ArticleGigaScience2014
A data repository and analysis framework for spontaneous neural activity recordings in developing retina.
Article in GigaScience, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 44 citations in OpenAlex.
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- Toward standard practices for sharing computer code and programs in neuroscience.Nature neuroscience · 2017Article
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- Neurophysiological analytics for all! Free open-source software tools for documenting, analyzing, visualizing, and sharing using electronic notebooks.Journal of neurophysiology · 2016Article
- Tools and techniques for computational reproducibility.GigaScience · 2016Review
- Ten Simple Rules for Taking Advantage of Git and GitHub.PLoS computational biology · 2016Article
- Characterization of Early Cortical Neural Network Development in Multiwell Microelectrode Array Plates.Journal of biomolecular screening · 2016Article
- Processing and Analysis of Multichannel Extracellular Neuronal Signals: State-of-the-Art and Challenges.Frontiers in neuroscience · 2016Review
- A Digital Repository and Execution Platform for Interactive Scholarly Publications in Neuroscience.Neuroinformatics · 2016Article
- Quantitative differences in developmental profiles of spontaneous activity in cortical and hippocampal cultures.Neural development · 2015Article
- Detecting pairwise correlations in spike trains: an objective comparison of methods and application to the study of retinal waves.The Journal of neuroscience : the official journal of the Society for Neuroscience · 2014Article
- A data repository and analysis framework for spontaneous neural activity recordings in developing retina.GigaScience · 2014Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundDuring early development, neural circuits fire spontaneously, generating activity episodes with complex spatiotemporal patterns. Recordings of spontaneous activity have been made in many parts of the nervous system over the last 25 years, reporting developmental changes in activity patterns and the effects of various genetic perturbations.
resultsWe present a curated repository of multielectrode array recordings of spontaneous activity in developing mouse and ferret retina. The data have been annotated with minimal metadata and converted into HDF5. This paper describes the structure of the data, along with examples of reproducible research using these data files. We also demonstrate how these data can be analysed in the CARMEN workflow system. This article is written as a literate programming document; all programs and data described here are freely available.
conclusions1. We hope this repository will lead to novel analysis of spontaneous activity recorded in different laboratories. 2. We encourage published data to be added to the repository. 3. This repository serves as an example of how multielectrode array recordings can be stored for long-term reuse.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.