-
Eurasian blackcap (Sylvia atricapilla) atlas:
Sirmpilatze, N., Felder, A., Abdulazhanova, D., Schwigon, L., Haase, K., Musielak, I., Margrie, T. W., Mouritsen, H., Heyers, D., Tyson, A. L. , Weiler, S. (2025) "Mapping the magnetoreceptive brain: A 3D digital atlas of the migratory bird Eurasian blackcap (Sylvia atricapilla)" bioRxiv 2025.03.04.641293; doi: doi.org/10.1101/2025.03.04.641293
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Brainreg & brainglobe-segmentation (formerly brainreg-segment):
Tyson, A. L., Vélez-Fort, M., Rousseau, C. V., Cossell, L., Tsitoura, C., Lenzi, S. C., Obenhaus, H. A., Claudi, F., Branco, T., Margrie, T. W. (2022) "Accurate determination of marker location within whole-brain microscopy images" Scientific Reports, doi.org/10.1038/s41598-021-04676-9
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3D cell detection:
Tyson, A. L., Rousseau, C. V., Niedworok, C. J., Keshavarzi, S., Tsitoura, C., Cossell, L., Strom, M., Margrie, T. W. (2021) "A deep learning algorithm for 3D cell detection in whole mouse brain image datasets" PLOS Computational Biology 17(5): e1009074. doi.org/10.1371/journal.pcbi.1009074
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Brainrender:
Claudi, F., Tyson, A. L., Petrucco, L., Margrie, T.W., Portugues, R., Branco, T. (2021) "Visualizing anatomically registered data with Brainrender" eLife 2021;10:e65751 doi.org/10.7554/eLife.65751
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BrainGlobe Atlas API:
Claudi, F., Petrucco, L., Tyson, A. L., Branco, T., Margrie, T. W., Portugues, R. (2020) "BrainGlobe Atlas API: a common interface for neuroanatomical atlases" Journal of Open Source Software 5(54), 2668 doi.org/10.21105/joss.02668
This list is automatically generated from OpenAlex
Adam S. Lowet, Zheng Qiao, Melissa Meng et al. (2025)
An opponent striatal circuit for distributional reinforcement learning
Nature
DOI
Farid Aboharb, Pasha A. Davoudian, Ling-Xiao Shao et al. (2025)
Classification of psychedelics and psychoactive drugs based on brain-wide imaging of cellular c-Fos expression
Nature Communications
DOI
Alec L. R. Soronow, Matthew W. Jacobs, Richard G. Dickson et al. (2025)
Bell Jar: A Semiautomated Registration and Cell Counting Tool for Mouse Neurohistology Analysis
eNeuro
DOI
Alina Marymonchyk, Raquel Rodríguez-Aller, Ashleigh Willis et al. (2025)
Neural stem cell quiescence and activation dynamics are regulated by feedback input from their progeny under homeostatic and regenerative conditions
Cell stem cell
DOI
Shriya Palchaudhuri, Bei-Xuan Lin, Denys Osypenko et al. (2025)
A posterior insula to lateral amygdala pathway transmits US-offset information with a limited role in fear learning
Cell Reports
DOI
C. Spencer Garborg, Beatrice Ghitti, Qingguang Zhang et al. (2025)
Gut-Brain Hydraulics: Brain motion and CSF circulation is driven by mechanical coupling with the abdomen
bioRxiv
DOI
Mateo Vélez‐Fort, Lee Cossell, Laura Porta et al. (2025)
Motor and vestibular signals in the visual cortex permit the separation of self versus externally generated visual motion
Cell
DOI
Ahmadreza Attarpour, Jonas Osmann, Anthony Rinaldi et al. (2025)
A deep learning pipeline for three-dimensional brain-wide mapping of local neuronal ensembles in teravoxel light-sheet microscopy
Nature Methods
DOI
Stefan Pastore, Philipp Hillenbrand, Nils Molnar et al. (2025)
ClearFinder: a Python GUI for annotating cells in cleared mouse brain
BMC Bioinformatics
DOI
Junzhan Jing, Ming Hu, Tenzin Ngodup et al. (2025)
Molecular logic for cellular specializations that initiate the auditory parallel processing pathways
Nature Communications
DOI
Dominik Groos, Anna Maria Reuss, Peter Rupprecht et al. (2025)
