PLOS Biology

Enabling precision medicine via standard communication of HTS provenance, analysis, and results

Publishing date: 2019-01-17 Published on: PLOS Biology summary: A personalized approach based on a patient’s or pathogen’s unique genomic sequence is the foundation of precision medicine. Genomic findings must be robust and reproducible, and experimental data capture should adhere to findable, accessible, interoperable, and reusable (FAIR) guiding principles.

Spikeling: A low-cost hardware implementation of a spiking neuron for neuroscience teaching and outreach

Publishing date: 2018-11-19 Published on: PLOS Biology summary: Spikeling provides an in silico model of a spiking neuron that can be used to illustrate their biophysical behaviour through sound and light inputs and outputs as well as a custom oscilloscope interface.

Haves and have nots must find a better way: The case for open scientific hardware

Publishing date: 2018-09-27 Published on: PLOS Biology summary: Many efforts are making science more open and accessible; they are mostly concentrated on issues that appear before and after experiments are performed: open access journals, open databases, and many other tools to increase reproducibility of science and access to information.

Digital open science—Teaching digital tools for reproducible and transparent research

Publishing date: 2018-07-26 Published on: PLOS Biology summary: An important hallmark of science is the transparency and reproducibility of scientific results. Over the last few years, internet-based technologies have emerged that allow for a representation of the scientific process that goes far beyond traditional methods and analysis descriptions.

CellProfiler 3.0: Next-generation image processing for biology

Publishing date: 2018-07-03 Published on: PLOS Biology summary: CellProfiler is a free software that has enabled researchers, without training in computer vision or programming community to create flexible, modular image analysis pipelines since its release in 2005.

Imagining the “open” university: Sharing scholarship to improve research and education

Publishing date: 2017-10-24 Published on: PLOS Biology summary: Open scholarship, such as the sharing of articles, code, data, and educational resources, has the potential to improve university research and education as well as increase the impact universities can have beyond their own walls.

Ethoscopes: An open platform for high-throughput ethomics

Publishing date: 2017-10-19 Published on: PLOS Biology summary: This design is a rig for high-throughput behavioural experiments with genetically amenable model species such as fruit flies. At its core, it is a webcam (RPi camera) focussed at a set of interchangable behavioural arena arrays for parallel recording of multiple aninals at once.

The €100 lab: A 3D-printable open-source platform for fluorescence microscopy, optogenetics, and accurate temperature control during behaviour of zebrafish, Drosophila, and Caenorhabditis elegans

Publishing date: 2017-07-18 Published on: PLOS Biology summary: The paper describes a €100 portable and neurogenetics lab. Built with off the shelf components and 3D printed parts it is a versatile tool that due to its modular design can be useful in different fields.

CuboCube: Student creation of a cancer genetics e-textbook using open-access software for social learning

Publishing date: 2017-03-07 Published on: PLOS Biology summary: CuboCube is an open-source learning materials creation system designed to facilitate e-textbook development, with an ultimate goal of improving the social learning experience for students.

A Biotic Game Design Project for Integrated Life Science and Engineering Education

Publishing date: 2015-03-25 Published on: PLOS Biology summary: None authors: Nate J. Cira, Alice M. Chung, Aleksandra K. Denisin, Stefano Rensi, Gabriel N. Sanchez, Stephen R. Quake, Ingmar H. Riedel-Kruse