A survey of methods for 3D histology reconstruction

J Pichat, JE Iglesias, T Yousry, S Ourselin… - Medical image analysis, 2018 - Elsevier
Histology permits the observation of otherwise invisible structures of the internal topography
of a specimen. Although it enables the investigation of tissues at a cellular level, it is invasive …

MIST: accurate and scalable microscopy image stitching tool with stage modeling and error minimization

J Chalfoun, M Majurski, T Blattner, K Bhadriraju… - Scientific reports, 2017 - nature.com
Automated microscopy can image specimens larger than the microscope's field of view
(FOV) by stitching overlapping image tiles. It also enables time-lapse studies of entire cell …

Survey statistics of automated segmentations applied to optical imaging of mammalian cells

P Bajcsy, A Cardone, J Chalfoun, M Halter, D Juba… - BMC …, 2015 - Springer
Background The goal of this survey paper is to overview cellular measurements using
optical microscopy imaging followed by automated image segmentation. The cellular …

XuvTools: free, fast and reliable stitching of large 3D datasets

M Emmenlauer, O Ronneberger, A Ponti… - Journal of …, 2009 - Wiley Online Library
Current biomedical research increasingly requires imaging large and thick 3D structures at
high resolution. Prominent examples are the tracking of fine filaments over long distances in …

Fact or fiction, it is time for a verdict on vasculogenic mimicry?

A Valdivia, G Mingo, V Aldana, MP Pinto… - Frontiers in …, 2019 - frontiersin.org
The term vasculogenic mimicry (VM) refers to the capacity of certain cancer cells to form fluid-
conducting structures within a tumor in an endothelial cell (EC)-free manner. Ever since its …

A survey of visualization and analysis in high‐resolution connectomics

J Beyer, J Troidl, S Boorboor… - Computer Graphics …, 2022 - Wiley Online Library
The field of connectomics aims to reconstruct the wiring diagram of Neurons and synapses
to enable new insights into the workings of the brain. Reconstructing and analyzing the …

Fluorescent nanodiamonds for specifically targeted bioimaging: Application to the interaction of transferrin with transferrin receptor

MF Weng, SY Chiang, NS Wang, H Niu - Diamond and related materials, 2009 - Elsevier
Fluorescent nanodiamonds (FND) as specifically targeted probes to image the interactions
of transferrins (Tf) with their receptors that were over-expressed on HeLa cells were studied …

Collateral damage intended—cancer-associated fibroblasts and vasculature are potential targets in cancer therapy

A Cavaco, M Rezaei, S Niland, JA Eble - International Journal of …, 2017 - mdpi.com
After oncogenic transformation, tumor cells rewire their metabolism to obtain sufficient
energy and biochemical building blocks for cell proliferation, even under hypoxic conditions …

Biomarker discovery from uveal melanoma secretomes: identification of gp100 and cathepsin D in patient serum

M Pardo, Á García, R Antrobus, MJ Blanco… - Journal of proteome …, 2007 - ACS Publications
There is a necessity to better characterize uveal melanoma (UM) tumors according to their
metastasis potential at an early stage. In this study we report the identification of potential …

NeuroConstruct: 3D reconstruction and visualization of neurites in optical microscopy brain images

P Ghahremani, S Boorboor… - … on Visualization and …, 2021 - ieeexplore.ieee.org
We introduce NeuroConstruct, a novel end-to-end application for the segmentation,
registration, and visualization of brain volumes imaged using wide-field microscopy …