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  • With the rise in number of eukaryotic species being fully sequenced, large scale phylogenetic profiling can give insights on gene function, Here, the authors describe a machine-learning approach that integrates co-evolution across eukaryotic clades to predict gene function and functional interactions among human genes.

    • Doron Stupp
    • Elad Sharon
    • Yuval Tabach
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-14

  • To identify comprehensively factors involved in RNAi and microRNA-mediated gene expression regulation, this study performed a phylogenetic analysis of 86 eukaryotic species; the candidates this approach highlighted were subjected to Bayesian analysis with transcriptional and proteomic interaction data, identifying protein orthologues of already known RNAi silencing factors, as well as other hits involved in splicing, suggesting a connection between the two processes.

    • Yuval Tabach
    • Allison C. Billi
    • Gary Ruvkun
    Research
    Nature
    Volume: 493, P: 694-698

  • Sexual dimorphism is observed frequently in immune disorders, but the underlying insights are still unclear. Here the authors analyze transcriptome and epigenome changes induced by interferon in various mouse immune cell types, and find only a restricted set of sexual dimorphism genes in innate immunity and macrophages.

    • Shani Talia Gal-Oz
    • Barbara Maier
    • Tal Shay
    ResearchOpen Access
    Nature Communications
    Volume: 10, P: 1-14

  • Stem cell therapies and regenerative medicine promise to revolutionize the treatment of many urological disorders. Here, Aboushwareb and Atala review the techniques used to generate stem cells for therapeutic applications, and discuss their potential for reconstructing the urinary tract, treating urinary incontinence, understanding prostate dysfunction and restoring fertility.

    • Tamer Aboushwareb
    • Anthony Atala
    Reviews
    Nature Clinical Practice Urology
    Volume: 5, P: 621-631

  • Exome sequence analysis of nearly 10,000 people was carried out to identify alleles associated with early-onset myocardial infarction; mutations in low-density lipoprotein receptor (LDLR) or apolipoprotein A-V (APOA5) were associated with disease risk, identifying the key roles of low-density lipoprotein cholesterol and metabolism of triglyceride-rich lipoproteins.

    • Ron Do
    • Nathan O. Stitziel
    • Sekar Kathiresan
    Research
    Nature
    Volume: 518, P: 102-106

  • This study uses chromatin marks in four mouse cell types to identify ∼1,600 large multi-exonic transcriptional units that do not overlap known protein-coding loci and are highly conserved. Putative functions are assigned to each of these large intervening non-coding RNAs, which range from ES pluripotency to cell proliferation.

    • Mitchell Guttman
    • Ido Amit
    • Eric S. Lander
    Research
    Nature
    Volume: 458, P: 223-227

  • The transcriptional circuitry that controls the differentiation of hematopoietic stem cells into cells of the immune system is only partially understood. Koller and colleagues use a computational algorithm to identify previously unknown differentiation stage–specific regulators of mouse hematopoiesis.

    • Vladimir Jojic
    • Tal Shay
    • Shannon Turley
    Research
    Nature Immunology
    Volume: 14, P: 633-643