Personal identification

Full name

Niccolò Bonacchi

Citation names

• Bonacchi, Niccolò

Author identifiers

Ciência ID

0612-705C-8295

ORCID iD

0000-0001-5228-6918

Google Scholar ID

https://scholar.google.com/citations?hl=en&user=ii0Eww0AAAAJ

Languages

Language	Speaking	Reading	Writing	Listening	Peer-review
Italian	Advanced (C1)	Advanced (C1)	Advanced (C1)	Advanced (C1)
Portuguese	Advanced (C1)	Advanced (C1)	Advanced (C1)	Advanced (C1)
English	Advanced (C1)	Advanced (C1)	Advanced (C1)	Advanced (C1)
Spanish; Castilian	Intermediate (B1)	Advanced (C1)	Intermediate (B1)	Intermediate (B1)
French	Beginner (A1)	Beginner (A1)	Beginner (A1)	Beginner (A1)

	Degree	Classification
2017/07 Concluded	Ph.D. in Biology | Neuroscience (Doutoramento) Major in Especialidade: Neurociências Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica António Xavier, Portugal "Spatial goals and actions in the orbitofrontal cortex" (THESIS/DISSERTATION)
2014 - 2014 Concluded	Computational and Cognitive Neuroscience Summer School (Outros) New York University, United States
2012 - 2012 Concluded	Course in Laboratory Animal Science - Cat B (Outros) Direcção-Geral de Alimentação e Veterinária, Portugal
2010 Concluded	M.Sc. in Psychobiology (Mestrado) Instituto Universitário de Ciências Psicológicas Sociais e da Vida, Portugal "BEHAVIORAL SUPPRESSION IN A MODIFIED CONFLICT PARADIGM A Framework to Test the Photostimulation of 5-HT" (THESIS/DISSERTATION)	20
2004 Concluded	Rehabilitation and Social Inclusion (Licenciatura) Instituto Universitário de Ciências Psicológicas Sociais e da Vida, Portugal "Attitudes towards people with disabilities - Comparative study between 1st and final year ISPA students. PT: Atitudes face à pessoa com deficiência - Estudo comparativo entre alunos do 1º e último ano do ISPA." (THESIS/DISSERTATION)	16

Science

	Category Host institution	Employer
2023/03/01 - Current	Researcher (Research)	Instituto Superior de Psicologia Aplicada Centro de Investigação William James, Portugal
	Instituto Superior de Psicologia Aplicada Centro de Investigação William James, Portugal
2023 - Current	Visiting Researcher (Research)	Fundação Champalimaud, Portugal
	Programa Champalimaud de Neurociências, Portugal
2023 - Current	Visiting Researcher (Research)	Max-Planck-Institut für empirische Ästhetik, Germany
	Max-Planck-Institut für empirische Ästhetik, Germany
2019 - 2022/12/31	Coordinating Researcher (Research)	Programa Champalimaud de Neurociências, Portugal
2018 - 2018/12/31	Coordinating Researcher (Research)	University College London Wolfson Institute for Biomedical Research, United Kingdom
	University College London Wolfson Institute for Biomedical Research, United Kingdom
2017/07/27 - 2018/03	Postdoc (Research)	Programa Champalimaud de Neurociências, Portugal
2005 - 2007	Researcher (Research)	ISCTE-Instituto Universitário de Lisboa Centro de Investigação e Intervenção Social, Portugal

Teaching in Higher Education

	Category Host institution	Employer
2023 - Current	Assistant Professor (University Teacher)	Instituto Universitário de Ciências Psicológicas Sociais e da Vida, Portugal
	Instituto Universitário de Ciências Psicológicas Sociais e da Vida, Portugal