A distinct hypothalamus–habenula circuit governs risk preference
Nature Neuroscience
DOI
Te‐Jen Su, Fabian Kloosterman (2025)
NeuroCarto: A Toolkit for Building Custom Read-out Channel Maps for High Electrode-count Neural Probes
Neuroinformatics
DOI
Shamimul Qamar (2024)
Optimized neuro fuzzy convolutional networks in gene expression analysis in microscopic image feature extraction and classification by deep learning architectures
Neural Computing and Applications
DOI
Nicolas Lavoie, Cristina Blanco‐Duque, Martin C. Kahn et al. (2024)
The role of cholinergic signaling in multi-sensory gamma stimulation induced perivascular clearance of amyloid
bioRxiv
DOI
Lotte Razenberg, P.N. de Greef, Huibert D. Mansvelder et al. (2024)
Integration of cortical inputs in the lateral hypothalamus is dominated by the medial prefrontal cortex
bioRxiv
DOI
Mariah L. Kenney, Iaroslavna Vasylieva, Greg Hood et al. (2024)
The Brain Image Library: A Community-Contributed Microscopy Resource for Neuroscientists
Scientific Data
DOI
Ling-Xiao Shao, Clara Liao, Pasha A. Davoudian et al. (2024)
Pyramidal cell types and 5-HT2A receptors are essential for psilocybin's lasting drug action
bioRxiv
DOI
Jihoon Kim, Mijung Choi, Jimin Lee et al. (2024)
Bidirectional Control of Emotional Behaviors by Excitatory and Inhibitory Neurons in the Orbitofrontal Cortex
Experimental Neurobiology
DOI
Naman Vatsa, Julia K. Brynildsen, Thomas Goralski et al. (2024)
Network analysis of α-synuclein pathology progression reveals p21-activated kinases as regulators of vulnerability
bioRxiv
DOI
Fae N. Kronman, Josephine K. Liwang, Rebecca Betty et al. (2024)
Developmental mouse brain common coordinate framework
Nature Communications
DOI
Simon Weiler, Mateo Vélez‐Fort, Troy W. Margrie (2024)
Overcoming off-target optical stimulation-evoked cortical activity in the mouse brain in vivo
iScience
DOI
You Kure Wu, Luigi Petrucco, Rubén Portugués (2024)
Anatomical and functional organization of the interpeduncular nucleus in larval zebrafish
bioRxiv
DOI
Biqi Chen, Zi Yin, Wai‐Lung Ng et al. (2024)
Label-free live cell recognition and tracking for biological discoveries and translational applications
npj Imaging
DOI
Anna Zhukovskaya, Christopher A. Zimmerman, Lindsay Willmore et al. (2024)
Heightened lateral habenula activity during stress produces brainwide and behavioral substrates of susceptibility
Neuron
DOI
Kira A. Griswold, Iaroslavna Vasylieva, Megan Smith et al. (2024)
Sialic acid and PirB are not required for targeting of neural circuits by neurotropic mammalian orthoreovirus
mSphere
DOI
Praachi Tiwari, Pasha A. Davoudian, Darshana Kapri et al. (2024)
Ventral hippocampal parvalbumin interneurons gate the acute anxiolytic action of the serotonergic psychedelic DOI
Neuron
DOI
Mathew D. Edwards, Ziwei Yin, Risa Sueda et al. (2024)
Combined transcriptomic, connectivity, and activity profiling of the medial amygdala using highly amplified multiplexedin situhybridization (hamFISH)
bioRxiv
DOI
Emily C. Isko, Clifford E. Harpole, Xiaoyue Mike Zheng et al. (2024)
Selective expansion of motor cortical projections in the evolution of vocal novelty
bioRxiv
DOI
Yu Kang T. Xu, Abigail Bush, Ephraim Musheyev et al. (2024)
Brain-wide mapping of oligodendrocyte organization and oligodendrogenesis across the murine lifespan
bioRxiv
DOI
Nicolas Chiaruttini, Carlo Castoldi, Linda Maria Requie et al. (2024)
ABBA, a novel tool for whole-brain mapping, reveals brain-wide differences in immediate early genes induction following learning
bioRxiv
DOI
Kui Qian, Beth Friedman, Jun Takatoh et al. (2024)
CellBoost: A pipeline for machine assisted annotation in neuroanatomy
AI Open
DOI
