Rxivist logo

Identification of spatial compartments in tissue from in situ sequencing data

By Gabriele Partel, Markus Hilscher, Giorgia Milli, Leslie Solorzano, Anna H. Klemm, Mats Nilsson, Carolina Wahlby

Posted 18 Sep 2019
bioRxiv DOI: 10.1101/765842

Spatial organization of tissue characterizes biological function, and spatially resolved gene expression has the power to reveal variations of features with high resolution. Here, we propose a novel graph-based in situ sequencing decoding approach that improves recall, enabling precise spatial gene expression analysis. We apply our method on in situ sequencing data from mouse brain sections, identify spatial compartments that correspond with known brain regions, and relate them with tissue morphology.

Download data

  • Downloaded 848 times
  • Download rankings, all-time:
    • Site-wide: 36,201
    • In neuroscience: 4,783
  • Year to date:
    • Site-wide: 63,722
  • Since beginning of last month:
    • Site-wide: 74,446

Altmetric data

Downloads over time

Distribution of downloads per paper, site-wide