scholarly journals Stimulation-mediated reverse engineering of silent neural networks

2021 ◽  
Author(s):  
Xiaoxuan Ren ◽  
Aviad Hai

Reconstructing connectivity of neuronal networks from single cell activity is essential to understanding brain function, but the challenge of deciphering connections from populations of silent neurons has been largely unmet. We demonstrate a protocol for deriving connectivity of realistic silent neuronal networks using stimulation combined with a supervised learning algorithm, that enables inferring connection weights with high fidelity and predicting spike trains at the single-spike and single-cell level with high accuracy. These testable predictions about the number and protocol of the required stimulations is expected to enhance future efforts for deriving neuronal connectivity and drive new experiments to better understand brain function.

2018 ◽  
Vol 20 (8) ◽  
pp. 3100-3108 ◽  
Author(s):  
Insa Bakenhus ◽  
Leon Dlugosch ◽  
Helge-Ansgar Giebel ◽  
Christine Beardsley ◽  
Meinhard Simon ◽  
...  

2019 ◽  
Vol 374 (1786) ◽  
pp. 20190083 ◽  
Author(s):  
Marta Sebastián ◽  
Josep M. Gasol

Recent developments in community and single-cell genomic approaches have provided an unprecedented amount of information on the ecology of microbes in the aquatic environment. However, linkages between each specific microbe's identity and their in situ level of activity (be it growth, division or just metabolic activity) are much more scarce. The ultimate goal of marine microbial ecology is to understand how the environment determines the types of different microbes in nature, their function, morphology and cell-to-cell interactions and to do so we should gather three levels of information, the genomic (including identity), the functional (activity or growth), and the morphological, and for as many individual cells as possible. We present a brief overview of methodologies applied to address single-cell activity in marine prokaryotes, together with a discussion of the difficulties in identifying and categorizing activity and growth. We then provide and discuss some examples showing how visualization has been pivotal for challenging established paradigms and for understanding the role of microbes in the environment, unveiling processes and interactions that otherwise would have been overlooked. We conclude by stating that more effort should be directed towards integrating visualization in future approaches if we want to gain a comprehensive insight into how microbes contribute to the functioning of ecosystems. This article is part of a discussion meeting issue ‘Single cell ecology’.


Langmuir ◽  
2018 ◽  
Vol 34 (22) ◽  
pp. 6612-6620 ◽  
Author(s):  
Adrien Casanova ◽  
Marie-Charline Blatche ◽  
Cécile A. Ferre ◽  
Hélène Martin ◽  
Daniel Gonzalez-Dunia ◽  
...  

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