Identification of spatial compartments in tissue from in situ sequencing data

• 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.

Ämnesord

NATURVETENSKAP  -- Data- och informationsvetenskap -- Bioinformatik (hsv//swe)

NATURAL SCIENCES  -- Computer and Information Sciences -- Bioinformatics (hsv//eng)

TEKNIK OCH TEKNOLOGIER  -- Elektroteknik och elektronik -- Signalbehandling (hsv//swe)

ENGINEERING AND TECHNOLOGY  -- Electrical Engineering, Electronic Engineering, Information Engineering -- Signal Processing (hsv//eng)

MEDICIN OCH HÄLSOVETENSKAP  -- Medicinska och farmaceutiska grundvetenskaper -- Neurovetenskaper (hsv//swe)

MEDICAL AND HEALTH SCIENCES  -- Basic Medicine -- Neurosciences (hsv//eng)

Nyckelord

in situ sequencing

spatial omics

Publikations- och innehållstyp

vet (ämneskategori)

ovr (ämneskategori)