Publications

Welcome to the ZEISS arivis image analysis technology publication list. Articles and papers by customers who use our products across all fields, applications and disciplines.

Virtual reality empowered deep learning analysis of brain activity

Doris Kaltenecker, Rami Al-Maskari, Moritz Negwer, Luciano Hoeher, Florian Kofler, Shan Zhao, Mihail Todorov, Johannes Christian Paetzold, Benedikt Wiestler, Julia Geppert, Pauline Morigny, Maria Rohm, Bjoern H. Menze, Stephan Herzig, Mauricio Berriel Diaz, Ali Ertürk

DOI: doi.org/10.1101/2023.05.18.540970

Journal: bioRxiv

Applications: light sheet microscopy

Methods: Visualization, analysis

Products: ZEISS arivis VR Toolkit (VisionVR)

3D architecture and a bi-cellular mechanism of touch detection in mechanosensory corpuscle

Yury A. Nikolaev, Luke H. Ziolkowski, Song Pang, Wei-Ping Li, Viktor V. Feketa, C. Shan Xu, Elena O. Gracheva, Sviatoslav N. Bagriantsev

DOI: 10.1126/sciadv.adi4147

Journal: Science Advances

Applications: volume electron microscopy

Methods: Visualization, analysis

Products: ZEISS arivis Pro (Vision4D), ZEISS arivis Cloud (APEER)

Composite Fibrin and Carbon Microfibre Implant to Modulate Post-traumatic Inflammation after Spinal Cord Injury

Vincent Escarrat, Jimena Perez-Sanchez, Bilal El-Waly, Jorge E. Collazos-Castro, and Franck Debarbieux

DOI: 10.3390/cells12060839

Journal: Cells

Applications: confocal microscopy

Methods: Visualization, analysis

Publications

Virtual reality empowered deep learning analysis of brain activity

3D architecture and a bi-cellular mechanism of touch detection in mechanosensory corpuscle

Composite Fibrin and Carbon Microfibre Implant to Modulate Post-traumatic Inflammation after Spinal Cord Injury

Leveraging the power of 3D brain-wide imaging and mapping tools for brain injury research in murine models

Efficient 3D light-sheet imaging of very large-scale optically cleared human brain and prostate tissue samples

Whole mouse body histology using standard IgG antibodies

Whole-mouse clearing and imaging at the cellular level with vDISCO

A high-throughput 3D bioprinted cancer cell migration and invasion model with versatile and broad biological applicability

Motor neurons use push-pull signals to direct vascular remodeling critical for their connectivity

Three-Dimensional Visualization With Tissue Clearing Uncovers Dynamic Alterations of Renal Resident Mononuclear Phagocytes After Acute Kidney Injury.

Visualization of sympathetic neural innervation in human white adipose tissue

A new protocol for whole-brain biodistribution analysis of AAVs by tissue clearing, light-sheet microscopy and semi-automated spatial quantification

FMNL2 regulates gliovascular interactions and is associated with vascular risk factors and cerebrovascular pathology in Alzheimer’s disease

3d virtual histology reveals pathological alterations of cerebellar granule cells in multiple sclerosis

Optimization of Whole Mount RNA Multiplexed in situ Hybridization Chain Reaction With Immunohistochemistry, Clearing and Imaging to Visualize Octopus Embryonic Neurogenesis

Functional analyses of the polycomb-group genes in sea lamprey embryos undergoing programmed DNA loss

Multiplex imaging of human induced pluripotent stem cell-derived neurons with CO-Detection by indEXing (CODEX) technology

ROOT HAIR DEFECTIVE 2 vesicular delivery to the apical plasma membrane domain during Arabidopsis root hair development

Long-term live imaging of epithelial organoids and corresponding multiscale analysis reveal high heterogeneity and identify core regulatory principles

Investigation of heterocellular features of the mouse retinal neurovascular unit by 3D electron microscopy

Glioblastoma hijacks neuronal mechanisms for brain invasion

Tracking and characterization of partial and full epithelial-mesenchymal transition cells in a mouse model of metastatic breast cancer

EZ Clear for simple, rapid, and robust mouse whole organ clearing

Live imaging of chromatin distribution reveals novel principles of nuclear architecture and chromatin compartmentalization

Keratin dynamics govern the establishment of the maternal-fetal interface

Neuroglia infection by rabies virus after anterograde virus spread in peripheral neurons

Chronic sleep loss disrupts blood–testis and blood–epididymis barriers, and reduces male fertility

Visualizing Periocular Mesenchyme Subpopulation Migratory Behaviors During Zebrafish Ocular Anterior Segment Development

B cell dissemination patterns during the germinal center reaction revealed by whole-organ imaging

3D reconstruction of SARS-CoV-2 infection in ferrets emphasizes focal infection pattern in the upper respiratory tract

