PolNet

PolNet is an open-source software tool to study blood flow and cell-level biological activity during vessel morphogenesis. It provides a comprehensive image acquisition, segmentation, and analysis protocol that enables the quantification of endothelial cell polarity in entire in vivo vascular networks. The tool utilizes computational fluid dynamics to characterize the hemodynamics of the vascular networks under study.

PolNet is the first software tool that enables a network-level analysis of polarity and flow for individual endothelial cells. The ability to analyze both polarity and flow of individual cells is crucial to understanding vascular patterning mechanisms.

PolNet has already proven invaluable in studying endothelial cell polarization and migration during vascular patterning, as demonstrated by two recent publications. Additionally, the tool's capability to correlate blood flow with other experimental observations at the cellular/molecular level makes it a versatile resource for researchers in the field.

Topic

Haematology

Detail

  • Operation: Image analysis

  • Software interface: Graphical user interface

  • Language: Python, MATLAB

  • License: GNU Lesser General Public License version 3

  • Cost: Free

  • Version name: -

  • Credit: The Francis Crick Institute with core funding from Cancer Research UK, European Research Council consolidator Reshape grant, the British Council’s Britain-Israel Research and Academic Exchange initiative, European Research Council, the H2020-Twinning grant, the Fundação para a Ciência e a Tecnologia funding, FEDER through Programa Operacional Regional de Lisboa 2020, PORTUGAL 2020, Fundação para a Ciência e a Tecnologia, the UK Engineering and Physical Sciences Research Council under the project “UK Consortium on Mesoscale Engineering Sciences”, the Fondation Leducq , the embedded CSE programme of the ARCHER UK National Supercomputing Service, the UK Medical Research Council, the UCL Provost, European Research Council grants ComPat and CompBioMed.

  • Input: -

  • Output: -

  • Contact: miguel.bernabeu@ed.ac.uk

  • Collection: -

  • Maturity: -

Publications

  • PolNet: A Tool to Quantify Network-Level Cell Polarity and Blood Flow in Vascular Remodeling.
  • Bernabeu MO, et al. PolNet: A Tool to Quantify Network-Level Cell Polarity and Blood Flow in Vascular Remodeling. PolNet: A Tool to Quantify Network-Level Cell Polarity and Blood Flow in Vascular Remodeling. 2018; 114:2052-2058. doi: 10.1016/j.bpj.2018.03.032
  • https://doi.org/10.1016/j.bpj.2018.03.032
  • PMID: 29742399
  • PMC: PMC5961748

Download and documentation

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