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Greta Tuckute

Email gretatu@mit.edu / grtu@dtu.dk
GitHub gretatuckute
Scholar Greta Tuckute
Twitter @GretaTuckute
CV

Hi, I am Greta. Thank you for visiting my page. I am a graduate student in the Biomechatronics Laboratory at MIT. Prior to MIT, I completed a BSc and MSc degree in Molecular Biomedicine at KU/DTU (neuroscience/computer science focus), where I worked on real-time decoding of visual attention at the Department of Applied Mathematics and Computer Science at DTU advised by Professor Lars Kai Hansen. I work in the intersection of neuroscience, machine learning and cognitive science. I am really passionate about semantic decoding. temporal processing dynamics in the brain and figuring out things that puzzle me. I also like photography, high altitudes, mornings, writing toolboxes, and magic realism books.


Research Projects, 2012-current

In reverse chronological order.

brainmation

Testing EEG time series data. I wrote a GitHub toolbox for making animated topomaps using MNE

Closed-loop neurofeedback training of attention with real-time EEG

Master's thesis conducted at the Section for Cognitive Systems (advisor: Professor Lars Kai Hansen and Professor Troels Wesenberg Kjaer), Department of Applied Mathematics and Computer Science, Technical University of Denmark (DTU).
  • Developed a Python-based framework for closed-loop, real-time neurofeedback in EEG. The toolbox contains integration of ultra-precise EEG data sampling with stimuli presentation, subject-specific artifact rejection, cognitive state classification and continuous feedback.
  • Implemented a robust real-time classification algorithm for data processing in temporal bins using machine learning techniques.
  • Investigated the effect of neurofeedback to modulate top-down attentional states during an attention training task.
  • Visualized where discriminative information of decoded attentional states resides in the EEG signature using sensitivity mapping. The aim was to shed light on the temporal dynamics of subjective attentional states.

First-authored paper: Tuckute, G., Hansen, S.T., Kjaer, Troels W., Hansen, L. K. (2019): A framework for closed-loop neurofeedback for real-time EEG decoding, bioRxiv 834713; doi: https://doi.org/10.1101/834713. [Under review, NeuroImage]

Poster presented at FENS Brain Conference Dynamics of the brain: Temporal aspects of computation in Rungsted, Denmark, 9-12 June 2019: Tuckute, G., Hansen, S.T., Kjaer, T.W., Hansen, L.K.: Can we control attention with closed-loop EEG neurofeedback? Poster can be found here.

GitHub toolbox (also containing sample data and video demo): Closed-Loop Neurofeedback in EEG using Python.

brain

A 3D reconstruction of my very own left hemisphere (using Freesurfer)

Multiple projects within neural computations underlying language processing

Work conducted as a full-time research assistant in Ev Fedorenko's Language Lab, McGovern Institute for Brain Research, Massachusetts Institute of Technology (MIT) in June 2018 - September 2018 (and ongoing):
  • Performed processing and first level analyses of fMRI data using Freesurfer, MATLAB, Linux shell scripting and high-performance computing. Wrote custom MATLAB scripts for second level analyses. Acquired fMRI data.
  • Investigated whether anatomical brain properties respect functional network boundaries by analyzing cortical thickness values and gray matter intensities across two separate brain networks: the fronto-temporal language system and the fronto-parietal multiple demand (MD) system.
  • Performed seed-based functional connectivity analysis on resting-state fMRI data for implementation of a convolutional neural network (CNN) for predicting functional language and MD network regions based on anatomical alignment and task-free data.
  • Examined mechanisms of how high-level language functions are established by intra-hemispheric connections between the temporal and frontal cortices (lesion case study).
  • Wrote a Python toolbox for natural language processing, including part-of-speech tagging, lemmatization, lexical feature mapping and sentence-level representations. The aim was to generate lexical and semantic word embedding spaces.
  • Exploited Representational Similarity Analysis (RSA) to investigate how activation patterns in language and MD functional regions of interest can be explained by lexical, syntactic and semantic features.
Poster presented at Society for the Neurobiology of Language (SNL) conference in Helsinki, Finland, 20-22 August 2019: Tuckute, G., Hansen, Mineroff, Z., Blank, I., Kean, H., Fedorenko, E: Temporal language areas appear necessary to wire up frontal cortex for language. Poster can be found here.

First-authored paper in prep: Tuckute, G., Mineroff, Z., Blank, I., Kean, H., Fedorenko, E. (2020): Intra-Hemispheric Temporal-Frontal Connections Appear Necessary to Wire Up Left Frontal Cortex for Language, Cortex.

GitHub toolbox: Natural language processing and lexical feature analyses.

Semantic decoding of visual stimuli using EEG

cv

Cross-validation of SVM model hyperparameters in a leave-one-subject-out approach
Work conducted at the Section for Cognitive Systems (advisor: Professor Lars Kai Hansen), at the Department of Applied Mathematics and Computer Science, Technical University of Denmark (DTU), November 2017 - December 2018.
First-authored paper: Tuckute, G., Hansen, S. T., Pedersen, N., Steenstrup, D., Hansen, L. K. (2019): Single Trial Decoding of Scalp EEG Under Natural Conditions, Computational Intelligence and Neuroscience, vol. 2019, Article ID 9210785, https://doi.org/10.1155/2019/9210785.

