OOIR: Observatory of International Research

Papers

(The median citation count of Journal of Microscopy is 1. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2022-08-01 to 2026-08-01.)

Article	Citations
Study on line‐scan profile for a trapezoid line under varying sample temperatures through Monte–Carlo simulation	34
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Leveraging modified ex situ tomography data for segmentation of in situ synchrotron X‐ray computed tomography	29
Pairwise interaction Markov model for 3D epidermal nerve fibre endings	25
A method for crystallographic mapping of an alpha‐beta titanium alloy with nanometre resolution using scanning precession electron diffraction and open‐source software libraries	25
Seeing clearly – Plant anatomy through Katherine Esau's microscopy lens	25
TOC ‐ Issue Information	24
Self‐pressurised rapid freezing at arbitrary cryoprotectant concentrations	22
Innovating in a bioimaging core through instrument development	21
RNA‐based CLEM (RCLEM) bridging RNA localisation and ultrastructural mapping in 3D	20
Enhanced good practice for core facilities	20
A practical guide to bioimaging research data management in core facilities	19
High‐speed 4‐dimensional scanning transmission electron microscopy using compressive sensing techniques	19
Analogue optical pattern recognition for cross‐correlational CNN	17
TOC ‐ Issue Information	17
High‐pressure freezing of mechanically stretched cells	17
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Seven‐layer analysis model of an optical waveguide excitation fluorescence microscopy	17
Application of STEM tomography to investigate smooth ER morphology under stress conditions	16
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Virtual dissection of Aedes aegypti mosquito using phase‐contrast synchrotron microtomography	15
Stability of electron ptychography at low electron dose	15
Quantification of cell shape, intracellular flows and transport based on DIC object detection and tracking	15
Multi‐foci parallelised RESOLFT nanoscopy in an extended field‐of‐view	14

Towards affordable biomedical imaging: Recent advances in low‐cost, high‐resolution optoacoustic microscopy	14
In‐depth polarisation resolved SHG microscopy in biological tissues using iterative wavefront optimisation	13
ApoNecV: A macro for cell death type differentiation	13
Application of Noise2Inverse and adaptation (Noise2Phase) to single‐mask x‐ray phase contrast micro‐computed tomography	12
Subcellular localisation and identification of single atoms using quantitative scanning transmission electron microscopy	12
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A method for extraction of exosomes from breast tumour cells and characterisation by transmission electron microscopy	12
TOC ‐ Issue Information	12
Use of Melinex film for flat embedding tissue sections in LR White	11
Microscopy at a glance: New poster article series exploring the intersection of art, science and imaging	11
Characterisation of bond between cement paste and steel fibres with different surface roughness using SEM	11
Automated Euler number of the alveolar capillary network based on deep learning segmentation with verification by stereological methods	10
Single‐shot differential phase contrast microscopy using ring‐shaped polarisation multiplexing illumination	10
Development of a deep learning method for phase retrieval image enhancement in phase contrast microcomputed tomography	10
Investigation of the interface of fungal mycelium composite building materials by means of low‐vacuum scanning electron microscopy	10
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Multicamera simultaneous total internal reflection and interference reflection microscopy	10
Using the traditional microscope for mineral grain orientation determination: A prototype image analysis pipeline for optic‐axis mapping (POAM)	10
Traction force generation in Plasmodium sporozoites is modulated by a surface adhesin	9
Local spatial distribution of J‐aggregates in molecularly oriented bisazo‐dye thin films	9
Ptychography: A brief introduction	9
Surpassing light inhomogeneities in structured‐illumination microscopy with FlexSIM	9
Repair effect of Centella asiatica (L.) extract on damaged HaCaT cells studied by atomic force microscopy	9
The reproducibility gap in graph neural network workflows for cell dynamics: A checklist‐driven case study	8
Multiscale characterisation of cellulose nanofibril networks using three 3D imaging methods	8
CellPhePy: A python implementation of the CellPhe toolkit for automated cell phenotyping from microscopy time‐lapse videos	8
In operando imaging of the space‐charge region in a 4H‐SiC MOSCAP using STEM‐EBIC	8
Morphological and structural analysis of iron‐rich porcelains excavated from the Jian kiln site of Song dynasty	8
Flexible implementation of modulated localisation microscopy based on DMD	8
A role for core facilities in improving research rigour	8
Fluorescence microscopic investigation of PCE superplasticiser adsorption in calcined clay blended cement	8
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Correction to ‘Non‐fitting FLIM‐FRET facilitates analysis of protein interactions in live Zebrafish embryos’	7
Correction to “Image quality evaluation for FIB‐SEM images”	7
Response to Adler and Parmryd	7
Microscopic investigation of the optical and morphological properties of iPP/TiO₂ nanocomposite fibres using computed tomography technique	7
