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Microdissection

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https://www.readbyqxmd.com/read/28436954/optimized-expression-based-microdissection-of-formalin-fixed-lung-cancer-tissue
#1
Markus Grafen, Thurid R Hofmann, Andreas H Scheel, Julia Beck, Alexander Emmert, Stefan Küffer, Bernhard C Danner, Ekkehard Schütz, Reinhardt Büttner, Andreas Ostendorf, Philipp Ströbel, Hanibal Bohnenberger
Analysis of specific DNA alterations in precision medicine of tumors is crucially important for molecular targeted treatments. Lung cancer is a prototypic example and one of the leading causes of cancer-related deaths worldwide. One major technical problem of detecting DNA alterations in tissue samples is cellular heterogeneity, that is, mixture of tumor and normal cells. Microdissection is an important tool to enrich tumor cells from heterogeneous tissue samples. However, conventional laser capture microdissection has several disadvantages like user-dependent selection of regions of interest (ROI), high costs for dissection systems and long processing times...
April 24, 2017: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://www.readbyqxmd.com/read/28430125/erratum-tingting-lian-et-al-identification-of-site-specific-stroke-biomarker-candidates-by-laser-capture-microdissection-and-labeled-reference-peptide-int-j-mol-sci-2015-16-13427-13441
#2
https://www.readbyqxmd.com/read/28427173/circumvent-the-uncertainty-in-the-applications-of-transcriptional-signatures-to-tumor-tissues-sampled-from-different-tumor-sites
#3
Jun Cheng, You Guo, Qiao Gao, Hongdong Li, Haidan Yan, Mengyao Li, Hao Cai, Weicheng Zheng, Xiangyu Li, Weizhong Jiang, Zheng Guo
The expression measurements of thousands of genes are correlated with the proportions of tumor epithelial cell (PTEC) in clinical samples. Thus, for a tumor diagnostic or prognostic signature based on a summarization of expression levels of the signature genes, the risk score for a patient may dependent on the tumor tissues sampled from different tumor sites with diverse PTEC for the same patient. Here, we proposed that the within-samples relative expression orderings (REOs) based gene pairs signatures should be insensitive to PTEC variations...
February 27, 2017: Oncotarget
https://www.readbyqxmd.com/read/28425611/a-simple-assessment-tool-for-evaluation-of-cadaveric-temporal-bone-dissection
#4
Sarah E Mowry, Erika Woodson, Samuel Gubbels, Matt Carfrae, Marlan R Hansen
EDUCATIONAL OBJECTIVE: Objective metrics in skilled-based educational courses allow trainees and instructors to assess performance and monitor progress. The objective is to validate a concise, easy-to-use instrument for assessment of resident skill during a timed cadaveric temporal-bone (CTB) dissection. STUDY DESIGN: Retrospective analysis. METHODS: An instrument was developed to assess resident performance on a yearly timed microdissection of CTB...
April 20, 2017: Laryngoscope
https://www.readbyqxmd.com/read/28421997/laser-microdissection-coupled-with-rna-seq-reveal-cell-type-and-disease-specific-markers-in-the-salivary-gland-of-sj%C3%A3-gren-s-syndrome-patients
#5
Mayank Tandon, Paola Perez, Peter D Burbelo, Catherine Calkins, Ilias Alevizos
OBJECTIVES: Little is known about the molecular details regarding the contribution of different cell types of the salivary gland to the altered gene expression profile seen in Sjögren's syndrome (SS). METHODS: Using laser microdissection, tissue samples enriched in acini, ducts and inflammatory foci in subjects with and without SS were isolated for RNA-seq analysis. Gene expression profiles were analysed and selected enriched genes were further examined using real time PCR and by immunofluorescence...
April 18, 2017: Clinical and Experimental Rheumatology
https://www.readbyqxmd.com/read/28415711/mutational-analysis-of-multiple-lung-cancers-discrimination-between-primary-and-metastatic-lung-cancers-by-genomic-profile
#6
Taichiro Goto, Yosuke Hirotsu, Hitoshi Mochizuki, Takahiro Nakagomi, Daichi Shikata, Yujiro Yokoyama, Toshio Oyama, Kenji Amemiya, Kenichiro Okimoto, Masao Omata
In cases of multiple lung cancers, individual tumors may represent either a primary lung cancer or both primary and metastatic lung cancers. Treatment selection varies depending on such features, and this discrimination is critically important in predicting prognosis. The present study was undertaken to determine the efficacy and validity of mutation analysis as a means of determining whether multiple lung cancers are primary or metastatic in nature. The study involved 12 patients who underwent surgery in our department for multiple lung cancers between July 2014 and March 2016...
