Emmanouil Froudarakis

EthoPy: Reproducible Behavioral Neuroscience Made Simple

EthoPy simplifies reproducible behavioral neuroscience by automating training workflows and integrating stimulus presentation, hardware management, and data logging.

Dual-feature selectivity enables bidirectional coding in visual cortical neurons

The paper identifies a dual-feature encoding strategy in visual cortical neurons where neurons respond to both enhancing and suppressing visual features, showing this strategy is conserved across species.

NEURD offers automated proofreading and feature extraction for connectomics

NEURD automates proofreading and feature extraction from connectomics data to improve accuracy and accessibility of neural morphology analyses.

Functional connectomics spanning multiple areas of mouse visual cortex

The paper presents a functional connectomics dataset of mouse visual cortex, combining calcium imaging with EM reconstruction to study neural circuits and their connectivity.

Functional connectomics reveals general wiring rule in mouse visual cortex

Functionally similar neurons in mouse visual cortex connect preferentially across layers and areas, including feedback, and feature tuning, not receptive-field position, predicts synapses beyond axon-dendrite proximity.

Individualized fMRI neuromodulation enhances visuospatial perception: a guided approach targeted towards the neuro-rehabilitation of cortical blindness and deceleration of subjective cognitive impairment.

The paper demonstrates that individualized fMRI neuromodulation enhances visuospatial perception by increasing BOLD signal magnitude and classification performance in specific neural networks.

Binary and analog variation of synapses between cortical pyramidal neurons

The paper maps synaptic connectivity between cortical pyramidal neurons and shows synapse size is modeled by a combination of binary and analog variables.

Increased reliability of visually-evoked activity in area V1 of the MECP2-duplication mouse model of autism

The paper finds increased reliability of visually-evoked activity in V1 neurons of MECP2-duplication mice, suggesting altered sensory processing mechanisms in autism.

Digital twin reveals combinatorial code of non-linear computations in the mouse primary visual cortex

The paper uses digital twins to characterize the functional organization of mouse V1, revealing a combinatorial code of nonlinear response properties across 30 modes.

Behavioral state tunes mouse vision to ethological features through pupil dilation

The paper shows that pupil dilation in mice shifts color selectivity in the visual cortex towards ultraviolet stimuli, enhancing detection of ethological features like aerial predators.

Petascale neural circuit reconstruction: automated methods

Cloud-run convolutional nets aligned 19,939 serial EM sections of mouse visual cortex despite cracks and folds, segmented neurons and detected 523 million synapses; code and the reconstruction are public.

Multiscale and multimodal reconstruction of cortical structure and function

The paper presents a semi-automated reconstruction of mouse primary visual cortex from electron microscopy data, revealing structural and functional relationships in cortical circuits.

Object manifold geometry across the mouse cortical visual hierarchy

Recordings of thousands of mouse visual cortex neurons reveal that lateral areas LM, LI, and AL carry higher linearly decodable object information associated with reduced object manifold dimension and radius.

Chandelier cell anatomy and function reveal a variably distributed but common signal

The paper maps chandelier cell synapses onto pyramidal neurons and finds variability in synaptic input correlated with target neuron features, while showing functional correlation with arousal state.

EASE: EM-Assisted Source Extraction from calcium imaging data

The paper introduces EASE, a method that matches calcium imaging signals to EM-derived cell segments in mouse visual cortex, enabling dendritic functional analysis and denoising.

Inference of Synaptic Connectivity and External Variability in Neural Microcircuits

The paper investigates how functional connectivity, synaptic connectivity, and external input variability can be distinguished in neural microcircuits using simulations, analysis, and calcium imaging data.

Neocortical layer 4 in adult mouse differs in major cell types and circuit organization between primary sensory areas

The paper identifies distinct cell types and circuit organization in layer 4 of primary sensory areas in adult mouse neocortex, challenging the canonical microcircuit model.

A global map of orientation tuning in mouse visual cortex

The paper uses advanced imaging techniques to show that mouse visual cortex has a global orientation tuning map, challenging previous assumptions about its structure.

Inception in visual cortex: in vivo-silico loops reveal most exciting images

The paper develops inception loops to identify Most Exciting Images for V1 neurons in mice, finding that these images outperform linear model stimuli and reveal complex spatial features.

Stimulus domain transfer in recurrent models for large scale cortical population prediction on video

A deep recurrent encoding model predicts spiking of thousands of mouse V1 neurons during natural video and carries over to noise stimuli when only its last layer is retrained.

Community-based benchmarking improves spike rate inference from two-photon calcium imaging data

The paper benchmarks spike rate inference algorithms for two-photon calcium imaging data and finds that top-performing algorithms show high correlation despite diverse approaches.

Supervised learning sets benchmark for robust spike rate inference from calcium imaging signals

The paper benchmarks spike rate inference algorithms using calcium imaging data and introduces a supervised learning method that outperforms existing techniques across diverse datasets.