TOC ‐ Issue Information	7
Simple Python‐based methods for analysis and drift‐correction of STM images	7
Quantitative analysis of human umbilical vein endothelial cell morphology and tubulogenesis	7
Unveiling the limits of precision in iterative MINFLUX	7
TOC ‐ Issue Information	7
A Python tool to determine the thickness of the hydrate layer around clinker grains using SEM‐BSE images	7
Comparison of holotomographic microscopy and coherence‐controlled holographic microscopy	6
Cryo‐SEM and large volume FIB‐SEM of Arabidopsis cotyledons: Degradation of lipid bodies, biogenesis of glyoxysomes and reorganisation of organelles during germination	6
Flash electropolishing for TEM: Reducing FIB‐induced defects in tungsten with protocols for new materials ^#	6
Automatic identification and quantification of surface nanoscale pore morphology in coals of different ranks based on AFM, SEM and LP‐N ₂ GA	6
Correlation steered scanning with spiral scanning path for AFM to correct image distortion with real‐time compensation	6
TOC ‐ Issue Information	6
Confocal and multiphoton microscopy: A selective review	6
Characterisation and correction of polarisation effects in fluorescently labelled fibres	6

A detailed protocol for open and low‐cost six‐plex immunofluorescence (Flex‐6 mIHF) with a proof‐of‐concept study on breast cancer tissue	6
A novel scanning tunnelling microscope head with a double‐piezo‐tube nested scanner for operation in a vibrational magnet	6
Primed conversion: The emerging player of precise and nontoxic photoconversion	6
Introduction to the Festschrift for Paul Walther	6
TOC ‐ Issue Information	6
Non‐fitting FLIM‐FRET facilitates analysis of protein interactions in live zebrafish embryos	6
From EM to AI: Multiscale imaging of the secretory pathway with insights from plant cells	6
An automated slide scanning system for membrane filter imaging in diagnosis of urogenital schistosomiasis	6
TUNA‐EBSD‐CL correlative multi‐microscopy study, on the example of Cu(In,Ga)S₂ solar cell absorber	6
Tubule and microbranch variations in human dentine: A quantitative 3D study with serial block‐face scanning electron microscopy	6
A perspective of fluorescence microscopy for cellular structural biology with EGFR as witness	6
Open‐source hardware‐ and software‐based cryomicroscopy system for investigation of phase transitions in cryobiological research	6
Determining bismuth content in GaAsBi alloys by energy‐dispersive X‐ray spectroscopy: A case study with multiple sets of k *‐factors for analytical trans	6
A fluorescence lifetime separation approach for FLIM live‐cell imaging	5
The effect of the combined addition of copper, lithium and sulphur on the formation of Portland cement clinker	5
Correlation of near‐field optical microscopy and tip‐assisted photoluminescence	5
Supervised artificial intelligence classification of clinker processing conditions by optical microscopy	5
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Contrast by electron microscopy in thick biological specimens	5
TOC ‐ Issue Information	5
Detecting charge transfer at defects in 2D materials with electron ptychography	5
Made to measure: An introduction to quantifying microscopy data in the life sciences	5
Advances in high‐resolution cryo‐volume electron microscopy (cvEM) imaging for unicellular and multicellular organisms	5
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From observation to understanding: A multi‐agent framework for smart microscopy	5
Comparative study on the Ru ware, Ru‐type ware of Qingliangsi kiln and celadon of Zhanggongxiang kiln	5
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Microstructural characterisation of polycrystalline ice with an etch‐pitting replication method	4
Integrated approaches for multiscale mitochondrial structure and function analysis	4
The structure of the eggshell and eggshell membranes of Crocodylus niloticus	4
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PerfectlyAverage: A classical open‐source software method to determine the optimal averaging parameters in laser scanning fluorescence microscopy	4
Staying on track – Keeping things running in a high‐end scientific imaging core facility	4
Nanoprecipitate characterisation in NiTi and aluminium alloys: A TEM‐based overview	4
Comparison of the SMLM technique and the MSSR algorithm in confocal microscopy for super‐resolved imaging of cellulose fibres	4
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Automated particle recognition for engine soot nanoparticles	4
Setting up an institutional OMERO environment for bioimage data: Perspectives from both facility staff and users	4
Comparison of the effects of AgNPs on the morphological and mechanical characteristics of cancerous cells	4
Image quality evaluation for FIB‐SEM images	4
Estimating microstructural feature distributions from image data using a Bayesian framework	4
Quantifying phase magnitudes of open‐source focused‐probe 4D‐STEM ptychography reconstructions	4
Handheld cross‐polarised microscope for imaging individual pigmented cells in human skin in vivo	4
TOC ‐ Issue Information	4
Quantification of surface grinding during the sample preparation of cementitious materials by optical profilometry	4
Reduced order modelling of air‐puff test for corneal material characterisation	4
From cells to pixels: A decision tree for designing bioimage analysis pipelines	4
Introduction to Festschrift for Professor Tony Wilson	4
