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 2021-08-01 to 2025-08-01.)

Article	Citations
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Study on line‐scan profile for a trapezoid line under varying sample temperatures through Monte–Carlo simulation	19
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Innovating in a bioimaging core through instrument development	18
A practical guide to bioimaging research data management in core facilities	18
Self‐pressurised rapid freezing at arbitrary cryoprotectant concentrations	18
Pairwise interaction Markov model for 3D epidermal nerve fibre endings	17
Seeing clearly – Plant anatomy through Katherine Esau's microscopy lens	16
A method for crystallographic mapping of an alpha‐beta titanium alloy with nanometre resolution using scanning precession electron diffraction and open‐source software libraries	16
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TOC ‐ Issue Information	15
High‐speed 4‐dimensional scanning transmission electron microscopy using compressive sensing techniques	15
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ApoNecV: A macro for cell death type differentiation	14
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Seven‐layer analysis model of an optical waveguide excitation fluorescence microscopy	13
Quantification of cell shape, intracellular flows and transport based on DIC object detection and tracking	13
In‐depth polarisation resolved SHG microscopy in biological tissues using iterative wavefront optimisation	12
Multi‐foci parallelised RESOLFT nanoscopy in an extended field‐of‐view	12
Towards affordable biomedical imaging: Recent advances in low‐cost, high‐resolution optoacoustic microscopy	12
High‐accuracy, direct aberration determination using self‐attention‐armed deep convolutional neural networks	12
Integrated opto‐mechanical cantilever sensor with a rib waveguide	12

A method for extraction of exosomes from breast tumour cells and characterisation by transmission electron microscopy	11
High‐pressure freezing of mechanically stretched cells	11
Stability of electron ptychography at low electron dose	11
Simple automation of SEM‐EDS spectral maps analysis with Python and the edxia framework	11
Poly‐L‐lysine/hyaluronan nanocarriers as a novel nanosystem for gene delivery	11
Virtual dissection of Aedes aegypti mosquito using phase‐contrast synchrotron microtomography	11
Automated Euler number of the alveolar capillary network based on deep learning segmentation with verification by stereological methods	10
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Challenges and advances in optical 3D mesoscale imaging	9
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Repair effect of Centella asiatica (L.) extract on damaged HaCaT cells studied by atomic force microscopy	9
Use of Melinex film for flat embedding tissue sections in LR White	9
Traction force generation in Plasmodium sporozoites is modulated by a surface adhesin	9
Subsurface phase imaging of tapping‐mode atomic force microscopy at phase resonance	9
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Surpassing light inhomogeneities in structured‐illumination microscopy with FlexSIM	9
Investigation of the interface of fungal mycelium composite building materials by means of low‐vacuum scanning electron microscopy	8
Subcellular localisation and identification of single atoms using quantitative scanning transmission electron microscopy	8
Using the traditional microscope for mineral grain orientation determination: A prototype image analysis pipeline for optic‐axis mapping (POAM)	8
Development of a deep learning method for phase retrieval image enhancement in phase contrast microcomputed tomography	8
Adsorption of PCE in alkali‐activated materials analysed by fluorescence microscopy	8
Single‐shot differential phase contrast microscopy using ring‐shaped polarisation multiplexing illumination	8
Multicamera simultaneous total internal reflection and interference reflection microscopy	8
Characterisation of bond between cement paste and steel fibres with different surface roughness using SEM	8
CellPhePy: A python implementation of the CellPhe toolkit for automated cell phenotyping from microscopy time‐lapse videos	8
Microscopy at a glance: New poster article series exploring the intersection of art, science and imaging	8
Fluorescence microscopic investigation of PCE superplasticiser adsorption in calcined clay blended cement	7
Morphological and structural analysis of iron‐rich porcelains excavated from the Jian kiln site of Song dynasty	7
In memoriam – Hans Jørgen Gottlieb Gundersen	7
Microtexture analysis of copper‐doped iron oxide thin films prepared by air pneumatic spray	7
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ToTEM: A software for fast TEM image simulation	7
Material characteristics of historic scagliola interiors in Vienna: A view through the microscope	7
TOC ‐ Issue Information	7
Flexible implementation of modulated localisation microscopy based on DMD	7
Automatic detection of Kikuchi bands based on Radon transform and PPHT	7
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TOC ‐ Issue Information	7
Correction to “Image quality evaluation for FIB‐SEM images”	6
Quantitative analysis of human umbilical vein endothelial cell morphology and tubulogenesis	6