Neha Rajput, Kush Parikh, Ada Squires et al. (2024)
Whole-brain mapping in adult zebrafish and identification of a novel tank test functional connectome
bioRxiv
DOI
Simon Weiler, Mateo Vélez‐Fort, Troy W. Margrie (2024)
Overcoming off-target optical stimulation-evoked cortical activity in the mouse brainin vivo
bioRxiv
DOI
Yiliu Wang, Christof Koch, Uygar Sümbül (2024)
Spatial transcriptomic data reveals pure cell types via the mosaic hypothesis
bioRxiv
DOI
Eric R. Szelenyi, Jovana Navarrete, Alexandria D. Murry et al. (2024)
An arginine-rich nuclear localization signal (ArgiNLS) strategy for streamlined image segmentation of single cells
Proceedings of the National Academy of Sciences
DOI
David F. Parks, Aidan Schneider, Yifan Xu et al. (2024)
A nonoscillatory, millisecond-scale embedding of brain state provides insight into behavior
Nature Neuroscience
DOI
Kim M. Gruver, Jenny W. Y. Jiao, Eviatar Fields et al. (2024)
Structured connectivity in the output of the cerebellar cortex
Nature Communications
DOI
Camilo Laiton, Nicholas A. Lusk, John R. Rohde et al. (2024)
SmartSPIM Pipeline: A Scalable Cloud-Based Image Processing Pipeline for Light-sheet Microscopy Data
Microscopy and Microanalysis
DOI
Elyashiv Zangen, Shira Hadar, Christopher Lawrence et al. (2024)
Prefrontal cortex neurons encode ambient light intensity differentially across regions and layers
Nature Communications
DOI
A. Vanessa Stempel, Dominic A. Evans, Oriol Pavón Arocas et al. (2024)
Tonically active GABAergic neurons in the dorsal periaqueductal gray control instinctive escape in mice
Current Biology
DOI
Stefan Pastore, Philipp Hillenbrand, Nils Molnar et al. (2024)
ClearFinder: a Python GUI for annotating cells in cleared mouse brain
bioRxiv
DOI
Yasmin M. Kassim, David B. Rosenberg, Alma Renero et al. (2024)
VASCilia (Vision Analysis StereoCilia): A Napari Plugin for Deep Learning-Based 3D Analysis of Cochlear Hair Cell Stereocilia Bundles
bioRxiv
DOI
Sofía Skromne Carrasco, Guillaume Viejo, Adrien Peyrache (2024)
Months-long stability of the head-direction system
bioRxiv
DOI
Andrew Jones, Diana Cai, Didong Li et al. (2024)
Optimizing the design of spatial genomic studies
Nature Communications
DOI
Daniel Birman, Gaëlle Chapuis, Mayo Faulkner et al. (2024)
Interactive data exploration websites for large-scale electrophysiology
bioRxiv
DOI
Emmett J Thompson, Lars Rollik, Benjamin Waked et al. (2024)
Replay of procedural experience is independent of the hippocampus
bioRxiv
DOI
Yoon Kyoung Choi, Linqing Feng, Won-Ki Jeong et al. (2024)
Connecto-informatics at the mesoscale: current advances in image processing and analysis for mapping the brain connectivity
Brain Informatics
DOI
Farid Aboharb, Pasha A. Davoudian, Ling-Xiao Shao et al. (2024)
Classification of psychedelic drugs based on brain-wide imaging of cellular c-Fos expression
bioRxiv
DOI
Mattia Chini, Marilena Hnida, Johanna K. Kostka et al. (2024)
Preconfigured architecture of the developing mouse brain
Cell Reports
DOI
Ya‐Hui Lin, Liwen Wang, Yen‐Hui Chen et al. (2024)
Revealing intact neuronal circuitry in centimeter-sized formalin-fixed paraffin-embedded brain
eLife
DOI
Simon Weiler, Manuel Teichert, Troy W. Margrie (2024)
Layer 6 corticocortical cells dominate the anatomical organization of intra and interhemispheric feedback
bioRxiv
DOI
Nicholas J. Tustison, Min Chen, Fae N. Kronman et al. (2024)
The ANTsX Ecosystem for Mapping the Mouse Brain
bioRxiv
DOI
Lijuan Tang, Jiayu Wang, Jiayi Ding et al. (2024)
Curved light sheet microscopy for centimeter-scale cleared tissues imaging
bioRxiv
DOI
Doris Kaltenecker, Rami Al-Maskari, Moritz Negwer et al. (2024)
Virtual reality-empowered deep-learning analysis of brain cells
