FARCI: Fast and Robust Connectome Inference

dc.contributor.authorMeamardoost, Saberen
dc.contributor.authorBhattacharya, Mahaswetaen
dc.contributor.authorHwang, Eun Jungen
dc.contributor.authorKomiyama, Takakien
dc.contributor.authorMewes, Claudiaen
dc.contributor.authorWang, Linbingen
dc.contributor.authorZhang, Yingen
dc.contributor.authorGunawan, Rudiyantoen
dc.date.accessioned2021-11-29T13:26:44Zen
dc.date.available2021-11-29T13:26:44Zen
dc.date.issued2021-11-24en
dc.date.updated2021-11-25T16:00:28Zen
dc.description.abstractThe inference of neuronal connectome from large-scale neuronal activity recordings, such as two-photon Calcium imaging, represents an active area of research in computational neuroscience. In this work, we developed FARCI (Fast and Robust Connectome Inference), a MATLAB package for neuronal connectome inference from high-dimensional two-photon Calcium fluorescence data. We employed partial correlations as a measure of the functional association strength between pairs of neurons to reconstruct a neuronal connectome. We demonstrated using in silico datasets from the Neural Connectomics Challenge (NCC) and those generated using the state-of-the-art simulator of Neural Anatomy and Optimal Microscopy (NAOMi) that FARCI provides an accurate connectome and its performance is robust to network sizes, missing neurons, and noise levels. Moreover, FARCI is computationally efficient and highly scalable to large networks. In comparison with the best performing connectome inference algorithm in the NCC, Generalized Transfer Entropy (GTE), and Fluorescence Single Neuron and Network Analysis Package (FluoroSNNAP), FARCI produces more accurate networks over different network sizes, while providing significantly better computational speed and scaling.en
dc.description.versionPublished versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.citationMeamardoost, S.; Bhattacharya, M.; Hwang, E.J.; Komiyama, T.; Mewes, C.; Wang, L.; Zhang, Y.; Gunawan, R. FARCI: Fast and Robust Connectome Inference. Brain Sci. 2021, 11, 1556.en
dc.identifier.doihttps://doi.org/10.3390/brainsci11121556en
dc.identifier.urihttp://hdl.handle.net/10919/106767en
dc.language.isoenen
dc.publisherMDPIen
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleFARCI: Fast and Robust Connectome Inferenceen
dc.title.serialBrain Scienceen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten

Files

Original bundle
Now showing 1 - 1 of 1
Loading...
Thumbnail Image
Name:
brainsci-11-01556-v2.pdf
Size:
2.74 MB
Format:
Adobe Portable Document Format
License bundle
Now showing 1 - 1 of 1
Name:
license.txt
Size:
0 B
Format:
Item-specific license agreed upon to submission
Description: