Searching journal content for articles similar to Jen and Cheung 13 (9): 2092.

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  1. Research: Radiation pharmacogenomics: A genome-wide association approach to identify radiation response biomarkers using human lymphoblastoid cell lines
    • Nifang Niu,
    • Yuxin Qin,
    • Brooke L. Fridley,
    • Junmei Hou,
    • Krishna R. Kalari,
    • Minjia Zhu,
    • Tse-Yu Wu,
    • Gregory D. Jenkins,
    • Anthony Batzler,
    • and Liewei Wang
    Genome Res. November 2010 20: 1482-1492; Published in Advance October 5, 2010, doi:10.1101/gr.107672.110
    ...Radiation pharmacogenomics: A genome-wide association approach to identify radiation response biomarkers using human lymphoblastoid cell lines Nifang Niu 1 , 3 , Yuxin Qin 1 , 3 , Brooke L. Fridley 2 , Junmei Hou 1 , Krishna R. Kalari 1 , 2...
  2. Research: Genetic variation in radiation-induced cell death
    • Denis A. Smirnov,
    • Lauren Brady,
    • Krzysztof Halasa,
    • Michael Morley,
    • Sonia Solomon,
    • and Vivian G. Cheung
    Genome Res. February 2012 22: 332-339; Published in Advance August 15, 2011, doi:10.1101/gr.122044.111
    ...and tumors. Cancer Res 70: 6277–6282. ↵ Haseman JK, Elston RC Haseman JK, Elston RC. 1972. The investigation of linkage between a quantitative trait and a marker locus. Behav Genet 2: 3–19. ↵ Jen KY, Cheung VG Jen KY, Cheung VG. 2003. Transcriptional response of lymphoblastoid cells to ionizing radiation...
  3. Research: Large transcription units unify copy number variants and common fragile sites arising under replication stress
    • Thomas E. Wilson,
    • Martin F. Arlt,
    • So Hae Park,
    • Sountharia Rajendran,
    • Michelle Paulsen,
    • Mats Ljungman,
    • and Thomas W. Glover
    Genome Res. February 2015 25: 189-200; Published in Advance November 4, 2014, doi:10.1101/gr.177121.114
    .... Both simple and complex CNVs with nonhomologous breakpoint junctions arise sporadically and are induced in normal human cells by partial inhibition of replication with low-doses of aphidicolin (APH), hydroxyurea (HU), or ionizing radiation (IR) (Fig. 1A; Arlt et al. 2009, 2011, 2014). Similar CNVs were...
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  4. Research: Genomic analysis of primordial dwarfism reveals novel disease genes
    • Ranad Shaheen,
    • Eissa Faqeih,
    • Shinu Ansari,
    • Ghada Abdel-Salam,
    • Zuhair N. Al-Hassnan,
    • Tarfa Al-Shidi,
    • Rana Alomar,
    • Sameera Sogaty,
    • and Fowzan S. Alkuraya
    Genome Res. February 2014 24: 291-299; Published in Advance January 3, 2014, doi:10.1101/gr.160572.113
    ...DNAdamage repair and the embryonic lethal phenotype in the knockout mouse also support the candidacy of this variant (Gao et al. 1998; Ma et al. 2004). Indeed, we were able to show that XRCC4 knockdown in control cells resulted in a significant impairment in DNA damage following ionizing radiation (Fig. 4D...
  5. Research: A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution
    • Sreeram V. Ramagopalan,
    • Andreas Heger,
    • Antonio J. Berlanga,
    • Narelle J. Maugeri,
    • Matthew R. Lincoln,
    • Amy Burrell,
    • Lahiru Handunnetthi,
    • Adam E. Handel,
    • Giulio Disanto,
    • Sarah-Michelle Orton,
    • Corey T. Watson,
    • Julia M. Morahan,
    • Gavin Giovannoni,
    • Chris P. Ponting,
    • George C. Ebers,
    • and Julian C. Knight
    Genome Res. October 2010 20: 1352-1360; Published in Advance August 24, 2010, doi:10.1101/gr.107920.110
    .... Multiple genetic loci for bone mineral density and fractures. N Engl J Med 358: 2355–2365. Tusher VG, Tibshirani R, Chu G. 2001. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci 98: 5116– 5121. Voight BF, Kudaravalli S,WenX, Pritchard JK. 2006. Amap...