Others

	Category Host institution	Employer
2009/09/15 - 2017/07/26	PhD Student (International Neuroscience Doctoral Programme - INDP) Systems Neuroscience Lab,	Programa Champalimaud de Neurociências, Portugal
2008/06/02 - 2009/09/14	MS Student / Assistant researcher Champalimaud Neuroscience Programme	Instituto Gulbenkian de Ciência, Portugal
2005 - 2007	Junior Researcher - European Social Survey (P143B)	Universidade de Lisboa Instituto de Ciências Sociais, Portugal
2005 - 2007	Junior Researcher EUROFOR (Daphne - EU)	Berliner Institut für Vergleichende Sozialforschung eV, Germany

Grant

	Designation	Funders
2023 - Current	ARC - COGITATE TWCF 0389 Co-Principal Investigator (Co-PI) Programa Champalimaud de Neurociências, Portugal	Templeton World Charity Foundation Inc Ongoing
2018 - 2022/12/01	The International Brain Laboratory (IBL) Wellcome 209558 Wellcome 216324 Researcher University College London Wolfson Institute for Biomedical Research, United Kingdom Programa Champalimaud de Neurociências, Portugal	Wellcome Trust Simons Foundation Ongoing
2010/10/01 - 2013/11/30	CONTEXT DEPENDENT MODULATION OF VALUE SFRH/BD/51259/2010	Fundação para a Ciência e a Tecnologia Concluded
2010 - 2012	Context dependent modulation of value SFRH / BD / 51259 / 2010	Secretaria de Estado de Ciência Tecnologia e Ensino Superior
2009/10/01 - 2010/09/30	PROGRAMA GULBENKIAN CHAMPALIMAUD EM NEUROCIÊNCIAS - INTERNATIONAL NEUROSCIENCE DOCTORAL PROGRAM SFRH/BI/33927/2009	Fundação para a Ciência e a Tecnologia Concluded

Contract

	Designation	Funders
2018/10/01 - 2022/09/30	Odors and memory: neural mechanisms for encoding contextual information in olfactory cortex PTDC/MED-NEU/28509/2017 Fundação Champalimaud, Portugal	Fundação para a Ciência e a Tecnologia Concluded
2019/01/01 - 2019/12/31	Champalimaud Neuroscience Programme UID/NEU/04443/2019 Fundação Champalimaud, Portugal	Fundação para a Ciência e a Tecnologia Concluded