A perspective of fluorescence microscopy for cellular structural biology with EGFR as witness	6
Response to Adler and Parmryd	6
Corrigendum	6
Unveiling the limits of precision in iterative MINFLUX	6
Open‐source hardware‐ and software‐based cryomicroscopy system for investigation of phase transitions in cryobiological research	6
Correction to ‘Non‐fitting FLIM‐FRET facilitates analysis of protein interactions in live Zebrafish embryos’	6
Simple Python‐based methods for analysis and drift‐correction of STM images	6
A Python tool to determine the thickness of the hydrate layer around clinker grains using SEM‐BSE images	6
Microscopic investigation of the optical and morphological properties of iPP/TiO₂ nanocomposite fibres using computed tomography technique	6
Detecting charge transfer at defects in 2D materials with electron ptychography	5

	5
TUNA‐EBSD‐CL correlative multi‐microscopy study, on the example of Cu(In,Ga)S₂ solar cell absorber	5
An integrated optical waveguide micro‐cantilever system for chip‐based AFM	5
Correlation steered scanning with spiral scanning path for AFM to correct image distortion with real‐time compensation	5
An automated slide scanning system for membrane filter imaging in diagnosis of urogenital schistosomiasis	5
Cryo‐SEM and large volume FIB‐SEM of Arabidopsis cotyledons: Degradation of lipid bodies, biogenesis of glyoxysomes and reorganisation of organelles during germination	5
The effect of the combined addition of copper, lithium and sulphur on the formation of Portland cement clinker	5
TOC ‐ Issue Information	5
Characterisation and correction of polarisation effects in fluorescently labelled fibres	5
Non‐fitting FLIM‐FRET facilitates analysis of protein interactions in live zebrafish embryos	5
Kikuchi pattern simulations of backscattered and transmitted electrons	5
TOC ‐ Issue Information	5
A case study of distress mechanism(s) in a concrete structure foundation in the saturated zone and above the saturated zone	5
Primed conversion: The emerging player of precise and nontoxic photoconversion	5
Comparison of holotomographic microscopy and coherence‐controlled holographic microscopy	5
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TOC ‐ Issue Information	4
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Quantifying phase magnitudes of open‐source focused‐probe 4D‐STEM ptychography reconstructions	4
Staying on track – Keeping things running in a high‐end scientific imaging core facility	4
The structure of the eggshell and eggshell membranes of Crocodylus niloticus	4
Comparative study on the Ru ware, Ru‐type ware of Qingliangsi kiln and celadon of Zhanggongxiang kiln	4
Implications of gnomonic distortion on electron backscatter diffraction and transmission Kikuchi diffraction	4
The Journal of Microscopy would like to thank all those referees who reviewed papers for the Journal during 2021. Your assistance and contribution to the Journal is greatly apprec	4
Quantification of surface grinding during the sample preparation of cementitious materials by optical profilometry	4
Diagnostic electron microscopy in human infectious diseases – Methods and applications	4
Handheld cross‐polarised microscope for imaging individual pigmented cells in human skin in vivo	4
Made to measure: An introduction to quantifying microscopy data in the life sciences	4
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Comparison of the SMLM technique and the MSSR algorithm in confocal microscopy for super‐resolved imaging of cellulose fibres	4
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Improving light microscopy training routines with evidence‐based education	3
Two‐stage particle separation channel based on standing surface acoustic wave	3
Optimisation of freeze substitution protocols for the examination of malaria parasite structure by volumetric electron microscopy	3
Data analysis in imaging (DAIM) – A new RMS science section	3
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Automated particle recognition for engine soot nanoparticles	3
Comparison of the effects of AgNPs on the morphological and mechanical characteristics of cancerous cells	3
Influence of alumina ratio on reactions at the surface of alite crystals during cooling	3
Microscopical palynology: Birch woodland expansion and species hybridisation coincide with periods of climate warming during the Holocene epoch in Iceland	3
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Setting up an institutional OMERO environment for bioimage data: Perspectives from both facility staff and users	3
PerfectlyAverage: A classical open‐source software method to determine the optimal averaging parameters in laser scanning fluorescence microscopy	3
Estimating microstructural feature distributions from image data using a Bayesian framework	3
The incorporation of Cu into the clinker phases	3
Fourier ptychography microscopy for digital pathology	3
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Quantifying superimposed protein flow dynamics in live cells using spatial filtering and spatiotemporal image correlation spectroscopy	3
Trainable segmentation for transmission electron microscope images of inorganic nanoparticles	3
Ptychographic analysis of human bone marrow‐derived mesenchymal stem cell morphology: The impact of cell senescence	3
