Searching journal content for articles similar to Nissenbaum et al. 20 (9): 1180.

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  1. Research: Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids
    • Cheng Zhao,
    • Savana Biondic,
    • Katherine Vandal,
    • Åsa K. Björklund,
    • Michael Hagemann-Jensen,
    • Theresa Maria Sommer,
    • Jesica Canizo,
    • Stephen Clark,
    • Pascal Raymond,
    • Daniel R. Zenklusen,
    • Nicolas Rivron,
    • Wolf Reik,
    • and Sophie Petropoulos
    Genome Res. September 2022 32: 1627-1641; Published in Advance August 10, 2022, doi:10.1101/gr.276665.122
    ....To our knowledge, this is the first study to comprehensively examine molecular changes in the human embryo resulting from a preimplantation “insult.” We now hypothesize that the human preimplantation embryo is susceptible to reprogramming and that excess glucocorticoid exposure will result...
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  2. Research: Long-read single-cell RNA sequencing enables the study of cancer subclone-specific genotypes and phenotypes in chronic lymphocytic leukemia
    • Gage S. Black,
    • Xiaomeng Huang,
    • Yi Qiao,
    • Philip Moos,
    • Deepa Sampath,
    • Deborah M. Stephens,
    • Jennifer A. Woyach,
    • and Gabor T. Marth
    Genome Res. April 2025 35: 686-697; Published in Advance February 18, 2025, doi:10.1101/gr.279049.124
    ..., Columbus, Ohio 43210, USA ↵6 These authors contributed equally to this work. Corresponding author: gmarth@genetics.utah.eduAbstractBruton tyrosine kinase (BTK) inhibitors are effective for the treatment of chronic lymphocytic leukemia (CLL) due to BTK's role in B cell survival and proliferation. Treatment...
  3. Research: Nucleosome repositioning in chronic lymphocytic leukemia
    • Kristan V. Piroeva,
    • Charlotte McDonald,
    • Charalampos Xanthopoulos,
    • Chelsea Fox,
    • Christopher T. Clarkson,
    • Jan-Philipp Mallm,
    • Yevhen Vainshtein,
    • Luminita Ruje,
    • Lara C. Klett,
    • Stephan Stilgenbauer,
    • Daniel Mertens,
    • Efterpi Kostareli,
    • Karsten Rippe,
    • and Vladimir B. Teif
    Genome Res. October 2023 33: 1649-1661; Published in Advance September 12, 2023, doi:10.1101/gr.277298.122
    ...and its implications in primary cancer cells is scarce. Here, we conducted a -wide comparison of high-resolution nucleosome maps in peripheral blood B cells from patients with chronic lymphocytic leukemia (CLL) and healthy individuals at single-base-pair resolution. Our investigation uncovered significant...
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  4. Resource: Phenotypic diversity and genotypic flexibility of Burkholderia cenocepacia during long-term chronic infection of cystic fibrosis lungs
    • Amy Huei-Yi Lee,
    • Stephane Flibotte,
    • Sunita Sinha,
    • Adrianna Paiero,
    • Rachel L. Ehrlich,
    • Sergey Balashov,
    • Garth D. Ehrlich,
    • James E.A. Zlosnik,
    • Joshua Chang Mell,
    • and Corey Nislow
    Genome Res. April 2017 27: 650-662; Published in Advance March 21, 2017, doi:10.1101/gr.213363.116
    ...; 7Centre for Preventing and Understanding Infection in Children, BC Children’s Hospital, University of British Columbia, Vancouver, British Columbia V5Z 4H4, Canada Chronic bacterial infections of the lung are the leading cause of morbidity and mortality in cystic fibrosis patients. Tracking...
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  5. Method: mRNA-seq with agnostic splice site discovery for nervous system transcriptomics tested in chronic pain
    • Paul Hammer,
    • Michaela S. Banck,
    • Ronny Amberg,
    • Cheng Wang,
    • Gabriele Petznick,
    • Shujun Luo,
    • Irina Khrebtukova,
    • Gary P. Schroth,
    • Peter Beyerlein,
    • and Andreas S. Beutler
    Genome Res. June 2010 20: 847-860; Published in Advance May 7, 2010, doi:10.1101/gr.101204.109
    ...mRNA-seq with agnostic splice site discovery for nervous system transcriptomics tested in chronic pain Paul Hammer 1 , 6 , Michaela S. Banck 2 , 6 , Ronny Amberg 1 , 2 , 6 , Cheng Wang 3 , 7 , Gabriele Petznick 1 , 4 , Shujun...
