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 …

A probabilistic atlas of the human thalamic nuclei combining ex vivo MRI and histology

JE Iglesias, R Insausti, G Lerma-Usabiaga… - Neuroimage, 2018 - Elsevier
The human thalamus is a brain structure that comprises numerous, highly specific nuclei.
Since these nuclei are known to have different functions and to be connected to different …

[HTML][HTML] An overview of image registration for aligning mass spectrometry imaging with clinically relevant imaging modalities

B Balluff, RMA Heeren, AM Race - … of Mass Spectrometry and Advances in …, 2022 - Elsevier
Mass spectrometry imaging (MSI) is used in many aspects of clinical research, including
pharmacokinetics, toxicology, personalised medicine, and surgical decision-making …

The creation of a brain atlas for image guided neurosurgery using serial histological data

MM Chakravarty, G Bertrand, CP Hodge, AF Sadikot… - Neuroimage, 2006 - Elsevier
Digital and print brain atlases have been used with success to help in the planning of
neurosurgical interventions. In this paper, a technique presented for the creation of a brain …

A three-dimensional, histological and deformable atlas of the human basal ganglia. I. Atlas construction based on immunohistochemical and MRI data

J Yelnik, E Bardinet, D Dormont, G Malandain… - Neuroimage, 2007 - Elsevier
This paper describes the construction of an atlas of the human basal ganglia. The
successive steps of the construction were as follows. First a postmortem specimen was …

Histology-derived volumetric annotation of the human hippocampal subfields in postmortem MRI

DH Adler, J Pluta, S Kadivar, C Craige, JC Gee… - Neuroimage, 2014 - Elsevier
Recently, there has been a growing effort to analyze the morphometry of hippocampal
subfields using both in vivo and postmortem magnetic resonance imaging (MRI). However …

Towards a comprehensive atlas of cortical connections in a primate brain: Mapping tracer injection studies of the common marmoset into a reference digital template

P Majka, TA Chaplin, HH Yu, A Tolpygo… - Journal of …, 2016 - Wiley Online Library
The marmoset is an emerging animal model for large‐scale attempts to understand primate
brain connectivity, but achieving this aim requires the development and validation of …

Three-dimensional reconstruction of stained histological slices and 3D non-linear registration with in-vivo MRI for whole baboon brain

J Dauguet, T Delzescaux, F Condé, JF Mangin… - Journal of neuroscience …, 2007 - Elsevier
The correlation between post-mortem data and in-vivo brain images is of high interest for
studying neurodegenerative diseases. This paper describes a protocol that matches a series …

3D reconstruction of skin and spatial mapping of immune cell density, vascular distance and effects of sun exposure and aging

S Ghose, Y Ju, E McDonough, J Ho… - Communications …, 2023 - nature.com
Mapping the human body at single cell resolution in three dimensions (3D) is important for
understanding cellular interactions in context of tissue and organ organization. 2D spatial …

Automatic 3D nonlinear registration of mass spectrometry imaging and magnetic resonance imaging data

WM Abdelmoula, MS Regan, BGC Lopez… - Analytical …, 2019 - ACS Publications
Multimodal integration between mass spectrometry imaging (MSI) and radiology-established
modalities such as magnetic resonance imaging (MRI) would allow the investigations of key …