I am a research scientist at the McGovern Institute for Brain Research at MIT. My long-term research goal is to uncover the neuronal circuit mechanisms behind sensory-motor behaviors that lead to cognition.

Addressing such a challenging topic requires building good hypotheses, constructing efficient models to formulate these hypotheses, and implementation of advanced technologies required for measurements and manipulations of neural circuits in behaving animals. In my work, I try to combine three lines of inquiry: first, study the behavior in the most ethologically relevant way possible in the laboratory combined with its cellular, circuit and computational aspects. Second, building methods and technologies that enable us to record and manipulate the brain during behavior, and tools for the analysis of complex behavior. Third, developing computational models with testable predictions to provide engineering level descriptions of how the brain learns and generates complex behaviors.

I work at the boundary of experimental neuroscience and machine learning: the same question — what makes a brain able to learn a new sequence of actions — read from recordings in behaving animals and from the models we build to explain them.

Research

Thalamocortical control of learned sequences

Unlike innate behaviors such as breathing and swallowing, performing complex tasks such as speaking or thinking requires our brain to go through a learned sequence of states. Our brains must construct a new motor pattern for each new behavior we need to learn. Using behavior, imaging, electrophysiology and mathematical modeling, I ask how the thalamus — a critical component of the brainstem-thalamocortical loops controlling many motor behaviors — maintains and controls the patterns of sequential activity in the cortex.

Multisensory integration and perception

My PhD work in Mathew Diamond's lab focused on how signals arriving through multiple senses are integrated to form a unified percept. I developed a visual-tactile decision making task for rats, and uncovered the role of posterior parietal cortex in the supramodal processing of shape — a mechanism by which knowledge about an object is triggered independently of the sensory channel engaged. While developing the task I challenged a long-standing dogma that rodents are functionally blind under longer-wavelength light, with consequences for how rodent experiments are designed and animals are housed.

NeuroAI: what brains do that current models don't

Animals learn long, precisely timed action sequences from sparse experience and remain robust when the world shifts. I build network models constrained by experimental data to make quantitative predictions, and use them to ask which of these capacities current machine learning systems lack and what circuit-level mechanisms might supply them.

Current projects

BBQS

Brain Behavior Quantification and Synchronization

With the Senseable Intelligence Group, I contribute to BBQS — a basic research effort to develop new tools and approaches in support of a more comprehensive mechanistic understanding of the neural basis of behavior. brain-bbqs.org

Neurotechnology

Ultralight microdrives for freely moving animals

A 1.5 g microdrive carrying Neuropixels probes for recording deep brain structures in freely moving songbirds, following the 1.0 g drive used for the first intra- and extracellular recordings in singing birds, and a miniature PID-controlled thermoelectric cooler for manipulating circuit dynamics.

Selected publications

2025
Nikbakht N, Fee MS. Thalamocortical dynamics in a complex learned behavior. Submitted to Science
2024
Nikbakht N. More Than the Sum of Its Parts: Visual–Tactile Integration in the Behaving Rat. Advances of Multisensory Integration in the Brain, 37–58.
2021
Nikbakht N, Diamond ME. Conserved visual capacity of rats under red light. eLife 10:e66429.
2018
Nikbakht N, Tafreshiha A, Zoccolan D, Diamond ME. Supralinear and supramodal integration of visual and tactile signals in rats: psychophysics and neuronal mechanisms. Neuron 97(3):626–639.e8.

Code & hardware

Analysis code, acquisition tools and hardware designs are at github.com/nadernik. Day to day I work in Python and MATLAB, with LabVIEW and C/C++ for instrumentation and Onshape, SolidWorks and Eagle for the mechanical and electronic design.

Mentoring & teaching

I have mentored undergraduate, Masters and PhD students, taught at neuroscience summer schools and organized workshops. As president of the MIT Postdoctoral Association I led negotiations that improved salary, immigration benefits, housing and contract terms for postdocs across MIT.

If you are a student or postdoc interested in neural circuits for learned behavior, neural recording technology, or the modeling side of this work, write to me. I am glad to talk.

Awards & honors

  • 2021MIT's nominee, Warren Alpert Foundation Distinguished Scholar Award
  • 2016Best PhD thesis award, SISSA — Summa Cum Laude, Systems Neuroscience
  • 2011–15Graduate research fellowship, SISSA, Trieste
  • 2012MBL scholarship, Methods in Computational Neuroscience, Woods Hole
  • 2005–08Four international RoboCup team awards — soccer simulation 3D, physical visualization, mixed reality

Writing

Contact

Email
nikbakht@mit.edu
Office
MIT 46-6193
43 Vassar Street, Cambridge MA
Elsewhere
Memberships
Society for Neuroscience · FENS · Bernstein Network