ANDA: an open-source tool for automated image analysis of in vitro neuronal cells
Abstract Background Imaging of in vitro neuronal differentiation and measurements of cell morphologies have led to novel insights into neuronal development. Live-cell imaging techniques and large datasets of images have increased the demand for automated pipelines for quantitative analysis of neuron...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2023-10-01
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| Series: | BMC Neuroscience |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12868-023-00826-z |
| _version_ | 1827635469399097344 |
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| author | Hallvard Austin Wæhler Nils-Anders Labba Ragnhild Elisabeth Paulsen Geir Kjetil Sandve Ragnhild Eskeland |
| author_facet | Hallvard Austin Wæhler Nils-Anders Labba Ragnhild Elisabeth Paulsen Geir Kjetil Sandve Ragnhild Eskeland |
| author_sort | Hallvard Austin Wæhler |
| collection | DOAJ |
| description | Abstract Background Imaging of in vitro neuronal differentiation and measurements of cell morphologies have led to novel insights into neuronal development. Live-cell imaging techniques and large datasets of images have increased the demand for automated pipelines for quantitative analysis of neuronal morphological metrics. Results ANDA is an analysis workflow that quantifies various aspects of neuronal morphology from high-throughput live-cell imaging screens of in vitro neuronal cell types. This tool automates the analysis of neuronal cell numbers, neurite lengths and neurite attachment points. We used chicken, rat, mouse, and human in vitro models for neuronal differentiation and have demonstrated the accuracy, versatility, and efficiency of the tool. Conclusions ANDA is an open-source tool that is easy to use and capable of automated processing from time-course measurements of neuronal cells. The strength of this pipeline is the capability to analyse high-throughput imaging screens. |
| first_indexed | 2024-03-09T15:27:07Z |
| format | Article |
| id | doaj.art-49021e2e389c42848da16f2dcc29076a |
| institution | Directory Open Access Journal |
| issn | 1471-2202 |
| language | English |
| last_indexed | 2024-03-09T15:27:07Z |
| publishDate | 2023-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Neuroscience |
| spelling | doaj.art-49021e2e389c42848da16f2dcc29076a2023-11-26T12:26:44ZengBMCBMC Neuroscience1471-22022023-10-0124111110.1186/s12868-023-00826-zANDA: an open-source tool for automated image analysis of in vitro neuronal cellsHallvard Austin Wæhler0Nils-Anders Labba1Ragnhild Elisabeth Paulsen2Geir Kjetil Sandve3Ragnhild Eskeland4Institute of Basic Medical Sciences, Department of Molecular Medicine, Faculty of Medicine, University of OsloInstitute of Basic Medical Sciences, Department of Molecular Medicine, Faculty of Medicine, University of OsloSection for Pharmacology and Pharmaceutical Biosciences, Department of Pharmacy, University of OsloDepartment of Informatics, University of OsloInstitute of Basic Medical Sciences, Department of Molecular Medicine, Faculty of Medicine, University of OsloAbstract Background Imaging of in vitro neuronal differentiation and measurements of cell morphologies have led to novel insights into neuronal development. Live-cell imaging techniques and large datasets of images have increased the demand for automated pipelines for quantitative analysis of neuronal morphological metrics. Results ANDA is an analysis workflow that quantifies various aspects of neuronal morphology from high-throughput live-cell imaging screens of in vitro neuronal cell types. This tool automates the analysis of neuronal cell numbers, neurite lengths and neurite attachment points. We used chicken, rat, mouse, and human in vitro models for neuronal differentiation and have demonstrated the accuracy, versatility, and efficiency of the tool. Conclusions ANDA is an open-source tool that is easy to use and capable of automated processing from time-course measurements of neuronal cells. The strength of this pipeline is the capability to analyse high-throughput imaging screens.https://doi.org/10.1186/s12868-023-00826-zHigh-throughput imagingNeuronal differentiationNeurite morphologyAutomated image processing |
| spellingShingle | Hallvard Austin Wæhler Nils-Anders Labba Ragnhild Elisabeth Paulsen Geir Kjetil Sandve Ragnhild Eskeland ANDA: an open-source tool for automated image analysis of in vitro neuronal cells BMC Neuroscience High-throughput imaging Neuronal differentiation Neurite morphology Automated image processing |
| title | ANDA: an open-source tool for automated image analysis of in vitro neuronal cells |
| title_full | ANDA: an open-source tool for automated image analysis of in vitro neuronal cells |
| title_fullStr | ANDA: an open-source tool for automated image analysis of in vitro neuronal cells |
| title_full_unstemmed | ANDA: an open-source tool for automated image analysis of in vitro neuronal cells |
| title_short | ANDA: an open-source tool for automated image analysis of in vitro neuronal cells |
| title_sort | anda an open source tool for automated image analysis of in vitro neuronal cells |
| topic | High-throughput imaging Neuronal differentiation Neurite morphology Automated image processing |
| url | https://doi.org/10.1186/s12868-023-00826-z |
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