March 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/28409329/purification-of-leukemic-blast-cells-from-blood-smears-using-laser-microdissection
#7
Hidemasa Matsuo, Shuichi Shiga, Tsuyoshi Imai, Yasuhiko Kamikubo, Tsutomu Toki, Kiminori Terui, Etsuro Ito, Souichi Adachi
In treatment of acute myeloid leukemia (AML), prognostic factors, including gene mutation and abnormal gene expression, enable risk stratification of patients. However, in the case of a small proportion of leukemic blast cells, such as AML associated with Down syndrome (AML-DS), it is not possible to examine prognostic factors precisely due to the large proportion of normal cells. Here, we present a novel method for examining prognostic factors by making a smear on a membrane slide glass from a small amount of diagnostic specimen and collecting highly pure leukemic blast cells by laser microdissection (LMD)...
April 13, 2017: International Journal of Hematology
https://www.readbyqxmd.com/read/28408916/1-aminocyclopropane-1-carboxylate-oxidase-induction-in-tomato-flower-pedicel-phloem-and-abscission-related-processes-are-differentially-sensitive-to-ethylene
#8
Marko Chersicola, Aleš Kladnik, Magda Tušek Žnidarič, Tanja Mrak, Kristina Gruden, Marina Dermastia
Ethylene has impact on several physiological plant processes, including abscission, during which plants shed both their vegetative and reproductive organs. Cell separation and programmed cell death are involved in abscission, and these have also been correlated with ethylene action. However, the detailed spatiotemporal pattern of the molecular events during abscission remains unknown. We examined the expression of two tomato ACO genes, LeACO1, and LeACO4 that encode the last enzyme in ethylene biosynthesis, 1-aminocyclopropane-1-carboxylate oxidase (ACO), together with the expression of other abscission-associated genes involved in cell separation and programmed cell death, during a period of 0-12 h after abscission induction in the tomato flower pedicel abscission zone and nearby tissues...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28406494/laser-capture-microdissection-of-pancreatic-acinar-cells-to-identify-proteomic-alterations-in-a-murine-model-of-caerulein-induced-pancreatitis
#9
John P Shapiro, Hannah M Komar, Baris Hancioglu, Lianbo Yu, Ming Jin, Yuko Ogata, Phil A Hart, Zobeida Cruz-Monserrate, Gregory B Lesinski, Darwin L Conwell
OBJECTIVES: Chronic pancreatitis (CP) is characterized by inflammation and fibrosis of the pancreas, leading to pain, parenchymal damage, and loss of exocrine and endocrine function. There are currently no curative therapies; diagnosis remains difficult and aspects of pathogenesis remain unclear. Thus, there is a need to identify novel biomarkers to improve diagnosis and understand pathophysiology. We hypothesize that pancreatic acinar regions contain proteomic signatures relevant to disease processes, including secreted proteins that could be detected in biofluids...
April 13, 2017: Clinical and Translational Gastroenterology
https://www.readbyqxmd.com/read/28405749/the-anterior-commissure-of-the-human-larynx-revisited
#10
Jean Michel Prades, M Peoc'h, C Petcu, A Karkas, J M Dumollard, M Gavid
BACKGROUND: The anterior commissure (AC) of the human larynx is usually understood as an area of the glottis anteriorly situated between the two vocal folds inserting to the thyroid cartilage (TC). The pattern of spread of AC carcinoma could hypothesize that AC could include other structures of the ventral larynx as developmental anatomy could demonstrate. METHODS: Ten adult larynx specimens from donation program cadavers and 15 selected fetal specimens (from 11 to 34 weeks of amenorrhoea) were studied using microdissection and histological serial sections stained with hematoxylin-eosin and reticuline...
April 12, 2017: Surgical and Radiologic Anatomy: SRA
https://www.readbyqxmd.com/read/28405177/mapping-mitochondrial-heteroplasmy-in-a-leydig-tumor-by-laser-capture-micro-dissection-and-cycling-temperature-capillary-electrophoresis
#11
Paulo Refinetti, Christian Arstad, William G Thilly, Stephan Morgenthaler, Per Olaf Ekstrøm
BACKGROUND: The growth of tumor cells is accompanied by mutations in nuclear and mitochondrial genomes creating marked genetic heterogeneity. Tumors also contain non-tumor cells of various origins. An observed somatic mitochondrial mutation would have occurred in a founding cell and spread through cell division. Micro-anatomical dissection of a tumor coupled with assays for mitochondrial point mutations permits new insights into this growth process. More generally, the ability to detect and trace, at a histological level, somatic mitochondrial mutations in human tissues and tumors, makes these mutations into markers for lineage tracing...
