Searching journal content for articles similar to Abdi et al. 12 (7): 1135.

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  1. Method: Systematic mapping of TF-mediated cell fate changes by a pooled induction coupled with scRNA-seq and multi-omics approaches
    • Muyoung Lee,
    • Qingqing Guo,
    • Mijeong Kim,
    • Joonhyuk Choi,
    • Alia Segura,
    • Alper Genceroglu,
    • Lucy LeBlanc,
    • Nereida Ramirez,
    • Yu Jin Jang,
    • Yeejin Jang,
    • Bum-Kyu Lee,
    • Edward M. Marcotte,
    • and Jonghwan Kim
    Genome Res. March 2024 34: 484-497; Published in Advance April 5, 2024, doi:10.1101/gr.277926.123
    ...by mass spectrometry (bioIP/MS) approach (Kim et al. 2009), will provide a powerful platform to identify TFs capable of cell fate changes and to gain insights into the mechanisms of TF-mediated cell fate conversion. This approach holds great potential for generating desired cell types and for advancing...
    OPEN ACCESS ARTICLE
  2. Methods: Whole proteome analysis of post-translational modifications: Applications of mass-spectrometry for proteogenomic annotation
    • Nitin Gupta,
    • Stephen Tanner,
    • Navdeep Jaitly,
    • Joshua N. Adkins,
    • Mary Lipton,
    • Robert Edwards,
    • Margaret Romine,
    • Andrei Osterman,
    • Vineet Bafna,
    • Richard D. Smith,
    • and Pavel A. Pevzner
    Genome Res. September 2007 17: 1362-1377; Published in Advance August 9, 2007, doi:10.1101/gr.6427907
    ...magnified in recent meta-genomic projects, which seek to sample DNA from the environment ( Venter et al. 2004 ; http://www.sorcerer2expedition.org ). In this article, we demonstrate the use of liquid chromatography–coupled mass spectrometry (LC-MS/MS) for both proteomic and genomic annotations of bacteria...
  3. Method: High resolution mapping of modified DNA nucleobases using excision repair enzymes
    • D. Suzi Bryan,
    • Monica Ransom,
    • Biniam Adane,
    • Kerri York,
    • and Jay R. Hesselberth
    Genome Res. September 2014 24: 1534-1542; Published in Advance July 11, 2014, doi:10.1101/gr.174052.114
    .... 1983. Formation of an adeninethymine photoadduct in the deoxydinucleoside monophosphate d(TpA) and in DNA. Science 220: 723–725. Chowdhury G, Guengerich FP. 2008. Direct detection and mapping of sites of base modification in DNA fragments by tandem mass spectrometry. Agnew Chem Int Ed Engl 47: 381...
    OPEN ACCESS ARTICLE
  4. Method: A versatile type VI CRISPR-based approach for targeted m6A demethylation in mRNAs
    • Panagiotis G. Adamopoulos,
    • Konstantina Athanasopoulou,
    • and Andreas Scorilas
    Genome Res. January 2026 36: 169-182; Published in Advance December 11, 2025, doi:10.1101/gr.280476.125
    ...). The investigation of RNA modifications necessitates the refinement of precise and sensitive detection methodologies. High-performance liquid chromatography (HPLC) coupled with mass spectrometry (MS) has emerged as the gold-standard workflow for assessing m6A levels in RNA samples (Zhang et al. 2022). Although HPLC...
  5. Method: Capturing in vivo RNA transcriptional dynamics from the malaria parasite Plasmodium falciparum
    • Heather J. Painter,
    • Manuela Carrasquilla,
    • and Manuel Llinás
    Genome Res. June 2017 27: 1074-1086; Published in Advance April 17, 2017, doi:10.1101/gr.217356.116
    ...pyrimidine salvage pathway versus endogenous de novo pyrimidine synthesis (Fig. 2A). Using liquid chromatography mass spectrometry (LCMS), we directly measured the incorporation of 15N2-uracil into the uracil monophosphate (UMP) pyrimidine pool. The results clearly show that 3D7cam parasites expressing FCU...
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