Daniel Benjamin Aharoni

Title(s)Assistant Professor-in-Residence, Neurology
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    UCLA, Los Angeles, CAPhD09/2013Physics

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    Our research lies at the intersection of engineering, neuroscience, and physics. In particular, we focus on applying tool development methodologies from engineering and physics to address current challenges in neuroscience and medicine. Working often times in close collaboration with other researchers, we concentrate on finding solutions to critical design problems (hardware, software, analysis, experimental) and develop those solutions from concept to implementation. In recent years, Dr. Aharoni led the development of the Miniscope system, an open-source microscopy platform for recording and analyzing neural activity in freely behaving animals. Our platform is currently being used in over 450 laboratories with an active and growing user base, making it one of the most successful open-source neuroscience tools to date.

    Our work is motivated by two goals: (i) to contribute to the growing trend of democratizing access to transformative tools in neuroscience, and (ii) to bridge the gap between specialized tool design and the intricacies of modern neuroscience. Specifically, the lab’s research program focuses on expanding optical, electrical, and behavioral techniques through the development of novel, yet accessible, tools that generate quantitatively and qualitatively new types of data.
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Correlated signatures of social behavior in cerebellum and anterior cingulate cortex. Elife. 2024 Feb 12; 12. Hur SW, Safaryan K, Yang L, Blair HT, Masmanidis SC, Mathews PJ, Aharoni D, Golshani P. PMID: 38345922; PMCID: PMC10942583.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    2. Correlated signatures of social behavior in cerebellum and anterior cingulate cortex. bioRxiv. 2023 Oct 14. Hur SW, Safaryan K, Yang L, Blair HT, Masmanidis SC, Mathews PJ, Aharoni D, Golshani P. PMID: 37066345; PMCID: PMC10104017.
      View in: PubMed   Mentions:
    3. Accelerated social representational drift in the nucleus accumbens in a model of autism. bioRxiv. 2023 Aug 05. Zhao P, Chen X, Bellafard A, Murugesan A, Quan J, Aharoni D, Golshani P. PMID: 37577515; PMCID: PMC10418509.
      View in: PubMed   Mentions:
    4. Hippocampal place cell remapping occurs with memory storage of aversive experiences. Elife. 2023 07 19; 12. Blair GJ, Guo C, Wang S, Fanselow MS, Golshani P, Aharoni D, Blair HT. PMID: 37466236; PMCID: PMC10368421.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    5. FPGA-Based In-Vivo Calcium Image Decoding for Closed-Loop Feedback Applications. IEEE Trans Biomed Circuits Syst. 2023 04; 17(2):169-179. Chen Z, Blair GJ, Cao C, Zhou J, Aharoni D, Golshani P, Blair HT, Cong J. PMID: 37071510; PMCID: PMC10414190.
      View in: PubMed   Mentions: 1     Fields:    Translation:Animals
    6. Miniscope-LFOV: A large-field-of-view, single-cell-resolution, miniature microscope for wired and wire-free imaging of neural dynamics in freely behaving animals. Sci Adv. 2023 04 21; 9(16):eadg3918. Guo C, Blair GJ, Sehgal M, Sangiuliano Jimka FN, Bellafard A, Silva AJ, Golshani P, Basso MA, Blair HT, Aharoni D. PMID: 37083539; PMCID: PMC10121160.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    7. A hardware system for real-time decoding of in vivo calcium imaging data. Elife. 2023 01 24; 12. Chen Z, Blair GJ, Guo C, Zhou J, Romero-Sosa JL, Izquierdo A, Golshani P, Cong J, Aharoni D, Blair HT. PMID: 36692269; PMCID: PMC9908073.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    8. BehaviorDEPOT is a simple, flexible tool for automated behavioral detection based on markerless pose tracking. Elife. 2022 08 23; 11. Gabriel CJ, Zeidler Z, Jin B, Guo C, Goodpaster CM, Kashay AQ, Wu A, Delaney M, Cheung J, DiFazio LE, Sharpe MJ, Aharoni D, Wilke SA, DeNardo LA. PMID: 35997072; PMCID: PMC9398447.
