Searching journal content for articles similar to Koudijs et al. 21 (12): 2181.

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  1. Method: RNA sequencing of Sleeping Beauty transposon-induced tumors detects transposon-RNA fusions in forward genetic cancer screens
    • Nuri A. Temiz,
    • Branden S. Moriarity,
    • Natalie K. Wolf,
    • Jesse D. Riordan,
    • Adam J. Dupuy,
    • David A. Largaespada,
    • and Aaron L. Sarver
    Genome Res. January 2016 26: 119-129; Published in Advance November 9, 2015, doi:10.1101/gr.188649.114
    ...Biotechnol 27: 264–274. KoudijsMJ, KlijnC, van derWeyden L, Kool J, tenHoeve J, Sie D, Prasetyanti PR, Schut E, Kas S, Whipp T, et al. 2011. High-throughput semiquantitative analysis of insertional mutations in heterogeneous tumors. Genome Res 21: 2181–2189. Li H, Handsaker B, Wysoker A, Fennell T, Ruan J...
  2. Research: L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis
    • Stephanie N. Schauer,
    • Patricia E. Carreira,
    • Ruchi Shukla,
    • Daniel J. Gerhardt,
    • Patricia Gerdes,
    • Francisco J. Sanchez-Luque,
    • Paola Nicoli,
    • Michaela Kindlova,
    • Serena Ghisletti,
    • Alexandre Dos Santos,
    • Delphine Rapoud,
    • Didier Samuel,
    • Jamila Faivre,
    • Adam D. Ewing,
    • Sandra R. Richardson,
    • and Geoffrey J. Faulkner
    Genome Res. May 2018 28: 639-653; Published in Advance April 11, 2018, doi:10.1101/gr.226993.117
    .... identified an exonic L1 insertion into the APC gene that very likely led to tumor initiation in a case of colorectal cancer, providing the first direct evidence for L1 involvement in oncogenesis (Miki et al. 1992). Since then, spurred by the advent of high-throughput sequencing approaches for identifying...
    OPEN ACCESS ARTICLE
  3. Method: Systematic evaluation of the effect of polyadenylation signal variants on the expression of disease-associated genes
    • Meng Chen,
    • Ran Wei,
    • Gang Wei,
    • Mingqing Xu,
    • Zhixi Su,
    • Chen Zhao,
    • and Ting Ni
    Genome Res. May 2021 31: 890-899; Published in Advance April 19, 2021, doi:10.1101/gr.270256.120
    ...of firefly to Renilla could be affected by the cotransfection efficiency of two plasmids into a single cell. In addition, by simply removing the SV40 pA signal in the test vector in their strategy, the inserted fragment with mutated PAS may cause unexpected transcriptional read-through near the potential...
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  4. Research: In vitro iCLIP-based modeling uncovers how the splicing factor U2AF2 relies on regulation by cofactors
    • F.X. Reymond Sutandy,
    • Stefanie Ebersberger,
    • Lu Huang,
    • Anke Busch,
    • Maximilian Bach,
    • Hyun-Seo Kang,
    • Jörg Fallmann,
    • Daniel Maticzka,
    • Rolf Backofen,
    • Peter F. Stadler,
    • Kathi Zarnack,
    • Michael Sattler,
    • Stefan Legewie,
    • and Julian König
    Genome Res. May 2018 28: 699-713; Published in Advance April 11, 2018, doi:10.1101/gr.229757.117
    ...recruitment to 3′ splice sites and clearance of introns. Using machine learning, we identify and experimentally validate novel trans-acting RBPs (including FUBP1, CELF6, and PCBP1) that modulate U2AF2 binding and affect splicing outcomes. Our study offers a blueprint for the high-throughput characterization...
  5. ARTICLES: Use of a fluorescent-PCR reaction to detect genomic sequence copy number and transcriptional abundance.
    • P W Chiang,
    • W J Song,
    • K Y Wu,
    • J R Korenberg,
    • E J Fogel,
    • M L Van Keuren,
    • D Lashkari,
    • and D M Kurnit
    Genome Res. October 1996 6: 1013-1026; doi:10.1101/gr.6.10.1013
    ...multiplex oligonucleotide synthesizer: Development of high-throughput, low-cost DNA synthesis. Proc. Natl. Acad. Sci. 92 : 7912 – 7915 . Lasko, D., Cavenee, W. and Nordenskjold. M. 1991 . Loss of constitutional heterozygosity in human cancer. Annu. Rev. Genet. 25 : 281 – 314 . Mansfield, E.S. and Kronick. M...
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