Modeling Spatial Correlation of Transcripts with Application to Developing Pancreas.

ABSTRACT: Recently high-throughput image-based transcriptomic methods were developed and enabled researchers to spatially resolve gene expression variation at the molecular level for the first time. In this work, we develop a general analysis tool to quantitatively study the spatial correlations of gene expression in fixed tissue sections. As an illustration, we analyze the spatial distribution of single mRNA molecules measured by in situ sequencing on human fetal pancreas at three developmental time points-80, 87 and 117 days post-fertilization. We develop a density profile-based method to capture the spatial relationship between gene expression and other morphological features of the tissue sample such as position of nuclei and endocrine cells of the pancreas. In addition, we build a statistical m

SUBMITTER: Liu R 

PROVIDER: S-EPMC6447534 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature