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  • Here the authors apply low-input methyl RNA immunoprecipitation and sequencing to map the N6-methyladenosine landscape during mouse oocyte and early embryo development. They show that RNAs derived from retrotransposons are often N6-methyladenosine marked and so are many genes important for the maternal-to-zygotic transition.

    • Yunhao Wang
    • Yanjiao Li
    • Kin Fai Au
  • A quantitative atlas of RNA m5C sites in human and mouse tissues based on a new discovery pipeline allows the identification of sequence motifs and structural features associated with the modification and provides a resource for future studies.

    • Tao Huang
    • Wanying Chen
    • Rui Zhang
  • Structure maps of RNAs localized to chromatin, nucleoplasm and cytoplasm provide a rich resource with which to investigate the interplay of RNA structure, RNA–protein interactions and RNA modifications.

    • Lei Sun
    • Furqan M. Fazal
    • Qiangfeng Cliff Zhang
  • Comprehensive identification of mRNA-binding proteins in S. cerevisiae and C. elegans reveals their evolutionary conservation; strikingly, most components of the glycolytic pathway and proteasome are detected, thus possibly indicating an ancient mechanism for metabolic control.

    • Ana M Matia-González
    • Emma E Laing
    • André P Gerber
  • High-resolution MS identifies >4,300 SUMOylation sites in >1,600 proteins in human cells under standard growth conditions and after proteasome inhibition or heat shock. The data reveal cross-talk between SUMO and other post-translational modifications.

    • Ivo A Hendriks
    • Rochelle C J D'Souza
    • Alfred C O Vertegaal
  • A transcription activator–like effector nuclease (TALEN)-mediated knockout approach to delete human microRNA (miRNA) genes was used to generate a library of 540 TALEN pairs for 274 miRNA loci. As a case study, single and double knockouts for two related miRNAs, miR-141 and miR-200c, revealed intriguing functional differences.

    • Young-Kook Kim
    • Gabbine Wee
    • V Narry Kim
  • Analysis of data from The Cancer Genome Atlas generates a pan-cancer network of 143 recurrent miRNA-target relationships. The identified miRNAs were frequently regulated by genetic and epigenetic alterations in cancer. The work also reveals that some miRNAs might coordinately regulate cancer pathways, such as miR-29 regulation of TET1 and TDG mRNAs, encoding components from the active DNA demethylation pathway.

    • Anders Jacobsen
    • Joachim Silber
    • Chris Sander
    ResourceOpen Access
  • The accurate and thorough genome-wide detection of A-to-I editing has proven technically challenging. Using a combination of computational prediction and experimental validation, the authors report ~3,500 high-probability editing sites with sufficient accuracy to reveal the global patterns underlying biological functions of RNA editing in adult male Drosophila melanogaster.

    • Georges St Laurent
    • Michael R Tackett
    • Robert A Reenan
  • Individual microRNAs (miRNAs) can target many mRNAs that form networks of presumably cooperating genes. A new study now tests this idea by screening miRNAs and their targets in the context of dedifferentiation, or reprogramming, of mouse fibroblasts to induced pluripotent stem cells. These data establish two networks of miRNA-mRNA interactions that act together to suppress early stages of reprogramming.

    • Robert L Judson
    • Tobias S Greve
    • Robert Blelloch