Alexander Shakeel Bates

Sexual dimorphism in the complete connectome of the Drosophila male central nervous system

The paper presents the complete connectome of the Drosophila male central nervous system and compares it to the female connectome, identifying sex-specific and dimorphic neuronal types.

Uncovering Sex Differences in the Drosophila Ventral Nerve Cord Through Connectome Alignment

The paper automatically aligns Drosophila connectomes to classify neurons and identify sex-specific and sexually dimorphic cell types in the ventral nerve cord.

Distributed control circuits across a brain-and-cord connectome

The paper presents the first densely reconstructed adult fruit fly connectome integrating the brain and ventral nerve cord, revealing distributed control circuits involving local and long-range neural connections.

Neural circuit mechanisms for steering control in walking Drosophila

This study identifies descending neurons in Drosophila that predict and influence orientation during walking, showing they integrate internal and external steering signals to produce flexible control.

Quantitative Attributions with Counterfactuals

This paper introduces QuAC, a method for explaining deep neural network decisions on images by generating counterfactuals and attributing class differences, and evaluates it on synthetic and biological datasets.

Neuronal wiring diagram of an adult brain

The paper presents the first neuronal wiring diagram of a whole adult Drosophila brain, revealing synaptic connections and circuit mechanisms underlying sensorimotor behaviors.

A leaky integrate-and-fire computational model based on the connectome of the entire adult Drosophila brain reveals insights into sensorimotor processing

The paper creates a computational model of the Drosophila brain connectome to study sensorimotor processing and validates predictions through experiments.

Network Statistics of the Whole-Brain Connectome of Drosophila

The paper analyzes the network properties of the Drosophila whole-brain connectome, identifying rich club organization and signal integration/broadcasting neurons.

Comparative connectomics of the descending and ascending neurons of the Drosophila nervous system: stereotypy and sexual dimorphism

The paper provides a connectomic description of ascending and descending neurons in the Drosophila nervous system, revealing sexual dimorphism and motor-related circuits.

Neurotransmitter Classification from Electron Microscopy Images at Synaptic Sites in Drosophila Melanogaster

The paper uses artificial neural networks to classify neurotransmitters from electron microscopy images of Drosophila melanogaster synapses, achieving high accuracy and revealing ultrastructural differences.

Whole-brain annotation and multi-connectome cell typing quantifies circuit stereotypy in Drosophila

Annotating the 127,978-neuron FlyWire fly connectome yields 4,552 cell types, 3,094 cross-validated against the hemibrain; cell-type edges above 10 synapses or 1.1% of input recur over 90% across hemispheres.

Combinatorial encoding of odors in the mosquito antennal lobe

The paper identifies sub-classes of antennal lobe neurons in mosquitoes and shows how odorants are encoded by population activity in projection neurons.

Information flow, cell types and stereotypy in a full olfactory connectome

The paper describes the Drosophila olfactory system using a connectome, identifies information flow patterns, and quantifies stereotypy across individuals.

Neural circuit basis of aversive odour processing in Drosophila from sensory input to descending output.

Geosmin avoidance in Drosophila runs from a labelled line at the periphery into a distributed central representation spanning 80 third-order cell types, then into specific descending neurons.

Automated Reconstruction of a Serial-Section EM Drosophila Brain with Flood-Filling Networks and Local Realignment

Flood-filling networks with local section realignment segment a forty-teravoxel whole-brain Drosophila electron microscopy volume, making circuit reconstruction an order of magnitude faster than manual tracing.

A Connectome and Analysis of the Adult Drosophila Central Brain

The paper presents a detailed connectome of the adult Drosophila central brain, including new methods for data analysis and biological insights into neural circuit organization.

The connectome of the adult Drosophila mushroom body: implications for function

The paper maps the synaptic connectivity of the Drosophila mushroom body and identifies new circuit components and structures in sensory input processing and output modulation.

Complete connectomic reconstruction of olfactory projection neurons in the fly brain

The paper reconstructs the complete connectome of olfactory projection neurons in the Drosophila brain and identifies new connectivity patterns in olfactory circuits.

Input connectivity reveals additional heterogeneity of dopaminergic reinforcement in Drosophila

The paper identifies anatomical subtypes of dopaminergic neurons in Drosophila and their specific input connectivity, revealing functional roles in reinforcement and memory.

Connectomics analysis reveals first, second, and third order thermosensory and hygrosensory neurons in the adult Drosophila brain

The paper identifies new thermosensory and hygrosensory glomeruli and neurons in the Drosophila brain using connectomics, revealing their connections to higher brain centers and circadian clock circuits.

BAcTrace a new tool for retrograde tracing of neuronal circuits

BAcTrace is a new genetically encoded tool for retrograde neuronal tracing validated in Drosophila olfactory circuits.

The natverse: a versatile computational toolbox to combine and analyse neuroanatomical data

The natverse provides an open-source R package suite for analyzing neuroanatomical data, enabling analysis, visualization, and comparison across neuronal datasets.

Functional and Anatomical Specificity in a Higher Olfactory Centre

The paper identifies 165 cell types in the Drosophila lateral horn and shows that 33 of them have stereotyped odor responses, revealing principles of odor categorization in a higher olfactory center.

Communication from learned to innate olfactory processing centers is required for memory retrieval in Drosophila

The paper identifies two LH cell-types in Drosophila that are required for aversive memory retrieval and show that memory information is passed from the mushroom body to the lateral horn.

Neurogenetic dissection of the Drosophila innate olfactory processing center

The paper generates split-GAL4 driver lines to map and functionally characterize 82 cell types in the Drosophila lateral horn, revealing connectivity with mushroom bodies and identifying cell types that influence behavior.