Publications

Conference abstract	Bougrova, Kcenia; Bonacchi, Niccolò; Catarino, Joana A; DeWitt, Eric; Meijer, Guido; Dayan, Peter; Mainen, Zachary; The International Brain Laboratory. "Comparison of neuromodulator signaling in a visual decision-making task". Paper presented in 51st Annual Meeting of the Society for Neuroscience, San Diego, CA, 2022. Published Bonacchi, Niccolò; Chapuis, G.A.; Anne K. Churchland; Kenneth D. Harris; Rossant, Cyrille; Olivier Winter; Miles J. Wells; Mainen, Zachary; The International Brain Laboratory. "The IBL data architecture: tools for storing and accessing divers databases collected at multiple sites". Paper presented in Society for Neuroscience (SfN), Chicago, 2019. Accepted Poo, Cindy; Agarwal, Gautam; Bonacchi, Niccolò; Mainen, Zachary. "Conjunctive map for odors and space in posterior piriform cortex". Paper presented in Society for Neuroscience (SfN), Lisbon, 2019. Accepted Cindy Poo; Bonacchi, Niccolò; Mainen, Zachary. "Spatial context modulates odor representations in posterior piriform cortex". Paper presented in 11th FENS Forum of Neuroscience, Berlin, 2018. Bonacchi, Niccolò; Cindy Poo; Cruz, AS; Mainen, Zachary. "Encoding of odor context in posterior piriform cortex". Paper presented in Computational and Systems Neuroscience (CoSyNe), Salt Lake City, 2016. Accepted Bonacchi, Niccolò; Cindy Poo; Cruz, AS; Mainen, Zachary. "Orbitofrontal cortex and outcome locations". Paper presented in Computationam ans Systems Neurosciecnc (CoSyNe), Salt Lake City, 2016. Accepted Bonacchi, Niccolò; Cindy Poo; Cruz, AS; Mainen, Zachary. "Posterior piriform cortex in an odor-guided spatial navigation task". Paper presented in Society for Neuroscience (SfN), San Diego, 2016. Bonacchi, Niccolò; Cindy Poo; Cruz, AS; Mainen, Zachary. "Orbitofrontal cortex, reversals, and locations". Paper presented in Society for Neuroscience (SfN), San Diego, 2016. Accepted Bonacchi, Niccolò; Cindy Poo; Mainen, Zachary F.. "Spatial goals and actions in the orbitofrontal cortex". Paper presented in Society fo Neuroscience (SfN), New Orleans, 2012. Accepted Bonacchi, Niccolò; Mainen, Zachary. "Context dependent modulation of value". Paper presented in Annual Meeting of Gulbenkian Students, Foz do Arelho, 2012. Accepted Correia, PA; Dugué, GP; MatiasS; Lörincz, ML; Bonacchi, Niccolò; Audero, E; Lottem, E; Mainen, Zachary. "Testing the link between serotonin and aversive behaviors using optogenetics". Paper presented in CNP-CRICM Meeting, Lisbon, 2011. Accepted Bonacchi, Niccolò; Dugué, Guillaume; Mainen, Zachary F.. "Behavioral suppression in a modified conflict paradigm". Paper presented in Associação Portuguesa de Psicologia Experimental, Lisbon, 2009. Accepted
Journal article	The International Brain Laboratory; Luigi Acerbi; Valeria Aguillon-Rodriguez; Mandana Ahmadi; Jaweria Amjad; Dora Angelaki; Jaime Arlandis; et al. "A modular architecture for organizing, processing and sharing neurophysiology data". Nature Methods (2023): http://dx.doi.org/10.1038/s41592-022-01742-6. 10.1038/s41592-022-01742-6 Kobi Snitz; Danielle Honigstein; Reut Weissgross; Aharon Ravia; Eva Mishor; Ofer Perl; Shiri Karagach; et al. "An olfactory self-test effectively screens for COVID-19". Communications Medicine (2022): https://publons.com/wos-op/publon/52618386/. 10.1038/S43856-022-00095-7 Poo, Cindy; Agarwal, Gautam; Bonacchi, Niccolo; Mainen, Zachary F.. "Spatial maps in piriform cortex during olfactory navigation". Nature (2022): https://publons.com/wos-op/publon/53522782/. 10.1038/S41586-021-04242-3 Aguillon, Valeria; Angelaki, Dora E.; Bayer, Hannah; Bonacchi, Niccolo; Carandini, Matteo; Cazettes, Fanny; Chapuis, Gaelle; et al. "Standardized and reproducible measurement of decision-making in mice (vol 10, e63711, 2021)". eLife (2022): https://publons.com/wos-op/publon/56762446/. 10.7554/ELIFE.84310 Matthew R. Whiteway; Frédéric E. Theunissen; Dan Biderman; Yoni Friedman; Mario Dipoppa; E. Kelly Buchanan; Anqi Wu; et al. "Partitioning variability in animal behavioral videos using semi-supervised variational autoencoders". PLOS Computational Biology 17 9 (2021): e1009439-e1009439. https://doi.org/10.1371/journal.pcbi.1009439. 10.1371/journal.pcbi.1009439 Kobi Snitz; Danielle Honigstein; Reut Weissgross; Aharon Ravia; Eva Mishor; Ofer Perl; Shiri Karagach; et al. "Smelling Household-Odorants Effectively Screens for COVID-19". MedRxiv (2021): https://publons.com/wos-op/publon/40807612/. 10.1101/2021.02.18.21251422 Aguillon-Rodriguez, Valeria; Angelaki, Dora; Bayer, Hannah; Bonacchi, Niccolo; Carandini, Matteo; Cazettes, Fanny; Chapuis, Gaelle; et al. "Standardized and reproducible measurement of decision-making in mice". eLife (2021): https://publons.com/wos-op/publon/46523116/. 10.7554/ELIFE.63711 Poo, Cindy; Agarwal, Gautam; Bonacchi, Niccolo; Mainen, Zachary. "A map for odors and space in posterior piriform cortex". Chemical Senses (2020): https://publons.com/wos-op/publon/53522783/. Bonacchi, Niccolò. "Data architecture and visualization for a large-scale neuroscience collaboration". Biorxiv (2019): https://www.biorxiv.org/content/10.1101/827873v1. Open access Lopes, G.; Bonacchi, N.; Frazão, J.; Neto, J.P.; Atallah, B.V.; Soares, S.; Moreira, L.; et al. "Bonsai: An event-based framework for processing and controlling data streams". Frontiers in Neuroinformatics 9 APR (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84928034273&partnerID=MN8TOARS. 10.3389/fninf.2015.00007
Preprint	Brandon Benson; Julius Benson; Daniel Birman; Niccolò Bonacchi; Matteo Carandini; Joana A Catarino; Gaelle A Chapuis; et al. "A Brain-Wide Map of Neural Activity during Complex Behaviour". 2023. https://doi.org/10.1101/2023.07.04.547681. 10.1101/2023.07.04.547681 Oscar Ferrante; Urszula Gorska-Klimowska; Simon Henin; Rony Hirschhorn; Aya Khalaf; Alex Lepauvre; Ling Liu; et al. "An adversarial collaboration to critically evaluate theories of consciousness". 2023. https://doi.org/10.1101/2023.06.23.546249. 10.1101/2023.06.23.546249 Findling, Charles; Hubert, Felix; Acerbi, Luigi; Benson, Brandon; Benson, Julius; Birman, Daniel; Bonacchi, Niccolò; et al. "Brain-wide representations of prior information in mouse decision-making". 2023. http://dx.doi.org/10.1101/2023.07.04.547684. 10.1101/2023.07.04.547684
Thesis / Dissertation	Bonacchi, Niccolò. "Spatial goals and actions in the orbitofrontal cortex". PhD, Universidade Nova de Lisboa, 2017. http://hdl.handle.net/10362/76957.

