Search results for "ARAF"
showing 10 items of 109 documents
TargetPlex FFPE-Direct DNA Library Preparation Kit for SiRe NGS panel: An international performance evaluation study
2021
AimNext generation sequencing (NGS) represents a key diagnostic tool to identify clinically relevant gene alterations for treatment-decision making in cancer care. However, the complex manual workflow required for NGS has limited its implementation in routine clinical practice. In this worldwide study, we validated the clinical performance of the TargetPlex FFPE-Direct DNA Library Preparation Kit for NGS analysis. Impressively, this new assay obviates the need for separate, labour intensive and time-consuming pre-analytical steps of DNA extraction, purification and isolation from formalin-fixed paraffin embedded (FFPE) specimens in the NGS workflow.MethodsThe TargetPlex FFPE-Direct DNA Libr…
Tissue expansion of lung bronchi due to tissue processing for histology – A comparative analysis of paraffin versus frozen sections in a pig model
2019
Tissue shrinking due to fixation and processing is well known. However, the degree of shrinking varies significantly with the tissue type as well as the processing method and is not well studied in various tissues. In daily pathological routine workflow, histological specimens from frozen and paraffin sections are performed from the same tissue. In the present study we compared the thickness of bronchus walls obtained from paraffin and frozen sections.Pig lungs were frozen in ventilated condition in liquid nitrogen and 36 bronchi were isolated after dissection. Frozen sections of 5 μm thickness were performed and the remaining tissue was fixed and embedded in paraffin after fixation in 4% f…
Dissection of DLBCL microenvironment provides a gene expression-based predictor of survival applicable to formalin-fixed paraffin-embedded tissue
2018
Abstract Background Gene expression profiling (GEP) studies recognized a prognostic role for tumor microenvironment (TME) in diffuse large B-cell lymphoma (DLBCL), but the routinely adoption of prognostic stromal signatures remains limited. Patients and methods Here, we applied the computational method CIBERSORT to generate a 1028-gene matrix incorporating signatures of 17 immune and stromal cytotypes. Then, we carried out a deconvolution on publicly available GEP data of 482 untreated DLBCLs to reveal associations between clinical outcomes and proportions of putative tumor-infiltrating cell types. Forty-five genes related to peculiar prognostic cytotypes were selected and their expression …
Detection of human papillomavirus DNA in formalin-fixed, paraffin-embedded squamous papillomas of the oral cavity
2018
Background Squamous papillomas are exophytic proliferations of surface oral epithelium. Human papillomavirus (HPV) infection is widely accepted as the etiology of squamous papillomas however the virus cannot be detected in a significant percentage of lesions. Material and methods Using polymerase chain reaction (PCR), we tested 35 formalin-fixed paraffin-embedded (FFPE) squamous papillomas for the presence of HPV DNA. Results Six papillomas (17%) tested positive for HPV DNA; four contained HPV-6 and two contained HPV-11. Given that β-globin DNA was only identified in half of the samples, DNA degradation appears to have significantly impacted the results. Conclusions The results likely repre…
Ultrastructural findings from paraffin embedded tissue in intraoral lesions caused by Leishmania infantum
2017
Kupffer Cell and Monocyte-Derived Macrophage Identification by Immunofluorescence on Formalin-Fixed, Paraffin-Embedded (FFPE) Mouse Liver Sections
2020
Kupffer cells are the liver-resident macrophages and represent the first line of defense between the pathogens circulating from the intestines through the portal vein and systemic circulation. Recent works have highlighted the complex heterogeneity of macrophage functions and origins, thus raising awareness on the need for a better characterization of macrophage populations. The immunohistochemistry method here described, allows for a rapid distinction between Kupffer cells and monocyte-derived macrophages present on formalin-fixed, paraffin-embedded mouse liver samples. This protocol has been optimized for its reproducibility, reliability, and simplicity.
Targeted mRNA sequencing of small formalin-fixed and paraffin-embedded breast cancer samples for the quantification of immune and cancer-related genes
2017
Smiltsērkšķu marafivīrusa kodēto proteīnu klonēšana, ekspresija un raksturošana
2022
Smiltsērķšu marafivīruss (SBuMV) ir iepriekš neraksturots, smiltsērkšķus inficējošs vīruss. Tam ir divas atklātās translācijas fāzes (ORF), kur ORF1 kodē poliproteīnu, kas satur četrus proteīnu domēnus, bet ORF2 kodē apvalka proteīnu (CP). Šajā darbā tika izveidotas ekspresijas plazmīdas SBuMV kodētajiem proteīniem, taču E. coli sistēmā izdevās ekspresēt un attīrīt tikai abas CP formas un proteāzes (PRO) domēnu. Tika pārbaudīta PRO aktivitāte, PRO šķelšanas saits un verificēta PRO deubikvitināzes (DUB) aktivitāte. SBuMV mažorais CP E. coli spēj pašsavākties vīrusam līdzīgajās daļinās (VLP), bet minorais CP veido agregātus. Koekspresijas rezultātā, ja abas CP formas ekspresē no vienas plazmī…
Estado bucodental de la población de pacientes con síndrome de Rett de la Comunidad Valenciana y Región de Murcia
2013
INTRODUCCIÓN El síndrome de Rett (SR) es un trastorno del neurodesarrollo ligado al cromosoma X que ocurre casi exclusivamente en mujeres, caracterizado por la regresión en el desarrollo psicomotor con manifestaciones autistas, desaceleración del crecimiento cefálico, convulsiones y movimientos repetitivos estereotipados de las manos. Se engloba dentro del grupo de las enfermedades raras estimándose su prevalencia en 4,15 por cada 100.000 habitantes. En la mayoría de los casos su causa deriva de una mutación en el gen MECP2, localizado en el cromosoma X, casi siempre letal en varones. El diagnóstico se basa en el cumplimiento de unos criterios de diagnóstico clínico, ya que las mutaciones e…
Parafoveal previews and lexical frequency in natural reading: Evidence from eye movements and fixation-related potentials.
2019
Participants' eye movements and electroencephalogram (EEG) signal were recorded as they read sentences displayed according to the gaze-contingent boundary paradigm. Two target words in each sentence were manipulated for lexical frequency (high vs. low frequency) and parafoveal preview of each target word (identical vs. string of random letters vs. string of Xs). Eye movement data revealed visual parafoveal-on-foveal (PoF) effects, as well as foveal visual and orthographic preview effects and word frequency effects. Fixation-related potentials (FRPs) showed visual and orthographic PoF effects as well as foveal visual and orthographic preview effects. Our results replicated the early preview …