Publications related to In situ hybridization

In Situ and Time-Resolved Transmission Electron Microscopy of Nanoscale Processes

Observing the fast dynamics of nanoscale systems is crucial in order to understand and ultimately control their behavior. Characterizing these dynamic processes requires techniques with atomic spatial resolution and a temporal resolution that matches the t ...

EPFL2023

Fryns type mesomelic dysplasia of the upper limbs caused by inverted duplications of the HOXD gene cluster

Denis Duboule

The HoxD cluster is critical for vertebrate limb development. Enhancers located in both the telomeric and centromeric gene deserts flanking the cluster regulate the transcription of HoxD genes. In rare patients, duplications, balanced translocations or inv ...

NATURE PUBLISHING GROUP2020

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

On the adjustment, calibration and orientation of drone photogrammetry and laser-scanning

Emmanuel Pierre Quentin Clédat

Centimetre level precision mapping is essential for many applications such as land-use, infrastructure inspection, cultural heritage preservation, and construction site monitoring. However, the acquisition and its preparation (in particular the setting of ...

EPFL2020

Detection of mRNA by Whole Mount in situ Hybridization and DNA Extraction for Genotyping of Zebrafish Embryos

Andrew Charles Oates, Rachna Narayanan

In situ hybridization is used to visualize the spatial distribution of gene transcripts in tissues and in embryos, providing important information about disease and development. Current methods involve the use of complementary riboprobes incorporating non- ...

2019

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

Improvement of breast cancer diagnosis through microfluidics

Huu Tuan Nguyen

In breast cancer, 15-20% of cases are reported with overexpression of human epidermal growth factor receptor 2 (HER2) that causes rapid cancer progression and poor prognosis. Fortunately, HER2-targeted therapy using specific antibodies such as Trastuzumab ...

EPFL2018

Microfluidics-assisted fluorescence in situ hybridization for advantageous human epidermal growth factor receptor 2 assessment in breast cancer

Martinus Gijs, Raphaël Etienne Jean Trouillon, Huu Tuan Nguyen, Maryse Fiche, Seiya Matsuoka

Fluorescence in situ hybridization (FISH) is one of the recommended techniques for human epidermal growth factor receptor 2 (HER2) status assessment on cancer tissues. Here we develop microfluidics-assisted FISH (MA-FISH), in which hybridization of the FIS ...

Nature Publishing Group2017

Microfluidic-assisted chromogenic in situ hybridization (MA-CISH) for fast and accurate breast cancer diagnosis

Martinus Gijs, Raphaël Etienne Jean Trouillon, Huu Tuan Nguyen, Léa Suzanne Bernier

Chromogenic in situ hybridization (CISH) is a common technique that is used for human epidermal growth factor receptor 2 (HER2) assessment in breast cancer diagnosis. CISH is based on the enzymatic amplification of DNA markers, generating a colorimetric im ...

Elsevier2017

Continuous quantification of HER2 expression by microfluidic precision immunofluorescence estimates HER2 gene amplification in breast cancer

Martinus Gijs, Ata Tuna Ciftlik, Diego Gabriel Dupouy, Maryse Fiche, Déborah Heintze

Chromogenic immunohistochemistry (IHC) is omnipresent in cancer diagnosis, but has also been criticized for its technical limit in quantifying the level of protein expression on tissue sections, thus potentially masking clinically relevant data. Shifting f ...

Nature Research2016

Extra short incubation microfluidic assisted – fluorescence in situ hybridization (ESIMA-FISH)

Martinus Gijs, Raphaël Etienne Jean Trouillon, Huu Tuan Nguyen, Estelle Annick Cuttaz, Laurène Nathalie Dupont

Fluorescence in situ hybridization (FISH) is a powerful technique for evaluating the HER2 gene status in breast cancer specimen (1). However, most of FISH assays currently used in clinical laboratories are expensive and require long experimental time, up t ...

2016

Microfluidic staining technology and automated image processing for fast and accurate tissue-based diagnostics

Diego Gabriel Dupouy

The development of microfluidics has led to significant improvements in many areas of in vitro diagnostics. This thesis proposes the use of microfluidic device technology in the field of anatomic pathology, leading to faster and more accurate tissue-based ...

EPFL2016

FLUORESCENCE IN SITU HYBRIDIZATION (FISH) ENHANCEMENT USING MICROFLUIDIC FLOW FOR AN ACCURATE, FAST AND ECONOMICAL ASSESSMENT OF HER2 STATUS IN BREAST CANCER

Martinus Gijs, Raphaël Etienne Jean Trouillon, Huu Tuan Nguyen, Maryse Fiche, Seiya Matsuoka

The fluorescence in situ hybridization (FISH) is the gold standard in human epidermal growth factor receptor 2 (HER2) status assessment in breast cancer. The dissemination of the technique is impeded by the cost of reagents and long experimental time. For ...

RCS Publising2016

From Environmental Sequences to Morphology: Observation and Characterisation of a Paulinellid Testate Amoeba (Micropyxidiella edaphonis gen. nov. sp. nov. Euglyphida, Paulinellidae) from Soil using Fluorescent in situ Hybridization

Enrique Lara, Sonia Estelle Tarnawski

High microbial diversity is revealed by environmental DNA surveys. However, nothing is known about the morphology and function of these potentially new organisms. In the course of an environmental soil diversity study, we found for the first time environme ...

Elsevier2015

Substrates for Improved Live-Cell Fluorescence Labeling of SNAP-tag

Kai Johnsson, Luc Reymond, Grazvydas Lukinavicius

The SNAP-tag labeling technology provides a simple, robust, and versatile approach to the imaging of fusion proteins for a wide range of experimental applications. Owing to the specific and covalent nature of the labeling reaction, SNAP-tag is well suited ...

Bentham Science Publ Ltd2013

Hybridization of wave functions in one-dimensional localization

Dmitri Ivanov

A quantum particle can be localized in a disordered potential, the effect known as Anderson localization. In such a system, correlations of wave functions at very close energies may be described, due to Mott, in terms of a hybridization of localized states ...

2012

Diminished hippocalcin expression in Huntington's disease brain does not account for increased striatal neuron vulnerability as assessed in primary neurons

Ozgün Gökce, Nikita Rudinskiy, Nicole Déglon

Hippocalcin is a neuronal calcium sensor protein previously implicated in regulating neuronal viability and plasticity. Hippocalcin is the most highly expressed neuronal calcium sensor in the medium spiny striatal output neurons that degenerate selectively ...

Wiley-Blackwell2009

GDNF-secreting human neural progenitor cells increase tyrosine hydroxylase and VMAT2 expression in MPTP-treated cynomolgus monkeys

Patrick Aebischer

Human neural progenitor cells (hNPCs) have been proposed as a potential source of cells for ex vivo gene therapy. In this pilot study, three 5-year-old female cynomolgus monkeys received a single intracarotid infusion of MPTP, followed 1 week later by MRI- ...

2008

Calcium phosphate transfection generates mammalian recombinant cell lines with higher specific productivity than polyfection

Florian Maria Wurm, David Hacker, Madiha Derouazi, Sébastien Chenuet, Nicolas Jaccard

Transfection with polyethylenimine (PEI) was evaluated as a method for the generation of recombinant Chinese hamster ovary (CHO DG44) cell lines by direct comparison with calcium phosphate-DNA coprecipitation (CaPO4) using both green fluorescent protein (G ...

2008