      View in: PubMed   Mentions: 9     Fields:    Translation:Animals
    9. Breakdown of spatial coding and interneuron synchronization in epileptic mice. Nat Neurosci. 2020 02; 23(2):229-238. Shuman T, Aharoni D, Cai DJ, Lee CR, Chavlis S, Page-Harley L, Vetere LM, Feng Y, Yang CY, Mollinedo-Gajate I, Chen L, Pennington ZT, Taxidis J, Flores SE, Cheng K, Javaherian M, Kaba CC, Rao N, La-Vu M, Pandi I, Shtrahman M, Bakhurin KI, Masmanidis SC, Khakh BS, Poirazi P, Silva AJ, Golshani P. PMID: 31907437; PMCID: PMC7259114.
      View in: PubMed   Mentions: 69     Fields:    Translation:AnimalsCells
    10. Circuit Investigations With Open-Source Miniaturized Microscopes: Past, Present and Future. Front Cell Neurosci. 2019; 13:141. Aharoni D, Hoogland TM. PMID: 31024265; PMCID: PMC6461004.
      View in: PubMed   Mentions: 73  
    11. All the light that we can see: a new era in miniaturized microscopy. Nat Methods. 2019 Jan; 16(1):11-13. Aharoni D, Khakh BS, Silva AJ, Golshani P. PMID: 30573833; PMCID: PMC8320687.
      View in: PubMed   Mentions: 55     Fields:    Translation:Animals
    12. Author Correction: High-speed volumetric imaging of neuronal activity in freely moving rodents. Nat Methods. 2018 06; 15(6):469. Skocek O, Nöbauer T, Weilguny L, Traub FM, Xia CN, Molodtsov MI, Grama A, Yamagata M, Aharoni D, Cox DD, Golshani P, Vaziri A. PMID: 29786093.
      View in: PubMed   Mentions: 2     Fields:    
    13. High-speed volumetric imaging of neuronal activity in freely moving rodents. Nat Methods. 2018 06; 15(6):429-432. Skocek O, Nöbauer T, Weilguny L, Martínez Traub F, Xia CN, Molodtsov MI, Grama A, Yamagata M, Aharoni D, Cox DD, Golshani P, Vaziri A. PMID: 29736000; PMCID: PMC7990085.
      View in: PubMed   Mentions: 73     Fields:    Translation:AnimalsCells
    14. A shared neural ensemble links distinct contextual memories encoded close in time. Nature. 2016 06 02; 534(7605):115-8. Cai DJ, Aharoni D, Shuman T, Shobe J, Biane J, Song W, Wei B, Veshkini M, La-Vu M, Lou J, Flores SE, Kim I, Sano Y, Zhou M, Baumgaertel K, Lavi A, Kamata M, Tuszynski M, Mayford M, Golshani P, Silva AJ. PMID: 27251287; PMCID: PMC5063500.
      View in: PubMed   Mentions: 375     Fields:    Translation:AnimalsCells
    15. Multifocal fluorescence microscope for fast optical recordings of neuronal action potentials. Biophys J. 2015 Feb 03; 108(3):520-9. Shtrahman M, Aharoni DB, Hardy NF, Buonomano DV, Arisaka K, Otis TS. PMID: 25650920; PMCID: PMC4317551.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    16. Multisensory control of multimodal behavior: do the legs know what the tongue is doing? PLoS One. 2013; 8(11):e80465. Cushman JD, Aharoni DB, Willers B, Ravassard P, Kees A, Vuong C, Popeney B, Arisaka K, Mehta MR. PMID: 24224054; PMCID: PMC3817119.
      View in: PubMed   Mentions: 18     Fields:    Translation:Animals
    17. High-throughput single-molecule fluorescence spectroscopy using parallel detection. Proc SPIE Int Soc Opt Eng. 2010 Jan 24; 7608(76082D). Michalet X, Colyer RA, Scalia G, Kim T, Levi M, Aharoni D, Cheng A, Guerrieri F, Arisaka K, Millaud J, Rech I, Resnati D, Marangoni S, Gulinatti A, Ghioni M, Tisa S, Zappa F, Cova S, Weiss S. PMID: 21625288; PMCID: PMC3103226.
      View in: PubMed   Mentions: 9  
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