci and characterize their effects by testing an independent cross, knockout or congenic mice...
  27. pmc Subpopulation difference scanning: a strategy for exclusion mapping of susceptibility genes
    E Salmela
    Finnish Genome Center, University of Helsinki, Finland
    J Med Genet 43:590-7. 2006
    ..Association mapping is a common strategy for finding disease-related genes in complex disorders. Different association study designs exist, such as case-control studies or admixture mapping...
  28. pmc Diagnostic misclassification reduces the ability to detect linkage in inflammatory bowel disease genetic studies
    M S Silverberg
    Department of Medicine, Mount Sinai Hospital Inflammatory Bowel Disease Centre, University of Toronto, Toronto, Canada
    Gut 49:773-6. 2001
    ..Even low rates of diagnostic misclassification can lead to significant loss of power to detect a true linkage, particularly for loci with modest effects as are likely to be found in IBD...
  29. ncbi request reprint MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations
    E S Lander
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142
    Genomics 1:174-81. 1987
    ..MAPMAKER has been applied to the construction of linkage maps in a number of organisms, including the human and several plants, and we outline the mapping strategies that have been used...
  30. pmc Genome sequence and comparative analysis of the solvent-producing bacterium Clostridium acetobutylicum
    J NOLLING
    GTC Sequencing Center, Genome Therapeutics Corporation, Waltham, Massachusetts 02453, USA
    J Bacteriol 183:4823-38. 2001
    ..Thus, comparative analysis reveals both significant conservation of the genome organization and pronounced differences in many systems that reflect unique adaptive strategies of the two gram-positive bacteria...
  31. ncbi request reprint A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms
    R Sachidanandam
    Cold Spring Harbor, New York 11724, USA
    Nature 409:928-33. 2001
    ..This high-density SNP map provides a public resource for defining haplotype variation across the genome, and should help to identify biomedically important genes for diagnosis and therapy...
  32. ncbi request reprint Specific expansion of protein families in the radioresistant bacterium Deinococcus radiodurans
    K S Makarova
    Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA
    Genetica 108:25-34. 2000
    ..Such unique proteins are good targets for knock-out and gene expression studies, which are aimed to shed light on the unusual features of this interesting bacterium...
  33. pmc Geometric calibration of a mobile C-arm for intraoperative cone-beam CT
    M J Daly
    Ontario Cancer Institute, Princess Margaret Hospital, Toronto, Ontario M5G 2M9, Canada
    Med Phys 35:2124-36. 2008
    ..Errors in the out-of-plane position of the source (Z(s)) and detector (Z(d)) and the detector angles (phi, theta, eta) were shown to have subtler effects on 3D image quality...