ArticleeLife2018
Automated cell-type classification in intact tissues by single-cell molecular profiling.
Article in eLife, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
68 citing papers in PubMed.
- Article
- Spatial lung imaging in clinical and translational settings.Breathe (Sheffield, England) · 2024Review
- IL-13 induces loss of CFTR in ionocytes and reduces airway epithelial fluid absorption.The Journal of clinical investigation · 2024Article
- Spatial Dissection of the Immune Landscape of Solid Tumors to Advance Precision Medicine.Cancer immunology research · 2024Review
- Transcriptional programs of Pitx2 and Tfap2a/Tfap2b controlling lineage specification of mandibular epithelium during tooth initiation.PLoS genetics · 2024Article
- Article
- Endosome positioning coordinates spatially selective GPCR signaling.Nature chemical biology · 2024Article
- Evidence for lung barrier regeneration by differentiation prior to binucleated and stem cell division.The Journal of cell biology · 2023Article
- Enablers and challenges of spatial omics, a melting pot of technologies.Molecular systems biology · 2023Review
- Transitional cell states sculpt tissue topology during lung regeneration.Cell stem cell · 2023Article
- Accurate classification of major brain cell types using in vivo imaging and neural network processing.PLoS biology · 2023Article
- Autocrine TGF-β-positive feedback in profibrotic AT2-lineage cells plays a crucial role in non-inflammatory lung fibrogenesis.Nature communications · 2023Article
- Spatial transcriptomics: recent developments and insights in respiratory research.Military Medical Research · 2023Review
- The expanding vistas of spatial transcriptomics.Nature biotechnology · 2023Review
- Article
- Single-Cell RNA Sequencing Reveals New Basic and Translational Insights in the Cystic Fibrosis Lung.American journal of respiratory cell and molecular biology · 2023Review
- Hybridization Chain Reaction Fluorescence In Situ Hybridization (HCR-FISH) in Ambystoma mexicanum Tissue.Methods in molecular biology (Clifton, N.J.) · 2023Article
- The emerging landscape of spatial profiling technologies.Nature reviews. Genetics · 2022Review
- Alveolar cell fate selection and lifelong maintenance of AT2 cells by FGF signaling.Nature communications · 2022Article
- Multi-apical polarity of alveolar stem cells and their dynamics during lung development and regeneration.iScience · 2022Article
8 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
A major challenge in biology is identifying distinct cell classes and mapping their interactions in vivo. Tissue-dissociative technologies enable deep single cell molecular profiling but do not provide spatial information. We developed a proximity ligation in situ hybridization technology (PLISH) with exceptional signal strength, specificity, and sensitivity in tissue. Multiplexed data sets can be acquired using barcoded probes and rapid label-image-erase cycles, with automated calculation of single cell profiles, enabling clustering and anatomical re-mapping of cells. We apply PLISH to expression profile ~2900 cells in intact mouse lung, which identifies and localizes known cell types, including rare ones. Unsupervised classification of the cells indicates differential expression of 'housekeeping' genes between cell types, and re-mapping of two sub-classes of Club cells highlights their segregated spatial domains in terminal airways. By enabling single cell profiling of various RNA species in situ, PLISH can impact many areas of basic and medical research.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.