Anne K. Churchland

Learning Interpretable Switching Dynamics in Shared Neural-Behavioral Latent Space

This paper introduces SSLD, a framework that learns shared neural-behavioral latent dynamics and private modality-specific variables, showing it accurately reconstructs signals and isolates behaviorally relevant information across multiple datasets.

Miniscope Zero: a fully wireless, single-cell-resolution miniature microscope for imaging neural dynamics in freely behaving animals

Altered Use of Prior Expectations and Modified Neural Dynamics in a Mouse Model of Autism

This study examines how Nrxn1 loss-of-function affects prior utilization and neural dynamics in a mouse model of autism, revealing impaired decision-making and altered cortical activity.

Brain-wide representations of prior information in mouse decision-making

Mice infer stimulus-side priors from recent choices; prior signals are decodable pre-stimulus in 24.0% to 30.2% of 242 brain regions, including early visual and motor areas.

A Brain-Wide Map of Neural Activity during Complex Behaviour

The paper presents a brain-wide neural activity map from 621,733 neurons across 139 mice performing a decision-making task, showing how neural activity encodes task variables across brain regions.

A common computational and neural anomaly across mouse models of autism

The paper shows that mice with ASD-related mutations exhibit similar computational and neural anomalies in prior updating during decision-making.

Reproducibility of in-vivo electrophysiological measurements in mice

This study evaluates the reproducibility of electrophysiological measurements across ten labs using standardized protocols and finds that variability in electrode targeting and statistical methods affects reproducibility.

Anterior cingulate cortex mixes retrospective cognitive signals and ongoing movement signatures during decision-making

The paper shows that ACC neurons in mice encode trial history independently of movement signals during decision-making.

DREDge: robust motion correction for high-density extracellular recordings across species

DREDge improves motion correction in high-density extracellular recordings across species, enhancing reliability and reducing errors in electrophysiological data.

An adaptable, reusable, and light implant for chronic Neuropixels probes

The paper introduces an adaptable implant for chronic Neuropixels recordings in mice, enabling stable, reusable, and lightweight neural recordings across multiple experimental conditions.

Lightning Pose: improved animal pose estimation via semi-supervised learning, Bayesian ensembling, and cloud-native open-source tools

Interactive data exploration websites for large-scale electrophysiology

The paper introduces two public websites for exploring large-scale electrophysiology data from the International Brain Laboratory, enabling cross-platform access to behavioral trials and neuronal data.

Large scale, simultaneous, chronic neural recordings from multiple brain areas

The paper introduces a method for chronic, simultaneous neural recordings from multiple brain areas in mice, enabling long-term and flexible monitoring of neural activity during behavior.

Spontaneous movements and their impact on neural activity fluctuate with latent engagement states

The paper shows that neural activity variance during disengagement in mice is driven by spontaneous movements not tied to task events, revealing a hidden neural signature of disengagement.

Data architecture for a large-scale neuroscience collaboration

The paper describes a modular data architecture for a neuroscience collaboration, enabling data contribution, access, and analysis across multiple labs.

Pyramidal cell types drive functionally distinct cortical activity patterns during decision-making

The paper identifies distinct functional roles of pyramidal neuron types in cortical activity during decision-making tasks.

Two roles for choice selective inhibition in decision-making circuits

This study identifies two roles for selective inhibition in decision-making circuits: stabilizing excitatory populations and maximizing competition between oppositely selective populations.

Disentangled multi-subject and social behavioral representations through a constrained subspace variational autoencoder (CS-VAE)

This paper introduces a constrained subspace variational autoencoder (CS-VAE) to disentangle individual and social behavioral features in multi-subject settings, enabling analysis of latent variables for downstream tasks.

Mice alternate between discrete strategies during perceptual decision-making

The paper shows mice switch between multiple decision-making strategies during perceptual tasks, challenging the assumption of a single strategy.

Standardized and reproducible measurement of decision-making in mice

This paper develops a standardized task for measuring decision-making in mice, showing reproducible results across multiple laboratories and providing a public dataset and tools.

Lapses in perceptual judgments reflect exploration

This study shows that lapses in perceptual decisions in rats reflect a strategic trade-off between exploration and exploitation, and are informative about decision-related computations in neural structures.

Citric Acid Water as an Alternative to Water Restriction for High-Yield Mouse Behavior

The paper introduces citric acid water as an alternative to water restriction for motivating mice in behavioral tasks, showing it maintains performance without health risks.

BRICseq bridges brain-wide interregional connectivity to neural activity and gene expression in single animals

BRICseq maps brain-wide connectivity, activity, and gene expression in single animals, showing gene expression patterns predict connectivity and activity correlations.

Localized semi-nonnegative matrix factorization (LocaNMF) of widefield calcium imaging data

This paper introduces LocaNMF, a method to decompose widefield calcium imaging data into interpretable spatial and temporal components for analyzing neural activity across mice.

Excitatory and inhibitory subnetworks are equally selective during decision-making and emerge simultaneously during learning

The paper shows excitatory and inhibitory neurons in mice are equally selective during decision-making and develop similar selectivity changes during learning.

Single-trial neural dynamics are dominated by richly varied movements

The paper shows that neural activity during expert task performance is dominated by varied, uninstructed movements, revealing that movement-related activity often outweighs task-specific computations.

Chronically-implanted Neuropixels probes enable high yield recordings in freely moving mice

This paper demonstrates the adaptation of Neuropixels probes for chronic recordings in freely moving mice, enabling long-term neural activity tracking and probe reuse.

Visual evidence accumulation guides decision-making in unrestrained mice

This study shows mice can perform a visual evidence accumulation task, with area AM contributing to decision-making, despite challenges from optogenetic inhibition.

OnACID: Online Analysis of Calcium Imaging Data in Real Time

OnACID processes streaming calcium imaging data in real time by combining online dictionary learning with motion correction, source extraction, and activity deconvolution, tracking hundreds of neurons for closed-loop experiments.