PuSH - Publikationsserver des Helmholtz Zentrums München: An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy.

Informationen

Hinweise zu Qualitätskriterien von Zeitschriften

Open-Access-Richtlinie der Helmholtz-Gemeinschaft 2016

CC Licencences

Metriken für Publikationen

Navigation

Startseite

English

EVA: Veröffentlichen

Neuer EVA Antrag

Recherche

Erweiterte Suche

Durchblättern nach ...

... HMGU-Autoren/Konsortien

... Organisationsstruktur

... Zeitschriften

... Publikationstypen

... Forschungsdaten

... Arbeitsgruppen

... Erscheinungsjahr

Publikationen im Überblick

Statistik

HGF Fortschrittsbericht

OA Publikationen

Eintragen

Neue Publikation eintragen

Neue Publikation holen aus...

...EVA

Fehlende Publikation melden

Highlights

Suche

Hilfe & Kontakt

Ansprechpartner

Hilfe

Datenschutz

Helmholtz Open Science

Bibliometrische Indikatoren

SHERPA/RoMEO

DOAJ

Export:

Text

Endnote (RIS) BIB

BibTeX

Buggenthin, F. ; Marr, C. ; Schwarzfischer, M. ; Hoppe, P.S. ; Hilsenbeck, O. ; Schroeder, T. ; Theis, F.J.

An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy.

BMC Bioinformatics 14:297 (2013)

Verlagsversion Volltext

DOI

PMC

	Open Access Gold

Abstract
Metriken
Zusatzinfos

Background;In recent years, high-throughput microscopy has emerged as a powerful tool to analyze cellular dynamicsin an unprecedentedly high resolved manner. The amount of data that is generated, for examplein long-term time-lapse microscopy experiments, requires automated methods for processing andanalysis. Available software frameworks are well suited for high-throughput processing of fluorescenceimages, but they often do not perform well on bright field image data that varies considerablybetween laboratories, setups, and even single experiments.Results;In this contribution, we present a fully automated image processing pipeline that is able to robustly segment and analyze cells with ellipsoid morphology from bright field microscopy in a highthroughput, yet time efficient manner. The pipeline comprises two steps: (i) Image acquisition is adjusted to obtain optimal bright field image quality for automatic processing. (ii) A concatenation of fast performing image processing algorithms robustly identifies single cells in each image. We applied the method to a time-lapse movie consisting of ~315,000 images of differentiating hematopoietic stem cells over 6 days. We evaluated the accuracy of our method by comparing the number of identified cells with manual counts. Our method is able to segment images with varying cell density and different cell types without parameter adjustment and clearly outperforms a standard approach. By computing population doubling times, we were able to identify three growth phases in the stem cell population throughout the whole movie, and validated our result with cell cycle times from single cell tracking.Conclusions;Our method allows fully automated processing and analysis of high-throughput bright field microscopydata. The robustness of cell detection and fast computation time will support the analysisof high-content screening experiments, on-line analysis of time-lapse experiments as well as developmentof methods to automatically track single-cell genealogies.

Impact Factor

Scopus SNIP

Web of Science
Times Cited

Scopus
Cited By

Altmetric

3.024

1.078