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Showing 1–12 of 12 results
Advanced filters: Author: Lisa Sikkema Clear advanced filters

  • Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.

    • Louis B. Kuemmerle
    • Malte D. Luecken
    • Fabian J. Theis
    ResearchOpen Access
    Nature Methods
    Volume: 21, P: 2260-2270

  • An integrated analysis of over 100 single-cell and single-nucleus transcriptomics studies illustrates severe acute respiratory syndrome coronavirus 2 viral entry gene coexpression patterns across different human tissues, and shows association of age, smoking status and sex with viral entry gene expression in respiratory cell populations.

    • Christoph Muus
    • Malte D. Luecken
    • Xiaohui Zhang
    Research
    Nature Medicine
    Volume: 27, P: 546-559

  • Building crystal structures into the electron density is an important step in protein structure solution. Here, the authors recruit online game players, students, and experienced crystallographers to compete in a competition to solve a new structure, and find that crowdsourcing model-building works.

    • Scott Horowitz
    • Brian Koepnick
    • James C. A. Bardwell
    ResearchOpen Access
    Nature Communications
    Volume: 7, P: 1-11

  • Here the authors identify age-associated changes in the epithelial cell compartment of the thymus that form high-density nonproductive microenvironmental niches that contribute toward thymic involution and inhibit its repair following injury.

    • Anastasia I. Kousa
    • Lorenz Jahn
    • Jarrod A. Dudakov
    ResearchOpen Access
    Nature Immunology
    Volume: 25, P: 1593-1606

  • Comparison of multiple lesions from individual pancreases sheds light on how ancestral clones can spread through the ductal system and give rise to precursor lesions, with acquisition of further mutations leading to pancreatic cancer.

    • Alvin P. Makohon-Moore
    • Karen Matsukuma
    • Christine A. Iacobuzio-Donahue
    Research
    Nature
    Volume: 561, P: 201-205

  • A single-cell atlas of the human lungs, integrating data from 2.4 million cells from 486 individuals and including samples from healthy and diseased lungs, provides a roadmap for the generation of organ-scale cell atlases.

    • Lisa Sikkema
    • Ciro Ramírez-Suástegui
    • Fabian J. Theis
    ResearchOpen Access
    Nature Medicine
    Volume: 29, P: 1563-1577

  • Incorporating a series of analytical steps, from data extraction and quality control to the generation of low-dimensional representations and to longitudinal analyses, an open-source software is proposed to standardize current electronic health record data processing and analysis pipelines.

    • Lukas Heumos
    • Philipp Ehmele
    • Fabian J. Theis
    ResearchOpen Access
    Nature Medicine
    Volume: 30, P: 3369-3380

  • Practitioners in the field of single-cell omics are now faced with diverse options for analytical tools to process and integrate data from various molecular modalities. In an Expert Recommendation article, the authors provide guidance on robust single-cell data analysis, including choices of best-performing tools from benchmarking studies.

    • Lukas Heumos
    • Anna C. Schaar
    • Fabian J. Theis
    Reviews
    Nature Reviews Genetics
    Volume: 24, P: 550-572