Single‐molecule validation and optimised protocols for the use of secondary nanobodies in multiplexed immunoassays	4
Background removal in fluorescence microscopy images based on baseline estimation	4
Closer to the native state: Sandwich freezing and freeze‐substitution of microorganisms, cultured cells, and animal and plant tissues for electron microscopy	4
Diversity under the microscope: Lessons for building belonging in interdisciplinary spaces from the Women in Imaging + Industry bootcamp	4
GloBIAS survey results – An insight into the global bioimage analysis community	4
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Diagnostic electron microscopy in human infectious diseases – Methods and applications	4
Improving Cavalieri volume estimation based on non‐equidistant planar sections: The trapezoidal estimator	3
Surface visualisation of bacterial biofilms using neutral atom microscopy	3
Sulphate resistance of low‐clinker engineered cementitious composites examined by MicroXRF imaging	3
An affordable fiducial marker strategy for reliable autofocus in long‐term live microscopy	3
Dynamical simulation of on‐axis transmission Kikuchi and spot diffraction patterns, based on accurate diffraction geometry calibration	3
Overcoming the challenges of preserving lipid‐richCannabis sativaL. glandular trichomes for transmission electron microscopy	3
A quantitative irradiation microscopy platform for in situ observation of living cells with subcellular resolution under radiation conditions	3
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TOC ‐ Issue Information	3
Quantifying superimposed protein flow dynamics in live cells using spatial filtering and spatiotemporal image correlation spectroscopy	3
Data analysis in imaging (DAIM) – A new RMS science section	3
Microscopical palynology: Birch woodland expansion and species hybridisation coincide with periods of climate warming during the Holocene epoch in Iceland	3
TOC ‐ Issue Information	3
TOC ‐ Issue Information	3
Multimodal optical microscopy defect detection method for indium bump arrays based on multi‐scale Demons deformation field difference	3
Background Remover – An effective tool for processing noisy microscopy images	3
ModularImageAnalysis (MIA): Assembly of modularised image and object analysis workflows in ImageJ	3
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Revisiting PSF models: Unifying framework and high‐performance implementation	3
Optimisation of freeze substitution protocols for the examination of malaria parasite structure by volumetric electron microscopy	3
A novel experimental platform to monitor solid/water interfaces under freeze–thaw cycles	3
Fast Gaussian fitting peak extraction for confocal microscopy	3
TOC ‐ Issue Information	3
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Strengthening research infrastructure through local networks of light microscopy facilities	3
Clinker based on calcium looped meals from the Cleanker Project	3
Ptychographic analysis of human bone marrow‐derived mesenchymal stem cell morphology: The impact of cell senescence	3
Fourier ptychography microscopy for digital pathology	3
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Improving light microscopy training routines with evidence‐based education	3
Preparation and topographical studies of various biological specimens using alternate method to critical point drying: Scanning electron microscopy	2
Reproducibility assessment of a published cell shape transition analysis workflow	2
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Atomic resolution imaging using a novel, compact and stiff scanning tunnelling microscope in cryogen‐free superconducting magnet	2
A Lens on the Future: Next Generation Microscopy by Next Generation Microscopists	2
Resolution enhancement of total internal reflection microscopy via polarised scattering	2
TOC ‐ Issue Information	2
More than just ‘added value’: The perils of not establishing shared core facilities in resource‐constrained communities	2
Morphological analysis and grain size distribution of SnO₂ nanoparticles via digital image processing across diverse calcination temperatures	2
Live cell imaging of plant infection provides new insight into the biology of pathogenesis by the rice blast fungus Magnaporthe oryzae	2
Unravelling molecular dynamics in living cells: Fluorescent protein biosensors for cell biology	2
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TOC ‐ Issue Information	2
Practical strategies for robust and inexpensive imaging of aqueous‐cleared tissues	2
Optimisation of EDS quantitative f‐ratio method via ZAF correction	2
Comparative morphological characterisation of SARS‐CoV‐2 and influenza B virus using atomic force microscopy	2
TOC ‐ Issue Information	2
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Electrolyte pH dependence of composition, roughness parameters, particle diameter and magnetic features of nanostructured Fe‐Co‐Ni/ITO deposits prepared by electrochemical deposition method	2
Modelling 3D supramolecular structure from sparse single‐molecule localisation microscopy data	2
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Simultaneous axial and radial swelling studies from 2D stereozoom images of tablet compacts composed of superdisintegrants	2
Visualisation and differentiation of binder components in hard carbon composite anodes by osmium tetroxide and uranyl acetate staining	2
