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Spatial omics profiling technologies

Emerging spatial omics methods enable the charting of cellular heterogeneity, complex tissue architectures and dynamic changes during development and disease

  • Jeffrey R. Moffitt
  • Emma Lundberg
  • Holger Heyn
Review Article


  • Stylized multi-coloured Circos plot

    This Nature Milestone provides a perspective of major genomic sequencing-related developments in the 21st century — from the first human reference genome, through methodological breakthroughs, to the impact of sequencing on fields as diverse as microbiology, cancer and palaeogenetics.

  • Dark blue shape of a crab on a light blue blackground, made up of thousands of individuals cells

    This Nature Milestone celebrates two decades of breakthroughs in basic, translational and clinical research, which have revolutionized our understanding and management of cancer.

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    • Advances in genomic technologies have enabled investigations into a wide range of species. In this Review, the authors describe recent studies in both non-model and model organisms that illustrate the diversity of animal sex chromosomes with respect to their evolutionary histories and mechanistic roles in sex-determination systems.

      • Zexian Zhu
      • Lubna Younas
      • Qi Zhou
      Review Article
    • RNA-binding proteins regulate the lifecycle of RNA, and their dysregulation is associated with diseases such as cancer and neurodegeneration. Using methods based on ultraviolet crosslinking followed by immunoprecipitation (CLIP), we can now begin to decode the mechanisms of the interactions between RNA-binding proteins and RNA. This Review discusses recent insights from and future applications of these methodologies.

      • Joy S. Xiang
      • Danielle M. Schafer
      • Gene W. Yeo
      Review Article
    • Single-cell, spatial and multi-omic profiling technologies generate large-scale data that reveal the output of genome-scale experiments across diverse cells, tissues and organisms. Cole Trapnell reviews the underlying core statistical challenges that need to be tackled to harness the power of these technologies and advance our understanding of gene function in health and disease.

      • Cole Trapnell
      Review Article
    • In this Review, Pinto and Bhatt provide an overview of DNA-sequencing and RNA-sequencing approaches that can be used to study the composition, structure, and function of microbiomes and discuss the biological insights they provide.

      • Yishay Pinto
      • Ami S. Bhatt
      Review Article
  • Two studies in Nature reveal the mechanistic and structural properties of a family of mobile genetic elements that can be reprogrammed to engineer genome modifications.

    • Henry Ertl
    Research Highlight
  • In this Tools of the Trade article, Andrey Tvardovskiy and Saulius Lukauskas introduce the web resource MARCS, which offers a set of visualization tools to explore chromatin regulatory circuits from either a protein- or modification-centred perspective.

    • Andrey Tvardovskiy
    • Saulius Lukauskas
    Tools of the Trade
  • Petrazzini et al. leverage exome sequencing data and a novel machine learning-based marker to identify rare and ultra-rare coding variants associated with coronary artery disease.

    • Linda Koch
    Research Highlight
  • Thirty years after the discovery and cloning of the cancer susceptibility gene BRCA1, William Foulkes reflects on this defining moment for breast and ovarian cancer genetics and how far the field has come.

    • William D. Foulkes
Colourful exploding fireworks, made up of on individual single cells, on a black background

Single-cell omics

Many biological phenomena are either invisible or only partially characterized when interrogated using standard analyses that average data across a bulk population of cells. Now, technological advances are providing unprecedented opportunities to analyse the complexities of biological systems at the single-cell level. High-throughput analyses of the genomes, transcriptomes and proteomes of single cells are yielding novel and important insights into diverse processes such as development, gene-expression dynamics, tissue heterogeneity and disease pathogenesis. In this Focus issue, we highlight the transformative potential of single-cell omics approaches.
  • Linda Koch


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