Nature Methods
DOI
Rastko Ćirić, Anna Xu, Russell A. Poldrack (2024)
hyve, a compositional visualisation engine for brain imaging data
bioRxiv
DOI
Simon Weiler, Vahid Rahmati, Marcel Isstas et al. (2024)
A primary sensory cortical interareal feedforward inhibitory circuit for tacto-visual integration
Nature Communications
DOI
Alireza A. Dehaqani, Filippo Michelon, Paola Patella et al. (2024)
A mechanosensory feedback that uncouples external and self-generated sensory responses in the olfactory cortex
Cell Reports
DOI
Jordan S. Farrell, Ernie Hwaun, Barna Dudok et al. (2024)
Neural and behavioural state switching during hippocampal dentate spikes
Nature
DOI
Jae Hong Park, Seonmi Choi, Jun Takatoh et al. (2024)
Brainstem control of vocalization and its coordination with respiration
Science
DOI
Michael Lohse, Oliver Gauld, Maja T Skrętowska et al. (2024)
Zapit: Open Source Random-Access Photostimulation For Neuroscience
bioRxiv
DOI
Camilla H. Blixhavn, Ingrid Reiten, Heidi Kleven et al. (2024)
The Locare workflow: representing neuroscience data locations as geometric objects in 3D brain atlases
Frontiers in Neuroinformatics
DOI
Irina Pochinok, Tristan M. Stöber, Jochen Triesch et al. (2024)
A developmental increase of inhibition promotes the emergence of hippocampal ripples
Nature Communications
DOI
Keelin McKenna, Soumil Prasad, Jaimee Cooper et al. (2024)
Incidence of Otolaryngological Manifestations in Individuals with Autism Spectrum Disorder: A Special Focus on Auditory Disorders
Audiology Research
DOI
Adam S. Lowet, Zheng Qiao, Melissa Meng et al. (2024)
An opponent striatal circuit for distributional reinforcement learning
bioRxiv
DOI
Maxwell D Melin, Anup Khanal, Marvin Vasquez et al. (2023)
Large scale, simultaneous, chronic neural recordings from multiple brain areas
bioRxiv
DOI
Mariah L. Kenney, Iaroslavna Vasylieva, Greg Hood et al. (2023)
The Brain Image Library: A Community-Contributed Microscopy Resource for Neuroscientists
bioRxiv
DOI
Meng Zhang, Xingjie Pan, Won Jung et al. (2023)
Molecularly defined and spatially resolved cell atlas of the whole mouse brain
Nature
DOI
Josephine Fisher, Marieke Verhagen, Zhen Long et al. (2023)
Cortical somatostatin long-range projection neurons and interneurons exhibit divergent developmental trajectories
Neuron
DOI
Malika S. Datta, Yannan Chen, Shradha Chauhan et al. (2023)
Whole-brain mapping reveals the divergent impact of ketamine on the dopamine system
Cell Reports
DOI
Eric R. Szelenyi, Jovana Navarrete, Alexandria D. Murry et al. (2023)
An arginine-rich nuclear localization signal (ArgiNLS) strategy for streamlined image segmentation of single-cells
bioRxiv
DOI
A. Vanessa Stempel, Dominic A. Evans, Oriol Pavón Arocas et al. (2023)
Tonically active GABAergic neurons in the dorsal periaqueductal gray control the initiation and execution of instinctive escape
bioRxiv
DOI
Runze Chen, Min Liu, Weixun Chen et al. (2023)
Deep learning in mesoscale brain image analysis: A review
Computers in Biology and Medicine
DOI
Christopher A. Zimmerman, Scott S. Bolkan, Alejandro Pan-Vazquez et al. (2023)
A neural mechanism for learning from delayed postingestive feedback
bioRxiv
DOI
Silas A. Buck, Sophie A. Rubin, Tenzin Kunkhyen et al. (2023)
Sexually dimorphic mechanisms of VGLUT-mediated protection from dopaminergic neurodegeneration
bioRxiv
DOI
Leslie J. Sibener, Alice C. Mosberger, Tiffany X. Chen et al. (2023)
Dissociable roles of thalamic nuclei in the refinement of reaches to spatial targets
bioRxiv
DOI
Yuran Zhu, Guanhua Wang, Chaitanya Kolluru et al. (2023)
Transport pathways and kinetics of cerebrospinal fluid tracers in mouse brain observed by dynamic contrast-enhanced MRI
Scientific Reports