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  6. LETTER: Heterozygous carriers of Nijmegen Breakage Syndrome have a distinct gene expression phenotype
    • Vivian G. Cheung and
    • Warren J. Ewens
    Genome Res. August 2006 16: 973-979; Published in Advance June 29, 2006, doi:10.1101/gr.5320706
    ...rearrangements, sensitivity to ionizing radiation, and defects in cell cycle checkpoint. Nibrin is a component of the hMre/hRad50 complex that plays a key role in cellular DNA damage response ( Carney et al. 1998 ). NBS is a rare disease. However, the frequency of heterozygous carriers is estimated to be as high...
  7. Research: A genomic portrait of the genetic architecture and regulatory impact of microRNA expression in response to infection
    • Katherine J. Siddle,
    • Matthieu Deschamps,
    • Ludovic Tailleux,
    • Yohann Nédélec,
    • Julien Pothlichet,
    • Geanncarlo Lugo-Villarino,
    • Valentina Libri,
    • Brigitte Gicquel,
    • Olivier Neyrolles,
    • Guillaume Laval,
    • Etienne Patin,
    • Luis B. Barreiro,
    • and Lluís Quintana-Murci
    Genome Res. May 2014 24: 850-859; Published in Advance January 30, 2014, doi:10.1101/gr.161471.113
    ...; Romanoski et al. 2010; Maranville et al. 2011; Barreiro et al. 2012). In humans, recent studies of protein-coding gene expression have identified response eQTLs related to oxidative stress (Romanoski et al. 2010), ionizing radiation (Smirnov et al. 2009), drug treatment (Maranville et al. 2011...
  8. Research: Whole-transcriptome sequencing identifies a distinct subtype of acute lymphoblastic leukemia with predominant genomic abnormalities of EP300 and CREBBP
    • Maoxiang Qian,
    • Hui Zhang,
    • Shirley Kow-Yin Kham,
    • Shuguang Liu,
    • Chuang Jiang,
    • Xujie Zhao,
    • Yi Lu,
    • Charnise Goodings,
    • Ting-Nien Lin,
    • Ranran Zhang,
    • Takaya Moriyama,
    • Zhaohong Yin,
    • Zhenhua Li,
    • Thuan Chong Quah,
    • Hany Ariffin,
    • Ah Moy Tan,
    • Shuhong Shen,
    • Deepa Bhojwani,
    • Shaoyan Hu,
    • Suning Chen,
    • Huyong Zheng,
    • Ching-Hon Pui,
    • Allen Eng-Juh Yeoh,
    • and Jun J. Yang
    Genome Res. February 2017 27: 185-195; Published in Advance November 30, 2016, doi:10.1101/gr.209163.116
    ...of many hematologic malignancies. Often as initiating events, these structural abnormalities result in fusion proteins involving transcription factors important for hematopoietic differentiation and/or signaling molecules regulating cell proliferation and cell cycle. In contrast, epigenetic regulator...
  9. ARTICLE: The landscape of histone modifications across 1% of the human genome in five human cell lines
    • Christoph M. Koch,
    • Robert M. Andrews,
    • Paul Flicek,
    • Shane C. Dillon,
    • Ulaş Karaöz,
    • Gayle K. Clelland,
    • Sarah Wilcox,
    • David M. Beare,
    • Joanna C. Fowler,
    • Phillippe Couttet,
    • Keith D. James,
    • Gregory C. Lefebvre,
    • Alexander W. Bruce,
    • Oliver M. Dovey,
    • Peter D. Ellis,
    • Pawandeep Dhami,
    • Cordelia F. Langford,
    • Zhiping Weng,
    • Ewan Birney,
    • Nigel P. Carter,
    • David Vetrie,
    • and Ian Dunham
    Genome Res. June 2007 17: 691-707; doi:10.1101/gr.5704207
    ...lines including the ENCODE Consortium common cell lines GM06990 (lymphoblastoid) and HeLa-S3, as well as K562, HFL-1, and MOLT4, we identified clear patterns of histone modification profiles with respect to genomic features. H3K4me3, H3K4me2, and H3ac modifications are tightly associated...
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  10. Research: Natural genetic variation caused by small insertions and deletions in the human genome
    • Ryan E. Mills,
    • W. Stephen Pittard,
    • Julienne M. Mullaney,
    • Umar Farooq,
    • Todd H. Creasy,
    • Anup A. Mahurkar,
    • David M. Kemeza,
    • Daniel S. Strassler,
    • Chris P. Ponting,
    • Caleb Webber,
    • and Scott E. Devine
    Genome Res. June 2011 21: 830-839; Published in Advance April 1, 2011, doi:10.1101/gr.115907.110
    .... To identify INDELs that are likely to be disruptive in humans, we identified INDELs that (1) reside within coding exons and cause frameshifts or overlap exon boundaries, (2) affect more than just the last exon, and (3) affect all Ensembl transcripts for the overlapped gene. Filtering on these three criteria...
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