GitHub toolbox: SVM decoding and sensitivity mapping.

oft

Behavioral Open Field Test

Implications of hormone dynamics and serotonin signaling in postpartum depression

Work conducted at the Neurobiology Research Unit (advisors: Professor Vibe G. Frokjaer, Dr. Agnete Overgaard), Copenhagen University Hospital, September 2017 - April 2018.
First-authored paper: Tuckute, G., Overgaard, A., Frokjaer, V. G. (2019): Chronic Paroxetine Blunts Stress Response and Normalizes Adverse Behavioral Effects Seen Acutely in Nulliparous Rats, bioRxiv 687509; doi: https://doi.org/10.1101/687509.

heart

DAPI, and ARL13-B primary antibody in sections of embryonic hearts

Characterization of primary cilia in human embryonic hearts

Work conducted as part of my Molecular Biomedicine bachelor’s thesis in The Cilia Group (advisor: Professor Soeren T. Christensen), Department of Biology, University of Copenhagen and Laboratory of Reproductive Biology (advisor: Professor Claus Yding), Copenhagen University Hospital in January 2017 - June 2017 (additional data collection and manuscript preparation through spring 2018):
My thesis can be found here.

Co-authored paper: Grubb, S. G., Vestergaard, M. L., Koefoed, K., Mamsen, L. S., Lauridsen, K. G., Tuckute, G., Andersen, A. S., Christensen, S. T., Moellgaard, K., Calloe, K., Andersen, C. Y. (2019): Comparison of Cultured Human Cardiomyocyte Clusters Obtained from Embryos/Fetuses or Derived from Human Embryonic Stem Cells, Stem Cells and Development , http://doi.org/10.1089/scd.2018.0231.

clon

Vectors for molecular cloning

Interaction between SNAP-25 and synaptotagmin-1 in neuronal vesicle exocytosis

Work conducted Neuronal Signaling Lab (advisor: Professor Jakob B. Sorensen), Department of Neuroscience, University of Copenhagen, April 2016 - June 2016:

wb

Quantification of presynaptic proteins interacting with the PDZ domains of PSD-95

The role of PSD-95 in regulating synaptic plasticity by AMPA receptor insertion in the presynaptic membrane

Work conducted as an undergraduate researcher in the Kennedy Lab (advisors: Professor Mary B. Kennedy, Dr. Tara Mastro), Division of Biology and Biological Engineering, California Institute of Technology (CALTECH), September 2016 - December 2016.

bec

A Bose-Einstein condensate from a gas cloud of Rubidium atom in a magneto-optical trap at a temperature of 0.3 µ Kelvin

Bose-Einstein condensates & Quantum optics

Work conducted in late high school and for two research competitions (advisors: Professor Klaus Moelmer, Department of Physics and Astronomy, Aarhus University and Dr. Jacob Broe, Aalborg Cathedral School):
One project primarily on quantum tunneling, Bose-Einstein condensates from Rubidium atoms and probability distributions of the nonrelativistic Schrödinger equation. Second project on quantum optics and sequential storage and readout of laser light in a diamond for quantum relays. My work can be found here and here.

Volunteering/Other Employments/Teaching Experience

Languages and courses

Natural Languages Programming Languages Selected Coursework Certificates
English Python Introduction to Machine Learning and Data Mining Laboratory Animal Science EU Function A/B/D
Danish MATLAB Brain Circuits MRI safety training
French R Computational Cognitive Science
Lithuanian Linux/bash Quantitative Methods and Computational Models in Neuroscience
WebPPL (probabilistic programming) Matrix Methods for Signal Processing and Deep Learning
Bioinformatics of High Throughput Analyses


me

This is me looking very happy after receiving a 3D print of my left hemisphere, courtesy of amazing people from EvLab.

gyri

Matt Siegelman and I wrote a toolbox for inserting text into the gyri of a brain using a pretrained VGG-19 deepnet. My name is hidden in there somewhere.

dtu

Giving a demo of some of our work for Artificial Intelligence and Data degree at DTU!

About

I completed my bachelor of science degree (Molecular Biomedicine) at the University of Copenhagen (with a semester at the California Institute of Technology) in 2017. I completed my master of science degree (Molecular Biomedicine with neuroscience/computer science focus) at the University of Copenhagen/Technical University of Denmark with coursework/research at Massachusetts Institute of Technology and Hokkaido University. I am currently a graduate student within Biomechatronics at the MIT Media Laboratory. I am originally Lithuanian, raised in Denmark, and have lived in the US (Cambridge, MA and Pasadena, CA) and Canada (Hamilton, Ontario). I have traveled 36 countries (so far). When I don't do neuroscience, I love: I never doubted my aspiration to do research. I think it is a privilege to discover for a living, and I genuinely believe science is the best tool to change the world.