Applications of clinker microscopy for approaching a special case study in cement production	2
Accelerating iterative ptychography with an integrated neural network	2
Revealing buried layers in oxide heterostructures with scanning transmission electron microscopy using integrated differential phase contrast (STEM‐iDPC) imaging	2
A new approach to etching low‐carbon microalloyed steels to reveal prior austenite grain boundaries and the dual‐phase microstructure	2
Study of curtaining effect reduction methods in Inconel 718 using a plasma focused ion beam	2
Ultrastructural expansion microscopy reveals unexpected levels of glycosome heterogeneity in African trypanosomes	2
TOC ‐ Issue Information	2
Investigations on lightweight concrete by in situ compression tests using high‐resolution computed tomography (μ‐CT)	2
3D microscopy in industrial measurements	2
An overview of reliable and representative DVC measurements for musculoskeletal tissues	2
Important aspects of investigating optical excitations in semiconductors using a scanning transmission electron microscope	2
Imaging and observation of microcirculation in bowel mucosa using sidestream dark field imaging	2
Mechanism of action and side effects of colchicine based on biomechanical properties of cells	2
Simplex‐based model for nanoparticle grain identification in four‐dimensional scanning transmission electron microscopy data	2
Suborganellar resolution imaging for the localisation of human glycosylation enzymes in tobacco Golgi bodies	2
Unravelling friction anisotropy by atomic force microscopy	2
In situ quantification of ribosome number by electron tomography	2
TOC ‐ Issue Information	2
Effect of the delayed wash (deglycerolisation) on the red blood cell morphology: Comparison of AFM and optical profilometry	2
The future of DXA: How AI is transforming bone health diagnostics	2
Global survey of microscopy core facilities	2
Differential phase contrast (DPC) mapping electric fields: Optimising experimental conditions	2
Pictures at an exhibition: How to share your imaging data	2
The fertility tracks of pollen tube in the ovary of Solanum nigrum by three‐dimensional reconstruction	2
MAM‐UNet: A multiple attention mechanism UNet for the eutectic segmentation of superalloys	2
Application of various microscopy techniques to study early‐age and longer‐term behaviour of super sulphated cement microstructure	2
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Paste, aggregate, or air? That is the question	2
Commentary on critique and rebuttal of ‘On the pixel selection criterion for the calculation of the Pearson's correlation coefficient in fluorescence microscopy’	2
Slags from roasting of antimony ore in the Brioude‐Massiac (France) area used as aggregates: An early example of circular economy	2
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Advancing collagen‐related pathology assessment through second‐harmonic generation imaging	1
Crossing scales and eras: Correlative multimodal microscopy heritage studies	1
Introduction to special issue ‘12th International Botanical Microscopy Meeting’	1
Practical crystallography with a transmission electron microscope	1
Hierarchical reconstruction of three‐dimensional porous media from a single two‐dimensional image with multiscale entropy statistics	1
Bridging imaging users to imaging analysis – A community survey	1
Expertise is the new infrastructure	1
Built to be shared: Lessons from the Canada Foundation for Innovation (CFI) on funding core facilities	1
Correction to “Exploring poly‐L‐lysine‐based particle capture for atomic force microscopy studies of extracellular vesicles”	1
Incorporation of antimony‐bearing mining wastes into clinker Portland raw feed: The difficulty of Sb analysis in calcium silicates	1
A detailed protocol for expansion microscopy of Paracentrotus lividus embryos and larvae: Incorporating decalcification for improved imaging	1
A rapid freezing method to determine tissue layer thickness in drought‐stressed leaves	1
TOC ‐ Issue Information	1
Comparison of two Monte Carlo approaches for homogeneous bulk samples	1
The changing landscape of training in microscopy facilities: Reflections on seven decades of research user support at the University of Sydney	1
Introduction to the special issue	1
Physical properties and photocatalytic activity of Cr‐doped TiO₂ nanoparticles	1
The microstructure and thermal stability of the two‐phase amorphous melt‐spun alloys ejected from a double‐chamber crucible	1
A workflow for semi‐automated volume correlative light microscopy and transmission electron tomography	1
The Origins of Ploem's Filter Cube: A Pandora's Box	1
A hybrid model for structured illumination microscopy reconstruction using attention mechanism and deep Laplacian pyramid network with Fourier loss	1
Imaging malaria parasites across scales and time	1
Introduction to women in microscopy: Volume 2	1
The mutual influence of microtubules and the cortical ER on their coordinated organisation	1
Wear mechanisms description in nanoscale by SEM/TEM of multilayer Zr/ZrN coatings in dependence on phases ratio	1
EBSD patterns simulating multilayer twins based on dynamical theory of electron diffraction	1
Expansion microscopy: A revolution in diagnostic pathology	1
TOC ‐ Issue Information	1
Model‐free machine learning‐based 3D single molecule localisation microscopy	1
A novel morphological descriptor for multiphase microstructure reconstruction	1
Compressive electron backscatter diffraction imaging	1