2017: BMC Clinical Pathology
https://www.readbyqxmd.com/read/28395127/site-specific-gene-expression-analysis-of-implant-near-cells-in-a-soft-tissue-infection-model-application-of-laser-microdissection-to-study-biomaterial-associated-infection
#12
Sara Svensson, Margarita Trobos, Omar Omar, Peter Thomsen
Analysis of the implant-tissue interface is important for an understanding of the cellular response to biomaterials with different surface characteristics. However, inaccessibility to the site has restricted the detailed evaluation of the tissue surrounding the implant. Laser microdissection enables the isolation of specific cells and tissues for subsequent DNA, RNA or protein analysis. The present experimental study employed laser microdissection to analyse tissue-specific differences in gene expression in cells around infected or control titanium implants 72 hours after subcutaneous implantation in a rat model...
April 10, 2017: Journal of Biomedical Materials Research. Part A
https://www.readbyqxmd.com/read/28394924/microscale-spatial-analysis-provides-evidence-for-adhesive-monopolization-of-dietary-nutrients-by-specific-intestinal-bacteria
#13
Yusuke Nagara, Toshihiko Takada, Yuriko Nagata, Shoichi Kado, Akira Kushiro
Each species of intestinal bacteria requires a nutritional source to maintain its population in the intestine. Dietary factors are considered to be major nutrients; however, evidence directly explaining the in situ utilization of dietary factors is limited. Microscale bacterial distribution would provide clues to understand bacterial lifestyle and nutrient utilization. However, the detailed bacterial localization around dietary factors in the intestine remains uninvestigated. Therefore, we explored microscale habitats in the murine intestine by using histology and fluorescent in situ hybridization, focusing on dietary factors...
2017: PloS One
https://www.readbyqxmd.com/read/28380666/whole-transcriptome-profiling-of-the-human-hippocampus-suggests-an-involvement-of-the-kibra-rs17070145-polymorphism-in-differential-activation-of-the-mapk-signaling-pathway
#14
I S Piras, J Krate, I Schrauwen, J J Corneveaux, G E Serrano, L Sue, T G Beach, M J Huentelman
The rs17070145-T variant of the WWC1 gene, coding for the KIBRA protein, has been associated with both increased episodic memory performance and lowered risk for late onset Alzheimer's disease, although the mechanism behind this protective effect has not been completely elucidated. To achieve a better understanding of the pathways modulated by rs17070145 and its associated functional variant(s), we used laser capture microdissection (LCM) and RNA-sequencing to investigate the effect of rs17070145 genotypes on whole transcriptome expression in the human hippocampus (HP) of 22 neuropathologically normal individuals, with a specific focus on the dentate gyrus (DG) and at the pyramidal cells (PC) of CA1 and CA3 sub-regions...
April 5, 2017: Hippocampus
https://www.readbyqxmd.com/read/28379214/impact-of-recurrent-hypoglycemic-stress-on-hindbrain-a2-nerve-cell-energy-metabolism-and-catecholamine-biosynthesis-modulation-by-estradiol
#15
Pratistha Tamrakar, Karen P Briski
It is unclear if habituation of hindbrain A2 metabolo‑sensory neurons to recurrent insulin-induced hypoglycemia (RIIH) correlates with estradiol-dependent adjustments in energy metabolism that favor positive energy balance. Laser-microdissected A2 cells from estradiolor oil-implanted ovariectomized female rats were analyzed by Western blot to assess effects of three prior daily insulin injections on basal and hypoglycemic patterns of catecholamine biosynthetic enzyme dopamine-beta-hydroxylase (DβH) and rate-limiting energy pathway enzyme protein expression...