Effects of cooling rate and oxygen partial pressure on heterogeneous crystal nucleation of supercooled lithium disilicate melt in PtRh20 containers

Depth-profiling of nickel nanocrystal populations in a borosilicate glass – A combined TEM and XRM study

High-resolution 3D imaging of fixed and cleared organoids

Light sheet fluorescence microscopy guided MALDI-imaging mass spectrometry of cleared tissue samples

Bioimage Analysis Tools

Efficient Skeleton Editing in a VR Environment Facilitates Accurate Modeling of Highly Branched Mitochondria

Label‐Free Four‐Dimensional Visualization of Anaerobically Growing Electroactive Biofilms

Correlative Nano‐Computed Tomography and Focused Ion‐Beam Sectioning: A Case Study on a Co‐Base Superalloy Oxide Scale

Maternal high-fat diet during lactation reprograms the dopaminergic circuitry in mice

Red Blood Cells Segmentation: A Fully Convolutional Network Approach

Large Area SEM Backscatter Imaging of GABA Post-Embedding Immunogold, Web-Based Crowdsourcing Segmentation and Local Image Processing for Rigorous Quantification

Axonal debris accumulates in corneal epithelial cells after intraepithelial corneal nerves are damaged: A focused Ion Beam Scanning Electron Microscopy (FIB-SEM) study

Machine learning analysis of whole mouse brain vasculature

Correlative three-dimensional super-resolution and block-face electron microscopy of whole vitreously frozen cells

Peripheral (not central) corneal epithelia contribute to the closure of an annular debridement injury

Life‐long impairment of glucose homeostasis upon prenatal exposure to psychostimulants

Light-sheet microscopy of cleared tissues with isotropic, subcellular resolution

Scalable Imaging Science Tools to Support Increasingly Efficient Workflows for Research Tasks on Massive Images

Tau oligomers mediate aggregation of RNA‐binding proteins Musashi1 and Musashi2 inducing Lamin alteration

Male meiotic spindle features that efficiently segregate paired and lagging chromosomes

Distinct mesoderm migration phenotypes in extra-embryonic and embryonic regions of the early mouse embryo

Targeted drug delivery via caveolae-associated protein PV1 improves lung fibrosis

A SEPT1-based scaffold is required for Golgi integrity and function

Panoptic imaging of transparent mice reveals whole-body neuronal projections and skull–meninges connections

Cortical column and whole-brain imaging with molecular contrast and nanoscale resolution

A Label-free Multicolor Optical Surface Tomography (ALMOST) imaging method for nontransparent 3D samples

NMDA-receptor inhibition and oxidative stress during hippocampal maturation differentially alter parvalbumin expression and gamma-band activity

Abnormal neurogenesis and cortical growth in congenital heart disease

Spatial and temporal changes in extracellular elastin and laminin distribution during lung alveolar development

Cellular Patterning of Arabidopsis Roots Under Low Phosphate Conditions

Observing the cell in its native state: Imaging subcellular dynamics in multicellular organisms

Plasma membrane LAT activation precedes vesicular recruitment defining two phases of early T-cell activation

Expression of HIV-1 pathogenesis factor NEF in CD4 T cells impairs antigen-specific B-cell function

Intravital Assessment of Cells Responses to Conducting Polymer-Coated Carbon Microfibres for Bridging Spinal Cord Injury

Neuronal and vascular deficits following chronic adaptation to high altitude

Big Data Approach to Electron Microscopy Acquisition and Analysis of Neuronal Tissue: Utility in Analysis of Neuronal and Synaptic Alterations in a Mouse Model of 22q11 deletion Syndrome

Post-Embedding Immunogold Detection of GABA-Labeling Using Large Area, High Resolution SEM Backscatter Imaging

Translocator protein localises to CD11b+ macrophages in atherosclerosis

Transgenesis and web resources in quail

High strength in combination with high toughness in robust and sustainable polymeric materials

Deep Learning Reveals Cancer Metastasis and Therapeutic Antibody Targeting in the Entire Body

Orthopedic Surgery Triggers Attention Deficits in a Delirium-Like Mouse Model

3D-Imaging of Whole Neuronal and Vascular Networks of the Human Dental Pulp via CLARITY and Light Sheet Microscopy

Automated analysis of whole brain vasculature using machine learning

Oscillatory cortical forces promote three dimensional cell intercalations that shape the murine mandibular arch

Glucocorticoid receptor in astrocytes regulates midbrain dopamine neurodegeneration through connexin hemichannel activity

GATA3 Promotes the Neural Progenitor State but Not Neurogenesis in 3D Traumatic Injury Model of Primary Human Cortical Astrocytes

Macropinosome formation by tent pole ruffling in macrophages

Panoptic vDISCO imaging reveals neuronal connectivity, remote trauma effects and meningeal vessels in intact transparent mice