Dynamics of Drosophila endoderm specification

Shannon E. Keenan, Maria Avdeeva, Liu Yang, Daniel S. Alber, Eric Francis Wieschaus, Stanislav Y. Shvartsman

Research output: Contribution to journalArticlepeer-review

Abstract

SignificanceTo understand developmental patterning of an organism, it is necessary to accurately measure how the state of a gene regulatory network is changing over time. One way of extracting dynamics of a network involves simultaneously imaging several reporters within fixed tissue. Reconstructing dynamics from such data requires staging many samples over time and often leads to low temporal resolution. Time-lapse microscopy of fluorescent transcriptional reporters has revolutionized studies of biological dynamics at the single-cell level. However, this method is limited by the number of reporters that can be imaged at one time. We present a computational method for addressing this problem and demonstrate its application by modeling the gene regulatory network underlying Drosophila posterior patterning and reconstructing its developmental dynamics.

Original languageEnglish (US)
Pages (from-to)e2112892119
JournalProceedings of the National Academy of Sciences of the United States of America
Volume119
Issue number15
DOIs
StatePublished - Apr 12 2022

All Science Journal Classification (ASJC) codes

  • General

Keywords

  • data integration
  • Drosophila development
  • gene regulatory networks
  • image registration
  • transcriptomics

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