Dimitri Yatsenko

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.

Spyglass: a framework for reproducible and shareable neuroscience research

Spyglass provides a reproducible and shareable framework for neuroscience research, enabling data reuse and analysis across labs using standardized formats and pipelines.

Standardised Measurements for Monitoring and Comparing Multiphoton Microscope Systems

This protocol provides standardised measurements to assess and compare multiphoton microscope performance across users.

DataJoint Elements: Data Workflows for Neurophysiology

The paper introduces DataJoint Elements, a resource providing modular workflow designs for organizing data and computations in neurophysiology experiments.

Signal separability in integrated neurophotonics

This paper defines criteria for evaluating photonic probe designs to improve signal separability in densely labeled neural populations.

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.

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.

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.

DataJoint: managing big scientific data using MATLAB or Python

DataJoint is an open-source toolbox for managing large scientific datasets using MATLAB or Python, enabling flexible data manipulation and processing.