Introduction to Festschrift for Professor Tony Wilson	3
Image quality evaluation for FIB‐SEM images	3
Diversity under the microscope: Lessons for building belonging in interdisciplinary spaces from the Women in Imaging + Industry bootcamp	3
Preface to EMABM (Euroseminar on Microscopy Applied to Building Materials) 2022	3
A new approach to etching low‐carbon microalloyed steels to reveal prior austenite grain boundaries and the dual‐phase microstructure	2
TOC ‐ Issue Information	2
Visualisation and differentiation of binder components in hard carbon composite anodes by osmium tetroxide and uranyl acetate staining	2
Sulphate resistance of low‐clinker engineered cementitious composites examined by MicroXRF imaging	2
Calibration by differentiation – Self‐supervised calibration for X‐ray microscopy using a differentiable cone‐beam reconstruction operator	2
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A method for the fast and photon‐efficient analysis of time‐domain fluorescence lifetime image data over large dynamic ranges	2
Differential phase contrast (DPC) mapping electric fields: Optimising experimental conditions	2
Suborganellar resolution imaging for the localisation of human glycosylation enzymes in tobacco Golgi bodies	2
Real‐time monitoring of carbonation of hardened cement pastes using Raman microscopy	2
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Improving Cavalieri volume estimation based on non‐equidistant planar sections: The trapezoidal estimator	2
Investigation of trapped charges profile for an irradiated insulated material	2
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More than just ‘added value’: The perils of not establishing shared core facilities in resource‐constrained communities	2
Unravelling molecular dynamics in living cells: Fluorescent protein biosensors for cell biology	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
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Preparation and topographical studies of various biological specimens using alternate method to critical point drying: Scanning electron microscopy	2
Resolution enhancement of total internal reflection microscopy via polarised scattering	2
Carbon‐film‐based Zernike phase plates with smooth thickness gradient for phase‐contrast transmission electron microscopy with reduced fringing artefacts	2
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Ultrastructural expansion microscopy reveals unexpected levels of glycosome heterogeneity in African trypanosomes	2

Ultrastructural characterisation of young and aged dental enamel by atomic force microscopy	2
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ModularImageAnalysis (MIA): Assembly of modularised image and object analysis workflows in ImageJ	2
Several factors influencing energy‐loss near‐edge structure calculations using Wien2k	2
The fertility tracks of pollen tube in the ovary of Solanum nigrum by three‐dimensional reconstruction	2
Live cell imaging of plant infection provides new insight into the biology of pathogenesis by the rice blast fungus Magnaporthe oryzae	2
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In situ quantification of ribosome number by electron tomography	2
Mechanism of action and side effects of colchicine based on biomechanical properties of cells	2
Application of various microscopy techniques to study early‐age and longer‐term behaviour of super sulphated cement microstructure	2
Slags from roasting of antimony ore in the Brioude‐Massiac (France) area used as aggregates: An early example of circular economy	2
3D microscopy in industrial measurements	2
Important aspects of investigating optical excitations in semiconductors using a scanning transmission electron microscope	2
Accelerating iterative ptychography with an integrated neural network	2
Investigations on lightweight concrete by in situ compression tests using high‐resolution computed tomography (μ‐CT)	2
Clinker based on calcium looped meals from the Cleanker Project	2
Overcoming the challenges of preserving lipid‐richCannabis sativaL. glandular trichomes for transmission electron microscopy	2
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Background Remover – An effective tool for processing noisy microscopy images	2
Multicriteria assessment of optical coherence tomography using non‐raster trajectories	1
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The effect of specimen preparation on the nanostructure of SLES aqueous solutions observed by cryo‐TEM	1
The effects of measurement parameters on the cancerous cell nucleus characterisation by atomic force microscopy in vitro	1
Paste, aggregate, or air? That is the question	1
A review of high‐resolution microscopic ghost imaging with a low‐dose pseudothermal light	1
Individual fibre separation in 3D fibrous materials imaged by X‐ray tomography	1
Hard X‐ray spectromicroscopy of Ni‐rich cathodes under in situ liquid heating conditions	1
Mass fractal dimension from 2D microscopy images via an aggregation model with variable compactness	1
Methods to expose subsurface objects of interest identified from 3D imaging: The intermediate sample preparation stage in the correlative microscopy workflow	1
Study of curtaining effect reduction methods in Inconel 718 using a plasma focused ion beam	1