DOI
Alessandra Franceschini, Giacomo Mazzamuto, Curzio Checcucci et al. (2023)
Brain-wide neuron quantification toolkit reveals strong sexual dimorphism in the evolution of fear memory
Cell Reports
DOI
Daniel Birman, Kenneth J. Yang, Steven J. West et al. (2023)
Pinpoint: trajectory planning for multi-probe electrophysiology and injections in an interactive web-based 3D environment
bioRxiv
DOI
Johanna K. Kostka, Ileana L. Hanganu‐Opatz (2023)
Olfactory‐driven beta band entrainment of limbic circuitry during neonatal development
The Journal of Physiology
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Dillon J. McGovern, Abigail M. Polter, Emily D. Prévost et al. (2023)
Ventral tegmental area glutamate neurons establish a mu-opioid receptor gated circuit to mesolimbic dopamine neurons and regulate opioid-seeking behavior
Neuropsychopharmacology
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Leonardo Lupori, Valentino Totaro, Sara Cornuti et al. (2023)
A comprehensive atlas of perineuronal net distribution and colocalization with parvalbumin in the adult mouse brain
Cell Reports
DOI
Leslie D. Claar, Irene Rembado, Jacqulyn R. Kuyat et al. (2023)
Cortico-thalamo-cortical interactions modulate electrically evoked EEG responses in mice
eLife
DOI
Imad Eddine Toubal, Noor Al-Shakarji, DDW Cornelison et al. (2023)
Ensemble Deep Learning Object Detection Fusion for Cell Tracking, Mitosis, and Lineage
IEEE Open Journal of Engineering in Medicine and Biology
DOI
Sebastian H. Zahler, David E. Taylor, Brennan S. Wright et al. (2023)
Hindbrain modules differentially transform activity of single collicular neurons to coordinate movements
Cell
DOI
David F. Parks, Aidan Schneider, Yifan Xu et al. (2023)
A non-oscillatory, millisecond-scale embedding of brain state provides insight into behavior
bioRxiv
DOI
Ben Kantor, Inbal Ben-Ami Bartal (2023)
Brainways: An AI-based Tool for Automated Registration, Quantification and Generation of Brain-wide Activity Networks Based on Fluorescence in Coronal Slices
bioRxiv
DOI
Luigi Petrucco, Hagar Lavian, You Kure Wu et al. (2023)
Neural dynamics and architecture of the heading direction circuit in zebrafish
Nature Neuroscience
DOI
Roberto De Filippo, Dietmar Schmitz (2023)
Differential ripple propagation along the hippocampal longitudinal axis
eLife
DOI
Emily D. Prévost, Alysabeth Phillips, Kristoffer Lauridsen et al. (2023)
Monosynaptic inputs to ventral tegmental area glutamate and GABA co-transmitting neurons
bioRxiv
DOI
Joel D. Hahn, Chloe Duckworth (2023)
A brain flatmap data visualization tool for mouse, rat, and human
The Journal of Comparative Neurology
DOI
Alexandra Tran-Van-Minh, Ye Z, Ede Rancz (2023)
Quantitative analysis of rabies virus-based synaptic connectivity tracing
PLoS ONE
DOI
Kim M. Gruver, Jenny W. Y. Jiao, Eviatar Fields et al. (2023)
Structured connectivity in the output of the cerebellar cortex
bioRxiv
DOI
Liwen Wang, Ya-Lun Wu, Chih-Lin Lee et al. (2023)
A Weakly Supervised U-Net Model for Precise Whole Brain Immunolabeled Cell Detection
bioRxiv
DOI
Thomas L. Athey, Matthew A. Wright, Marija Pavlović et al. (2023)
BrainLine: An Open Pipeline for Connectivity Analysis of Heterogeneous Whole-Brain Fluorescence Volumes
bioRxiv
DOI
Camden J. MacDowell, Alexandra Libby, Caroline I. Jahn et al. (2023)
Multiplexed Subspaces Route Neural Activity Across Brain-wide Networks
bioRxiv
DOI
Sumit Kumar Vohra, Philipp Harth, Yasuko Isoe et al. (2023)
A Visual Interface for Exploring Hypotheses about Neural Circuits
IEEE Transactions on Visualization and Computer Graphics
DOI
Jules Scholler, Joel Jonsson, Tomás Jordá-Siquier et al. (2023)
Efficient image analysis for large-scale next generation histopathology using pAPRica
