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Showing 1–18 of 18 results
Advanced filters: Author: Ido Regev Clear advanced filters

  • Semiconductor-based, non-optical DNA sequencing technologies such as Ion Torrent sequencing offer speed and cost advantages compared with alternative techniques. Cheng et al. demonstrate a protocol allowing the use of Ion Torrent technology to sequence DNA from chromatin immunoprecipitation experiments.

    • Christine S. Cheng
    • Kunal Rai
    • Ido Amit
    Research
    Nature Communications
    Volume: 4, P: 1-7

  • Using global profiling of gene and protein expression to derive models of regulatory networks in mammals poses many challenges. Here, the authors describe a systematic functional strategy to tackle these issues with a focus on its use in the immune system.

    • Ido Amit
    • Aviv Regev
    • Nir Hacohen
    Reviews
    Nature Reviews Immunology
    Volume: 11, P: 873-880

  • The relative contributions of RNA production, processing and degradation rates to cellular RNA levels are not well understood. Using pulsed metabolic RNA labeling of stimulated dendritic cells in conjunction with nCounter RNA quantification, RNA sequencing and computer modeling, Regev and colleagues unravel principles that determine RNA expression levels.

    • Michal Rabani
    • Joshua Z Levin
    • Aviv Regev
    Research
    Nature Biotechnology
    Volume: 29, P: 436-442

  • Nature Biotechnology asks a selection of researchers about the most exciting frontier in their field and the most needed technologies for advancing knowledge and applications.

    • Ido Amit
    • David Baker
    • Tian Zhang
    Special Features
    Nature Biotechnology
    Volume: 34, P: 270-275

  • The onset of yield, where a material starts to deform irreversibly, remains poorly understood for amorphous materials. Here, the authors use computer simulations that reveal how depinning-like processes in amorphous materials can result in large cooperative displacements of atoms during yield and cause irreversible, chaotic behaviour.

    • Ido Regev
    • John Weber
    • Turab Lookman
    ResearchOpen Access
    Nature Communications
    Volume: 6, P: 1-8

  • Plasmodium falciparum secretes extracellular vesicles (EVs) while growing inside red blood cells (RBCs). Here the authors show that these EVs contain assembled and functional 20S proteasome complexes that remodel the cytoskeleton of naïve human RBCs, priming the RBCs for parasite invasion.

    • Elya Dekel
    • Dana Yaffe
    • Neta Regev-Rudzki
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-19

  • Analysis of ATAC-seq and RNA-seq data from stimulated T cells identifies genetic variants that disrupt transcription factor binding sites within ATAC-seq peaks. ATAC quantitative trait loci (ATAC-QTLs) are enriched for autoimmune disease-associated variants.

    • Rachel E. Gate
    • Christine S. Cheng
    • Aviv Regev
    Research
    Nature Genetics
    Volume: 50, P: 1140-1150

  • Majewska et al. show that p16-expressing senescent cells enhance the stability of the immune checkpoint PD-L1 by downregulating its proteasome-mediated ubiquitin-dependent degradation, leading to their accumulation in ageing and chronic inflammation.

    • Julia Majewska
    • Amit Agrawal
    • Valery Krizhanovsky
    ResearchOpen Access
    Nature Cell Biology
    Volume: 26, P: 1336-1345

  • Reconstructing full-length transcripts from high-throughput RNA sequencing data is difficult without a reference genome sequence. Grabherr et al. describe Trinity, an algorithm for assembling full-length transcripts from short reads without first mapping the reads to a genome sequence.

    • Manfred G Grabherr
    • Brian J Haas
    • Aviv Regev
    Research
    Nature Biotechnology
    Volume: 29, P: 644-652

  • The Human Cell Atlas (HCA) aims to characterize cells from diverse individuals across the globe to better understand human biology. Here, the authors lay out principles and action items that have been adopted to affirm HCA’s commitment to equity so that the atlas is beneficial to all of humanity.

    • Ido Amit
    • Kristin Ardlie
    • Xiaowei Zhuang
    ReviewsOpen Access
    Nature Communications
    Volume: 15, P: 1-7

  • 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