2017: Acta Neurobiologiae Experimentalis
https://www.readbyqxmd.com/read/28377615/ultra-high-mass-resolution-maldi-imaging-mass-spectrometry-of-proteins-and-metabolites-in-a-mouse-model-of-glioblastoma
#16
M Dilillo, R Ait-Belkacem, C Esteve, D Pellegrini, S Nicolardi, M Costa, E Vannini, E L de Graaf, M Caleo, L A McDonnell
MALDI mass spectrometry imaging is able to simultaneously determine the spatial distribution of hundreds of molecules directly from tissue sections, without labeling and without prior knowledge. Ultra-high mass resolution measurements based on Fourier-transform mass spectrometry have been utilized to resolve isobaric lipids, metabolites and tryptic peptides. Here we demonstrate the potential of 15T MALDI-FTICR MSI for molecular pathology in a mouse model of high-grade glioma. The high mass accuracy and resolving power of high field FTICR MSI enabled tumor specific proteoforms, and tumor-specific proteins with overlapping and isobaric isotopic distributions to be clearly resolved...
April 4, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28377147/lmd-proteomics-provides-evidence-for-hippocampus-field-specific-motor-protein-abundance-changes-with-relevance-to-alzheimer-s-disease
#17
Andreas Schrötter, Andrea Oberhaus, Katharina Kolbe, Svenja Seger, Thomas Mastalski, Fouzi El Magraoui, Edeltraut Hoffmann-Posorske, Michael Bohnert, Jürgen Deckert, Christian Braun, Matthias Graw, Christoph Schmitz, Thomas Arzberger, Christina Loosse, Helmut Heinsen, Helmut E Meyer, Thorsten Müller
BACKGROUND: Human hippocampal area Cornu Ammonis (CA) 1 is one of the first fields in the human telencephalon showing Alzheimer disease (AD)-specific neuropathological changes. In contrast, CA2 and CA3 are far later affected pointing to functional differences, which may be accompanied by differences in proteome endowment and changes. METHODS: Human pyramidal cell layers of hippocampal areas CA1, CA2, and CA3 from neurologically unaffected individuals were excised using laser microdissection...
April 2, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28375712/ovarian-cancer-differential-interactome-and-network-entropy-analysis-reveal-new-candidate-biomarkers
#18
Dilara Ayyildiz, Esra Gov, Raghu Sinha, Kazim Yalcin Arga
Ovarian cancer is one of the most common cancers and has a high mortality rate due to insidious symptoms and lack of robust diagnostics. A hitherto understudied concept in cancer pathogenesis may offer new avenues for innovation in ovarian cancer biomarker development. Cancer cells are characterized by an increase in network entropy, and several studies have exploited this concept to identify disease-associated gene and protein modules. We report in this study the changes in protein-protein interactions (PPIs) in ovarian cancer within a differential network (interactome) analysis framework utilizing the entropy concept and gene expression data...
April 4, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28368926/basal-cell-carcinoma-with-matrical-differentiation-clinicopathologic-immunohistochemical-and-molecular-biological-study-of-22-cases
#19
Liubov Kyrpychova, Richard A Carr, Petr Martinek, Tomas Vanecek, Raul Perret, Magdalena Chottová-Dvořáková, Michal Zamecnik, Ladislav Hadravsky, Michal Michal, Dmitry V Kazakov
Basal cell carcinoma (BCC) with matrical differentiation is a fairly rare neoplasm, with about 30 cases documented mainly as isolated case reports. We studied a series of this neoplasm, including cases with an atypical matrical component, a hitherto unreported feature. Lesions coded as BCC with matrical differentiation were reviewed; 22 cases were included. Immunohistochemical studies were performed using antibodies against BerEp4, β-catenin, and epithelial membrane antigen (EMA). Molecular genetic studies using Ion AmpliSeq Cancer Hotspot Panel v2 by massively parallel sequencing on Ion Torrent PGM were performed in 2 cases with an atypical matrical component (1 was previously subjected to microdissection to sample the matrical and BCC areas separately)...
March 31, 2017: American Journal of Surgical Pathology
https://www.readbyqxmd.com/read/28363469/down-regulation-of-n-deacetylase-n-sulfotransferase-1-signaling-in-the-developing-diaphragmatic-vasculature-of-nitrofen-induced-congenital-diaphragmatic-hernia
#20
Toshiaki Takahashi, Florian Friedmacher, Julia Zimmer, Prem Puri
BACKGROUND: Congenital diaphragmatic hernia (CDH) has been attributed to various developmental abnormalities of the underlying tissue components. N-deacetylase-N-sulfotransferase-1 (Ndst1) is a strongly expressed biosynthetic enzyme in endothelial cells, which has recently been identified as an important factor during diaphragmatic vascularization. Loss of endothelial Ndst1 has been demonstrated to cause angiogenic defects in the developing diaphragm and disrupt normal diaphragmatic development...
March 18, 2017: Journal of Pediatric Surgery
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