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  6. Method: Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C
    • Nicola H. Dryden,
    • Laura R. Broome,
    • Frank Dudbridge,
    • Nichola Johnson,
    • Nick Orr,
    • Stefan Schoenfelder,
    • Takashi Nagano,
    • Simon Andrews,
    • Steven Wingett,
    • Iwanka Kozarewa,
    • Ioannis Assiotis,
    • Kerry Fenwick,
    • Sarah L. Maguire,
    • James Campbell,
    • Rachael Natrajan,
    • Maryou Lambros,
    • Eleni Perrakis,
    • Alan Ashworth,
    • Peter Fraser,
    • and Olivia Fletcher
    Genome Res. November 2014 24: 1854-1868; Published in Advance August 13, 2014, doi:10.1101/gr.175034.114
    ...Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C Nicola H. Dryden 1 , 5 , Laura R. Broome 1 , 5 , Frank Dudbridge 2 , Nichola Johnson 1 , Nick Orr 1 , Stefan Schoenfelder 3...
  7. Research: Cell-type–specific eQTL of primary melanocytes facilitates identification of melanoma susceptibility genes
    • Tongwu Zhang,
    • Jiyeon Choi,
    • Michael A. Kovacs,
    • Jianxin Shi,
    • Mai Xu,
    • NISC Comparative Sequencing Program,
    • Melanoma Meta-Analysis Consortium,
    • Alisa M. Goldstein,
    • Adam J. Trower,
    • D. Timothy Bishop,
    • Mark M. Iles,
    • David L. Duffy,
    • Stuart MacGregor,
    • Laufey T. Amundadottir,
    • Matthew H. Law,
    • Stacie K. Loftus,
    • William J. Pavan,
    • and Kevin M. Brown
    Genome Res. November 2018 28: 1621-1635; Published in Advance October 17, 2018, doi:10.1101/gr.233304.117
    ...-wide association studies. Melanocyte eQTLs also colocalized with melanoma GWAS variants in five known loci. Finally, a transcriptome-wide association study using melanocyte eQTLs uncovered four novel susceptibility loci, where imputed expression levels of five genes (ZFP90, HEBP1, MSC, CBWD1, and RP11...
  8. Research: Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region
    • Kiana Mohajeri,
    • Stuart Cantsilieris,
    • John Huddleston,
    • Bradley J. Nelson,
    • Bradley P. Coe,
    • Catarina D. Campbell,
    • Carl Baker,
    • Lana Harshman,
    • Katherine M. Munson,
    • Zev N. Kronenberg,
    • Milinn Kremitzki,
    • Archana Raja,
    • Claudia Rita Catacchio,
    • Tina A. Graves,
    • Richard K. Wilson,
    • Mario Ventura,
    • and Evan E. Eichler
    Genome Res. November 2016 26: 1453-1467; Published in Advance October 7, 2016, doi:10.1101/gr.211284.116
    ...Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region Kiana Mohajeri 1 , 5 , Stuart Cantsilieris 1 , 5 , John Huddleston 1 , 2 , Bradley J. Nelson 1 , Bradley P. Coe 1...
  9. Research: Integrated single-cell genetic and transcriptional analysis suggests novel drivers of chronic lymphocytic leukemia
    • Lili Wang,
    • Jean Fan,
    • Joshua M. Francis,
    • George Georghiou,
    • Sarah Hergert,
    • Shuqiang Li,
    • Rutendo Gambe,
    • Chensheng W. Zhou,
    • Chunxiao Yang,
    • Sheng Xiao,
    • Paola Dal Cin,
    • Michaela Bowden,
    • Dylan Kotliar,
    • Sachet A. Shukla,
    • Jennifer R. Brown,
    • Donna Neuberg,
    • Dario R. Alessi,
    • Cheng-Zhong Zhang,
    • Peter V. Kharchenko,
    • Kenneth J. Livak,
    • and Catherine J. Wu
    Genome Res. August 2017 27: 1300-1311; Published in Advance July 5, 2017, doi:10.1101/gr.217331.116
    ...and Computational Biology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA; 11Fluidigm Corporation, South San Francisco, California 94080, USA Intra-tumoral genetic heterogeneity has been characterized across cancers by sequencing of bulk tumors, including chronic lymphocytic leukemia (CLL). In order...
  10. Research: Transcription and potential functions of a novel XIST isoform in male peripheral glia
    • Kevin S. O'Leary,
    • Meng-Yen Li,
    • Kevyn Jackson,
    • Lijie Shi,
    • Elena Ezhkova,
    • Bernice E. Morrow,
    • and Deyou Zheng
    Genome Res. February 2026 36: 257-274; Published in Advance December 12, 2025, doi:10.1101/gr.280832.125
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