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Pregled bibliografske jedinice broj: 1150666

Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA


Virag, Davor; Homolak, Jan; Kodvanj, Ivan; Babić Perhoč, Ana; Knezović, Ana; Osmanović Barilar, Jelena; Šalković-Petrišić, Melita
Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA // Scientific reports, 11 (2021), 1; 2963, 8 doi:10.1038/s41598-021-82710-6 (međunarodna recenzija, članak, znanstveni)


CROSBI ID: 1150666 Za ispravke kontaktirajte CROSBI podršku putem web obrasca

Naslov
Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA

Autori
Virag, Davor ; Homolak, Jan ; Kodvanj, Ivan ; Babić Perhoč, Ana ; Knezović, Ana ; Osmanović Barilar, Jelena ; Šalković-Petrišić, Melita

Izvornik
Scientific reports (2045-2322) 11 (2021), 1; 2963, 8

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
neuroscience ; startle ; PASTA

Sažetak
Widely available low-cost electronics encourage the development of open-source tools for neuroscientific research. In recent years, many neuroscientists recognized the open science movement for its potential to stimulate and encourage science that is less focused on money, and more on robustness, validity, questioning and understanding. Here, we wanted to contribute to this global community by creating a research platform based on a common digital kitchen scale. This everyday ordinary kitchen tool is sometimes used in neuroscience research in various ways ; however, its use is limited by sampling rate and inability to store and analyze data. To tackle this problem we developed a Platform for Acoustic STArtle or PASTA. This robust and simple platform enables users to obtain data from kitchen scale load cells at a high sampling rate, store it and analyze it. Here, we used it to analyze acoustic startle and prepulse inhibition sensorimotor gating in rats treated intracerebroventricularly with streptozotocin, but the system can be easily modified and upgraded for other purposes. In accordance with open science principles, we shared complete hardware design with instructions. Furthermore, we also disclose our software codes written for PASTA data acquisition (C++, Arduino) and acoustic startle experimental protocol (Python) and analysis (ratPASTA R package—R-based Awesome Toolbox for PASTA, and pastaWRAP—Python wrapper package for ratPASTA). To further encourage the development of our PASTA platform we demonstrate its sensitivity by using PASTA-gathered data to extract breathing patterns during rat freezing behavior in our experimental protocol.

Izvorni jezik
Engleski

Znanstvena područja
Temeljne medicinske znanosti



POVEZANOST RADA


Projekti:
IP-2018-01-8938 - Mehanizmi nutrijentom posredovanih učinaka endogenog glukagonu sličnog peptida-1 na kognitivne i metaboličke poremećaje u eksperimentalnim modelima neurodegenerativnih bolesti (NutrientGLP-1) (Šalković-Petrišić, Melita, HRZZ - 2018-01) ( POIROT)

Ustanove:
Medicinski fakultet, Zagreb,
Centar za kliničku primjenu neuroznanosti

Poveznice na cjeloviti tekst rada:

Pristup cjelovitom tekstu rada doi www.nature.com

Citiraj ovu publikaciju:

Virag, Davor; Homolak, Jan; Kodvanj, Ivan; Babić Perhoč, Ana; Knezović, Ana; Osmanović Barilar, Jelena; Šalković-Petrišić, Melita
Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA // Scientific reports, 11 (2021), 1; 2963, 8 doi:10.1038/s41598-021-82710-6 (međunarodna recenzija, članak, znanstveni)
Virag, D., Homolak, J., Kodvanj, I., Babić Perhoč, A., Knezović, A., Osmanović Barilar, J. & Šalković-Petrišić, M. (2021) Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA. Scientific reports, 11 (1), 2963, 8 doi:10.1038/s41598-021-82710-6.
@article{article, author = {Virag, Davor and Homolak, Jan and Kodvanj, Ivan and Babi\'{c} Perho\v{c}, Ana and Knezovi\'{c}, Ana and Osmanovi\'{c} Barilar, Jelena and \v{S}alkovi\'{c}-Petri\v{s}i\'{c}, Melita}, year = {2021}, pages = {8}, DOI = {10.1038/s41598-021-82710-6}, chapter = {2963}, keywords = {neuroscience, startle, PASTA}, journal = {Scientific reports}, doi = {10.1038/s41598-021-82710-6}, volume = {11}, number = {1}, issn = {2045-2322}, title = {Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA}, keyword = {neuroscience, startle, PASTA}, chapternumber = {2963} }
@article{article, author = {Virag, Davor and Homolak, Jan and Kodvanj, Ivan and Babi\'{c} Perho\v{c}, Ana and Knezovi\'{c}, Ana and Osmanovi\'{c} Barilar, Jelena and \v{S}alkovi\'{c}-Petri\v{s}i\'{c}, Melita}, year = {2021}, pages = {8}, DOI = {10.1038/s41598-021-82710-6}, chapter = {2963}, keywords = {neuroscience, startle, PASTA}, journal = {Scientific reports}, doi = {10.1038/s41598-021-82710-6}, volume = {11}, number = {1}, issn = {2045-2322}, title = {Repurposing a digital kitchen scale for neuroscience research: a complete hardware and software cookbook for PASTA}, keyword = {neuroscience, startle, PASTA}, chapternumber = {2963} }

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • Social Science Citation Index (SSCI)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


Citati:





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