Publications related to Histology

Phase diagram of the J-Jd Heisenberg model on the maple leaf lattice: Neural networks and density matrix renormalization group

We microscopically analyze the nearest-neighbor Heisenberg model on the maple leaf lattice through neural quantum state (NQS) and infinite density matrix renormalization group (iDMRG) methods. Embarking to parameter regimes beyond the exact dimer singlet g ...

Amer Physical Soc2024

Graph Representation Learning in Computational Pathology

Guillaume Jaume

Advances in scanning systems have enabled the digitization of pathology slides into Whole-Slide Images (WSIs), opening up opportunities to develop Computational Pathology (CompPath) methods for computer-aided cancer diagnosis and prognosis. CompPath has be ...

EPFL2022

The functional characterization of callosal connections

Muhamed Barakovic, Giorgio Innocenti

The brain operates through the synaptic interaction of distant neurons within flexible, often heterogeneous, distributed systems. Histological studies have detailed the connections between distant neurons, but their functional characterization deserves fur ...

PERGAMON-ELSEVIER SCIENCE LTD2022

Deep Learning Enables Individual Xenograft Cell Classification in Histological Images by Analysis of Contextual Features

Michaël Unser, Cathrin Brisken, Daniel Sage, Olivier Burri, Quentin Juppet, Fabio De Martino, Martin Weigert

Patient-Derived Xenografts (PDXs) are the preclinical models which best recapitulate inter- and intra-patient complexity of human breast malignancies, and are also emerging as useful tools to study the normal breast epithelium. However, data analysis gener ...

2021

Adaptation and Optimization of an Intraneural Electrode to Interface with the Cervical Vagus Nerve

Silvestro Micera, Ivo Strauss

The modulation of the cervical vagus nerve (VN) using neural electrodes has shown great potential to treat cardiovascular, inflammatory, intestinal, or respiratory dysfunctions. Intraneural electrodes have shown great potentials for other neuroprosthetic a ...

IEEE2021

Synchrotron-based phase-contrast micro-CT as a tool for understanding pulmonary vascular pathobiology and the 3-D microanatomy of alveolar capillary dysplasia

Goran Lovric

This study aimed to explore the value of synchrotron-based phase-contrast microcomputed tomography (micro-CT) in pulmonary vascular pathobiology. The microanatomy of the lung is complex with intricate branching patterns. Tissue sections are therefore diffi ...

AMER PHYSIOLOGICAL SOC2020

HISTOBREAST, a collection of brightfield microscopy images of Haematoxylin and Eosin stained breast tissue

Tiberiu Totu

Modern histopathology workflows rely on the digitization of histology slides. The quality of the resulting digital representations, in the form of histology slide image mosaics, depends on various specific acquisition conditions and on the image processing ...

2020

Do Lewy bodies contain alpha-synuclein fibrils? and Does it matter? A brief history and critical analysis of recent reports

Hilal Lashuel

Several lines of evidence from neuropathological studies, human genetics, in vitro aggregation studies and cellular and animal models support the hypothesis that aSyn plays a central role in the formation of Lewy pathologies. These are cytoplasmic proteina ...

2020

MarrowQuantAcross Aging and Aplasia: A Digital Pathology Workflow for Quantification of Bone Marrow Compartments in Histological Sections

Olaia Maria Naveiras Torres-Quiroga, Olivier Burri, Rita Sarkis, Nicolas Kunz, Vasco Ledebur de Antas de Campos, Josefine Catharina Pedersen Tratwal, Frédérica Schyrr, Chiheb Boussema, Shanti Rojas-Sutterlin, Daniel Naveed Tavakol

The bone marrow (BM) exists heterogeneously as hematopoietic/red or adipocytic/yellow marrow depending on skeletal location, age, and physiological condition. Mouse models and patients undergoing radio/chemotherapy or suffering acute BM failure endure rapi ...

2020

Controlling free electrons with optical whispering-gallery modes

Tobias Kippenberg

Free-electron beams are versatile probes of microscopic structure and composition(1,2), and have revolutionized atomic-scale imaging in several fields, from solid-state physics to structural biology(3). Over the past decade, the manipulation and interactio ...

NATURE PUBLISHING GROUP2020

Somatic Mitochondrial DNA Point Mutations Used as Biomarkers to Demonstrate Genomic Heterogeneity in Primary Prostate Cancer

Paul Refinetti, Per Olaf Ekstrom

Primary prostate tumor heterogeneity is poorly understood, leaving research efforts with challenges regarding the initiation and advancement of the disease. The growth of tumor cells is accompanied by mutations in nuclear and in mitochondrial genomes. Thus ...