bioRxiv
DOI
Hemanth Mohan, Xu An, X. Hermione Xu et al. (2023)
Cortical glutamatergic projection neuron types contribute to distinct functional subnetworks
Nature Neuroscience
DOI
Michael Kintscher, Olexiy Kochubey, Ralf Schneggenburger (2023)
A striatal circuit balances learned fear in the presence and absence of sensory cues
eLife
DOI
Jingyi Guo Fuglstad, Pearl Saldanha, Jacopo Paglia et al. (2023)
Histological E-data Registration in rodent Brain Spaces
eLife
DOI
Pasha A. Davoudian, Ling-Xiao Shao, Alex C. Kwan (2023)
Shared and Distinct Brain Regions Targeted for Immediate Early Gene Expression by Ketamine and Psilocybin
ACS Chemical Neuroscience
DOI
Célian Bimbard, Timothy P.H. Sit, Anna Lebedeva et al. (2023)
Behavioral origin of sound-evoked activity in mouse visual cortex
Nature Neuroscience
DOI
Wuzhou Yang, Harsh Kanodia, Silvia Arber (2023)
Structural and functional map for forelimb movement phases between cortex and medulla
Cell
DOI
Silvia Fanton, William Hedley Thompson (2023)
NetPlotBrain: A Python package for visualizing networks and brains
Network Neuroscience
DOI
Moritz Negwer, Bram Bosch, Maren Bormann et al. (2022)
FriendlyClearMap: an optimized toolkit for mouse brain mapping and analysis
GigaScience
DOI
Dylan J. Terstege, Jonathan R. Epp (2022)
Network Neuroscience Untethered: Brain-Wide Immediate Early Gene Expression for the Analysis of Functional Connectivity in Freely Behaving Animals
Biology
DOI
Dario Campagner, Ruben Vale, Yu Lin Tan et al. (2022)
A cortico-collicular circuit for orienting to shelter during escape
Nature
DOI
Séverine Durand, Greggory Heller, Tamina K. Ramirez et al. (2022)
Acute head-fixed recordings in awake mice with multiple Neuropixels probes
Nature Protocols
DOI
Xu An, Katherine S. Matho, Yi Li et al. (2022)
A cortical circuit for orchestrating oromanual food manipulation
bioRxiv
DOI
Harsharan S. Bhatia, Andreas‐David Brunner, Furkan Öztürk et al. (2022)
Spatial proteomics in three-dimensional intact specimens
Cell
DOI
Theodora Chalatsi, Laura M. J. Fernandez, Jules Scholler et al. (2022)
Autophagy in parvalbumin interneurons is required for inhibitory transmission and memory via regulation of synaptic proteostasis
bioRxiv
DOI
Francesca Greenstreet, Hernando M. Vergara, Yvonne Johansson et al. (2022)
Action prediction error: a value-free dopaminergic teaching signal that drives stable learning
bioRxiv
DOI
Jun Takatoh, Vincent Prevosto, Paul Thompson et al. (2022)
The whisking oscillator circuit
Nature
DOI
Maya Wilde, Lena Constantin, Peter R. Thorne et al. (2022)
Auditory processing in rodent models of autism: a systematic review
Journal of Neurodevelopmental Disorders
DOI
Mattia Chini, Thomas Pfeffer, Ileana L. Hanganu‐Opatz (2022)
An increase of inhibition drives the developmental decorrelation of neural activity
eLife
DOI
Leslie D. Claar, Irene Rembado, Jacqulyn R. Kuyat et al. (2022)
Cortico-thalamo-cortical interactions modulate electrically evoked EEG responses in mice
bioRxiv
DOI
Chi‐Li Chiu, Nathan Clack (2022)
napari: a Python Multi-Dimensional Image Viewer Platform for the Research Community
Microscopy and Microanalysis
DOI
Ali Özgür Argunşah, Ertunç Erdil, Muhammad Usman Ghani et al. (2022)
An interactive time series image analysis software for dendritic spines
Scientific Reports
DOI
Kiersten M. Ruff, Yoon Hee Choi, Dezerae Cox et al. (2022)
Sequence grammar underlying the unfolding and phase separation of globular proteins
Molecular Cell
DOI
Zimei Wang, Adam Romanski, Vatsal Mehra et al. (2022)
Brain-wide analysis of the supraspinal connectome reveals anatomical correlates to functional recovery after spinal injury
eLife
DOI
