An adaptable analysis workflow for characterization of platelet spreading and morphology

Jeremy Pike; Victoria Simms; Christopher Smith; Neil Morgan; Abdullah Khan; Natalie Poulter; Iain Styles; Steven Thomas

doi:10.1080/09537104.2020.1748588

An adaptable analysis workflow for characterization of platelet spreading and morphology

Jeremy Pike, Victoria Simms, Christopher Smith, Neil Morgan, Abdullah Khan, Natalie Poulter, Iain Styles, Steven Thomas

Research output: Contribution to journal › Article › peer-review

3 Citations (Scopus)

215 Downloads (Pure)

Abstract

The assessment of platelet spreading through light microscopy, and the subsequent quantification of parameters such as surface area and circularity, is a key assay for many platelet biologists. Here we present an analysis workflow which robustly segments individual platelets to facilitate the analysis of large numbers of cells while minimizing user bias. Image segmentation is performed by interactive learning and touching platelets are separated with an efficient semi-automated protocol. We also use machine learning methods to robustly automate the classification of platelets into different subtypes. These adaptable and reproducible workflows are made freely available and are implemented using the open-source software KNIME and ilastik.

Original language	English
Pages (from-to)	54-58
Number of pages	5
Journal	Platelets
Volume	32
Issue number	1
Early online date	23 Apr 2020
DOIs	https://doi.org/10.1080/09537104.2020.1748588
Publication status	Published - 2 Jan 2021

Bibliographical note

Funding Information:
The authors gratefully acknowledge Steve P Watson and the members of the Birmingham platelet group who provided many useful comments and advice. The work was funded by the Centre of Membrane Proteins and Receptors (COMPARE), Universities of Birmingham and Nottingham, Midlands, UK and the British Heart Foundation through the Chair award (CH0/03/003) to Steve P Watson and a project grant (PG/15/114/31945) to Steven G Thomas.

Publisher Copyright:
© 2020 The Author(s). Published with license by Taylor & Francis Group, LLC.

Keywords

Image analysis
machine learning
platelets
spreading

ASJC Scopus subject areas

Hematology

Access to Document

10.1080/09537104.2020.1748588Licence: Creative Commons: Attribution (CC BY)

PikeJ2020adaptableFinal published version, 1.69 MBLicence: Creative Commons: Attribution (CC BY)

Regulation of Platelet Actin Nodules and their role in Thrombus Stability
Thomas, S. & Poulter, N.
British Heart Foundation
4/07/16 → 3/07/18
Project: Research

Cite this

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title = "An adaptable analysis workflow for characterization of platelet spreading and morphology",

abstract = "The assessment of platelet spreading through light microscopy, and the subsequent quantification of parameters such as surface area and circularity, is a key assay for many platelet biologists. Here we present an analysis workflow which robustly segments individual platelets to facilitate the analysis of large numbers of cells while minimizing user bias. Image segmentation is performed by interactive learning and touching platelets are separated with an efficient semi-automated protocol. We also use machine learning methods to robustly automate the classification of platelets into different subtypes. These adaptable and reproducible workflows are made freely available and are implemented using the open-source software KNIME and ilastik.",

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author = "Jeremy Pike and Victoria Simms and Christopher Smith and Neil Morgan and Abdullah Khan and Natalie Poulter and Iain Styles and Steven Thomas",

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AU - Simms, Victoria

AU - Smith, Christopher

AU - Morgan, Neil

AU - Khan, Abdullah

AU - Poulter, Natalie

AU - Styles, Iain

AU - Thomas, Steven

N1 - Funding Information: The authors gratefully acknowledge Steve P Watson and the members of the Birmingham platelet group who provided many useful comments and advice. The work was funded by the Centre of Membrane Proteins and Receptors (COMPARE), Universities of Birmingham and Nottingham, Midlands, UK and the British Heart Foundation through the Chair award (CH0/03/003) to Steve P Watson and a project grant (PG/15/114/31945) to Steven G Thomas. Publisher Copyright: © 2020 The Author(s). Published with license by Taylor & Francis Group, LLC.

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An adaptable analysis workflow for characterization of platelet spreading and morphology

Abstract

Bibliographical note

Keywords

ASJC Scopus subject areas

Access to Document

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Projects

Regulation of Platelet Actin Nodules and their role in Thrombus Stability

Cite this