Spatiotemporal visualisation of electrocatalyst/electrolyte interfaces with electrochemical atomic force microscopy: Applications and notes	1
Morphological analysis and grain size distribution of SnO₂ nanoparticles via digital image processing across diverse calcination temperatures	1
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3D shape reconstruction of normal and cancerous red blood cells using digital holographic tomography: Combination of angular spectrum method and multiplicative technique	1
Atomic resolution imaging using a novel, compact and stiff scanning tunnelling microscope in cryogen‐free superconducting magnet	1
Method for quantifying the reaction degree of slag in alkali‐activated cements using deep learning‐based electron microscopy image analysis	1
Modelling 3D supramolecular structure from sparse single‐molecule localisation microscopy data	1
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Neural network fast‐classifies biological images through features selecting to power automated microscopy	1
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Visualisation of calcium oxalate crystal macropatterns in plant leaves using an improved fast preparation method	1
Imaging and observation of microcirculation in bowel mucosa using sidestream dark field imaging	1
Towards super‐resolved terahertz microscopy for cellular imaging	1
Effect of the delayed wash (deglycerolisation) on the red blood cell morphology: Comparison of AFM and optical profilometry	1
De‐risking transformative microscopy technologies for broad adoption	1
Reconstruction of calcium silicate hydrates using multiple 2D and 3D imaging techniques: Light microscopy, μ‐CT, SEM, FIB‐nT combined with EDX	1
Applications of clinker microscopy for approaching a special case study in cement production	1
Modulation of host cell membrane biophysics dynamics by Neospora caninum: A study using LAURDAN fluorescence with hyperspectral imaging and phasor analysis	1
A quantitative study of the influence of cement matrix impregnation on yarn pullout strength using combined confocal microscopy and double resin impregnation	1
Cements and concretes materials characterisation using machine‐learning‐based reconstruction and 3D quantitative mineralogy via X‐ray microscopy	1
Pictures at an exhibition: How to share your imaging data	1
Comparative morphological characterisation of SARS‐CoV‐2 and influenza B virus using atomic force microscopy	1
An overview of reliable and representative DVC measurements for musculoskeletal tissues	1
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Analytical solution of the classical Rayleigh length definition, including truncation at arbitrary values	1
Evaluation of correlated studies using liquid cell and cryo‐transmission electron microscopy: Hydration of calcium sulphate and the phase transformation pathways of bassanite to gypsum	1
A Lens on the Future: Next Generation Microscopy by Next Generation Microscopists	1
Commentary on critique and rebuttal of ‘On the pixel selection criterion for the calculation of the Pearson's correlation coefficient in fluorescence microscopy’	1
Simultaneous axial and radial swelling studies from 2D stereozoom images of tablet compacts composed of superdisintegrants	1
Thickness profiling of electron transparent aluminium alloy foil using convergent beam electron diffraction	1
Quantification of cracks in concrete thin sections considering current methods of image analysis	1
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Geometric characteristics of stromal collagen fibres in breast cancer using differential interference contrast microscopy	1
Microstructural examination of carbonated 3D‐printed concrete	1
Physical properties and photocatalytic activity of Cr‐doped TiO₂ nanoparticles	1
QUAREP‐LiMi: A community‐driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy	1
Expansion microscopy: A revolution in diagnostic pathology	1
Influence of large angle polepiece on spherical aberration coefficient	1
Current opinion on the prospect of mapping electronic orbitals in the transmission electron microscope: State of the art, challenges and perspectives	1
Bridging imaging users to imaging analysis – A community survey	1
Practical strategies for robust and inexpensive imaging of aqueous‐cleared tissues	1
Dehydration as alternative sample preparation for soft X‐ray tomography	1
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Scalable substrate development for aqueous sample preparation for atom probe tomography	1
The effects of despeckling filters on pore size measurements in collagen scaffold micro‐CT data	1
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Investigation of Rhodnius prolixus head anatomy using microtomography	1
The rise of data‐driven microscopy powered by machine learning	1
Method for acquiring accurate coordinates of the source point in electron backscatter diffraction	1
Exit wave reconstruction of a focal series of images with structural changes in high‐resolution transmission electron microscopy	1
Effect of trypsin concentration on living SMCC‐7721 cells studied by atomic force microscopy	1
An alignment algorithm using coherent twin boundaries as internal reference in 3D‐EBSD	1
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Introduction to women in microscopy: Volume 1	1