HINDAWI LTD2020

Micrometer-resolution X-ray tomographic full-volume reconstruction of an intact post-mortem juvenile rat lung

Goran Lovric, Marco Stampanoni, Anders Larsson

In this article, we present an X-ray tomographic imaging method that is well suited for pulmonary disease studies in animal models to resolve the full pathway from gas intake to gas exchange. Current state-of-the-art synchrotron-based tomographic phase-con ...

SPRINGER2021

Quantitative approaches to unravel bone marrow adipocyte site-specificity and its implication in hematopoiesis

Josefine Catharina Pedersen Tratwal

Over the last decade, bone marrow (BM) adipose tissue (BMAT) has emerged as a distinct adipose depot with unique metabolic properties and effects both in homeostasis and in the progression of disease. We provide a first comprehensive review of existing an ...

EPFL2020

High-content, cell-by-cell assessment of HER2 overexpression and amplification: a tool for intratumoral heterogeneity detection in breast cancer

Martinus Gijs, Daniel Migliozzi, Huu Tuan Nguyen

Immunohistochemistry and fluorescence in situ hybridization are the two standard methods for human epidermal growth factor receptor 2 (HER2) assessment. However, they have severe limitations to assess quantitatively intratumoral heterogeneity (ITH) when mu ...

NATURE PUBLISHING GROUP2019

Efficient decellularization of equine tendon with preserved biomechanical properties and cytocompatibility for human tendon surgery indications

Dominique Pioletti, Nathalie Hirt-Burri, Lee Ann Laurent-Applegate, Jens Antons, Cédric Peneveyre, Pierre-Arnaud Aeberhard, Anthony Grognuz

Chronic and acute tendon injuries are frequent afflictions, for which treatment is often long and unsatisfactory. When facing extended injuries, matrices and scaffolds with sufficient biomechanical properties are required for surgical repair and could addi ...

2020

A 512 x 512 SPAD Image Sensor With Integrated Gating for Widefield FLIM

Edoardo Charbon, Claudio Bruschini, Ivan Michel Antolovic, Arin Can Ülkü

In this paper, we report on SwissSPAD2, an image sensor with 512 x 512 photon-counting pixels, each comprising a single-photon avalanche diode (SPAD), a 1-b memory, and a gating mechanism capable of turning the SPAD ON and OFF, with a skew of 250 and 344 p ...

IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC2019

Microfluidics-assisted multiplexed biomarker detection for in situ mapping of immune cells in tumor sections

Martinus Gijs, Daniel Migliozzi, Diego Gabriel Dupouy, Benjamin Pelz

Because of the close interaction between tumors and the immune system, immunotherapies are nowadays considered as the most promising treatment against cancer. In order to define the diagnosis and the subsequent therapy, crucial information about the immune ...

2019

Cellular Uptake and Intracellular Trafficking of Poly(N-(2-Hydroxypropyl) Methacrylamide)

Anders Meibom, Harm-Anton Klok, Graham Knott, Stéphane Laurent Escrig, Olivier Burri, Arne Seitz, Claudia Battistella, Romain Guiet

Cellular uptake and intracellular trafficking of polymer conjugates or polymer nanoparticles is typically monitored using fluorescence-based techniques such as confocal microscopy. While these methods have provided a wealth of insight into the internalizat ...

American Chemical Society2019

Diversity of Cortico-descending Projections: Histological and Diffusion MRI Characterization in the Monkey

Jean-Philippe Thiran, Graham Knott, Maxime Descoteaux, Giorgio Innocenti, Tim Bjørn Dyrby

The axonal composition of cortical projections originating in premotor, supplementary motor (SMA), primary motor (a4), somatosensory and parietal areas and descending towards the brain stem and spinal cord was characterized in the monkey with histological ...

OXFORD UNIV PRESS INC2019

Combining fluorescence-based image segmentation and automated microfluidics for ultrafast cell-by-cell assessment of biomarkers for HER2-type breast carcinoma

Martinus Gijs, Daniel Migliozzi, Huu Tuan Nguyen

Immunohistochemistry (IHC) is one of the main clinical techniques for biomarker assessment on tissue biopsies. It consists in chromogenic labeling with specific antibodies, followed by optical imaging, and it is used for diagnosis and therapeutic targeting ...

SPIE Society of Photo-optical Instrumentation Engineers2019