Other

Other output

Reproducibility of in-vivo electrophysiological measurements in mice. 2022. Laboratory, I.B.; Banga, K.; Benson, J.; Bonacchi, N.; Bruijns, S.A.; Campbell, R.; Chapuis, G.A.; et al. http://www.scopus.com/inward/record.url?eid=2-s2.0-85133002014&partnerID=MN8TOARS. 10.1101/2022.05.09.491042 Partitioning variability in animal behavioral videos using semi-supervised variational autoencoders. 2021. Matthew R Whiteway; Dan Biderman; Yoni Friedman; Mario Dipoppa; E Kelly Buchanan; Anqi Wu; John Zhou; et al. https://doi.org/10.1101/2021.02.22.432309. 10.1101/2021.02.22.432309 Spatial maps in olfactory cortex during olfactory navigation. 2020. Cindy Poo; Gautam Agarwal; Niccolò Bonacchi; Zachary Mainen. https://doi.org/10.1101/2020.02.18.935494. 10.1101/2020.02.18.935494 Standardized and reproducible measurement of decision-making in mice. 2020. Valeria Aguillon-Rodriguez; Dora E. Angelaki; Hannah M. Bayer; Niccolò Bonacchi; Matteo Carandini; Fanny Cazettes; Gaelle A. Chapuis; et al. https://doi.org/10.1101/2020.01.17.909838. 10.1101/2020.01.17.909838 Data architecture for a large-scale neuroscience collaboration. 2019. Niccolò Bonacchi; Gaelle Chapuis; Anne Churchland; Kenneth D. Harris; Max Hunter; Cyrille Rossant; Maho Sasaki; et al. https://doi.org/10.1101/827873. 10.1101/827873

Award

2009	Merit Diploma Instituto Superior de Psicologia Aplicada Centro de Investigacao, Portugal