Jan C. Frankowski, Alexa Tierno, Shreya Pavani et al. (2022)
Brain-wide reconstruction of inhibitory circuits after traumatic brain injury
Nature Communications
DOI
Alexandra Tran-Van-Minh, Ye Z, Ede Rancz (2022)
Quantitative analysis of rabies virus-based synaptic connectivity tracing
bioRxiv
DOI
Yuxin Zhang, Tobias Ackels, Alexandra Pacureanu et al. (2022)
Sample Preparation and Warping Accuracy for Correlative Multimodal Imaging in the Mouse Olfactory Bulb Using 2-Photon, Synchrotron X-Ray and Volume Electron Microscopy
Frontiers in Cell and Developmental Biology
DOI
Tao Lu, Munehisa Shinozaki, Narihito Nagoshi et al. (2022)
3Dimaging of supraspinal inputs to the thoracic and lumbar spinal cord mapped by retrograde tracing and light‐sheet microscopy
Journal of Neurochemistry
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Johanna Beyer, Jakob Troidl, Saeed Boorboor et al. (2022)
A Survey of Visualization and Analysis in High‐Resolution Connectomics
Computer Graphics Forum
DOI
Vahid Esmaeili, Anastasiia Oryshchuk, Reza Asri et al. (2022)
Learning-related congruent and incongruent changes of excitation and inhibition in distinct cortical areas
PLoS Biology
DOI
Shuxia Guo, Jie Xue, Jian Liu et al. (2022)
Smart imaging to empower brain-wide neuroscience at single-cell levels
Brain Informatics
DOI
Gergely Szabó, Jordan S. Farrell, Barna Dudok et al. (2022)
Ripple-selective GABAergic projection cells in the hippocampus
Neuron
DOI
Luigi Petrucco, Hagar Lavian, You Kure Wu et al. (2022)
Neural dynamics and architecture of the heading direction circuit in a vertebrate brain
bioRxiv
DOI
Pok Him Siu, Eli J. Müller, Valerio Zerbi et al. (2022)
Extracting Dynamical Understanding From Neural-Mass Models of Mouse Cortex
Frontiers in Computational Neuroscience
DOI
Johanna Perens, Jacob Hecksher‐Sørensen (2022)
Digital Brain Maps and Virtual Neuroscience: An Emerging Role for Light-Sheet Fluorescence Microscopy in Drug Development
Frontiers in Neuroscience
DOI
Michelle Jin, Joseph Nguyen, Sophia J. Weber et al. (2022)
SMART: An Open-Source Extension of WholeBrain for Intact Mouse Brain Registration and Segmentation
eNeuro
DOI
Pasha A. Davoudian, Ling-Xiao Shao, Alex C. Kwan (2022)
Shared and distinct brain regions targeted for immediate early gene expression by ketamine and psilocybin
bioRxiv
DOI
Hemanth Mohan, Xu An, Hideki Kondo et al. (2022)
Cortical glutamatergic projection neuron types contribute to distinct functional subnetworks
Research Square
DOI
Logan A. Walker, Jennifer S. Williams, Ye Li et al. (2022)
nGauge: Integrated and Extensible Neuron Morphology Analysis in Python
Neuroinformatics
DOI
Alessandro R. Galloni, Ye Z, Ede Rancz (2022)
Dendritic Domain-Specific Sampling of Long-Range Axons Shapes Feedforward and Feedback Connectivity of L5 Neurons
Journal of Neuroscience
DOI
Kristoffer Lauridsen, Annie Ly, Emily D. Prévost et al. (2022)
A Semi-Automated Workflow for Brain Slice Histology Alignment, Registration, and Cell Quantification (SHARCQ)
eNeuro
DOI
Dylan J. Terstege, Daniela O. Oboh, Jonathan R. Epp (2022)
FASTMAP: Open-Source Flexible Atlas Segmentation Tool for Multi-Area Processing of Biological Images
eNeuro
DOI
Sau Yee Tsoi, Merve Öncül, Ella Svahn et al. (2022)
Telencephalic outputs from the medial entorhinal cortex are copied directly to the hippocampus
eLife
DOI
Valeria Bonapersona, Heike Schuler, Ruth Damsteegt et al. (2022)
The mouse brain after foot shock in four dimensions: Temporal dynamics at a single-cell resolution
Proceedings of the National Academy of Sciences
DOI
Nils Nyberg, Éléonore Duvelle, Caswell Barry et al. (2022)
Spatial goal coding in the hippocampal formation
Neuron
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