Searching journal content for articles similar to Wasson and Hartemink 19 (11): 2101.

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  1. Method: Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data
    • Kaixuan Luo,
    • Jianling Zhong,
    • Alexias Safi,
    • Linda K. Hong,
    • Alok K. Tewari,
    • Lingyun Song,
    • Timothy E. Reddy,
    • Li Ma,
    • Gregory E. Crawford,
    • and Alexander J. Hartemink
    Genome Res. June 2022 32: 1183-1198; Published in Advance May 24, 2022, doi:10.1101/gr.272203.120
    ...Carolina 27708, USA; 2Center for Genomic and Computational Biology, Duke University, Durham, North Carolina 27708, USA; 3Department of Computer Science, Duke University, Durham, North Carolina 27708, USA; 4Department of Human Genetics, The University of Chicago, Chicago, Illinois 60637, USA; 5Department...
  2. Research: Nascent chromatin occupancy profiling reveals locus- and factor-specific chromatin maturation dynamics behind the DNA replication fork
    • Mónica P. Gutiérrez,
    • Heather K. MacAlpine,
    • and David M. MacAlpine
    Genome Res. July 2019 29: 1123-1133; Published in Advance June 19, 2019, doi:10.1101/gr.243386.118
    ...Mónica P. Gutiérrez1, Heather K. MacAlpine2 and David M. MacAlpine1,2 1University Program in Genetics and Genomics, Duke University Medical Center, Durham, North Carolina 27710, USA; 2Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, North Carolina 27710, USA...
  3. Method: Mapping nucleosome positions using DNase-seq
    • Jianling Zhong,
    • Kaixuan Luo,
    • Peter S. Winter,
    • Gregory E. Crawford,
    • Edwin S. Iversen,
    • and Alexander J. Hartemink
    Genome Res. March 2016 26: 351-364; Published in Advance January 15, 2016, doi:10.1101/gr.195602.115
    ...1Program in Computational Biology and Bioinformatics, Duke University, Durham, North Carolina 27708, USA; 2Department of Computer Science, Duke University, Durham, North Carolina 27708, USA; 3Program in Genetics and Genomics, Duke University, Durham, North Carolina 27708, USA...
  4. Research: Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development
    • Vladimir B. Teif,
    • Daria A. Beshnova,
    • Yevhen Vainshtein,
    • Caroline Marth,
    • Jan-Philipp Mallm,
    • Thomas Höfer,
    • and Karsten Rippe
    Genome Res. August 2014 24: 1285-1295; Published in Advance May 8, 2014, doi:10.1101/gr.164418.113
    ...Research Vladimir B. Teif,1 Daria A. Beshnova,1 Yevhen Vainshtein,2 Caroline Marth,1 Jan-Philipp Mallm,1 Thomas H€ofer,2 and Karsten Rippe1 1Research Group Genome Organization and Function, Deutsches Krebsforschungszentrum (DKFZ) and BioQuant, 69120 Heidelberg, Germany; 2Division Theoretical...
  5. RESOURCE: An effective model for natural selection in promoters
    • Michael M. Hoffman and
    • Ewan Birney
    Genome Res. May 2010 20: 685-692; Published in Advance March 1, 2010, doi:10.1101/gr.096719.109
    ..., as expected, but also shows a potential positive or extensive relaxation of constraint in other functional classes, such as phospholipid biosynthetic process genes. Results We used a hiddenMarkov model (HMM) framework (Durbin et al. 1998) to provide a reasonable model of the competitive binding of an ensemble...
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