Biology subjects

Turpin, A.

Publications and source records attributed to Turpin, A..

3 recordsLinked to original sources

bioRxiv2021

The Open Perimetry Initiative: a framework for cross-platform development for the new generation of portable perimeters

The Open Perimetry Initiative is fully open source and consists of the Open Perimetry Interface (OPI) and an accompanying package (visualFields) with analytical tools. The OPI package contains an ever-growing number of drivers for commercially available perimeters, head-mounted devices, and virtual reality headsets. The visualFields package contains tools for the analysis and visualization of visual field data, including methods to compute deviation values and probability maps. The use of the OPI and visualFields is shown through a custom static automated perimetry test for the full visual field (up to 50{degrees} nasally and 80{degrees} temporally) developed with the OPI driver for the Octopus 900 and using visualFields for statistical analysis. Its potential for the development of cross-platform apps for driving and testing portable devices is demonstrated with an OPI driver for an Android-based headset. With more than 55 citations in clinical and translational science as listed in Scopus, this initiative has contributed significantly to expanding the knowledge base in perimetry and clinical vision research at large, and with clinical translation. The continued support of researchers, clinicians, industry, and public institutions are key in transforming perimetry research from closed to open science. The Open Perimetry Initiative provides framework to achieve this.

bioinformatics↗

bioRxiv2020

Wide-field Fluorescence Lifetime Imaging Microscopy with a High-Speed Mega-pixel SPAD Camera

Fluorescence lifetime imaging microscopy (FLIM) is a key technology that provides direct insight into cell metabolism, cell dynamics and protein activity. However, determining the lifetimes of different fluorescent proteins requires the detection of a relatively large number of photons, hence slowing down total acquisition times. Moreover, there are many cases, for example in studies of cell collectives, where wide-field imaging is desired. We report scan-less wide-field FLIM based on a 0.5 Megapixel resolution, time-gated Single Photon Avalanche Diode (SPAD) camera, with acquisition rates up to 1 Hz. Fluorescence lifetime estimation is performed via a pre-trained artificial neural network with 1000-fold improvement in processing times compared to standard least squares fitting techniques. We utilised our system to image HT1080 - human fibrosarcoma cell line as well as Convallaria. The results show promise for real-time FLIM and a viable route towards multi-megapixel fluorescence lifetime images, with a proof-of-principle mosaic image shown with 3.6 megapixels.

bioengineering↗

bioRxiv2020

Multifocal imaging for precise, label-free tracking of fast biological processes in 3D

Many biological processes happen on a nano-to millimeter scale and within milliseconds. Established methods such as confocal microscopy are suitable for precise 3D recordings but lack the temporal or spatial resolution to resolve fast 3D processes and require labeled samples. Multifocal imaging (MFI) allows high-speed 3D imaging but is limited by the compromise between high spatial resolution and large field-of-view (FOV), and the requirement for bright fluorescent labels. Here, we provide a new open-source 3D reconstruction algorithm for multifocal images that allows using MFI for fast, precise, label-free tracking spherical and filamentous structures in a large FOV and across a high depth. We characterize fluid flow and flagellar beating of human and sea urchin sperm with a high z-precision of 0.15 m, in a large volume of 240 x 260 x 21 m, and at high speed (500 Hz). The large sampling volume allowed to follow sperm trajectories while simultaneously recording their flagellar beat. Our MFI concept is cost-effective, can be easily implemented, and does not rely on object labeling, which renders it broadly applicable.

cell biology↗