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https://www.readbyqxmd.com/read/29779256/hierarchical-bi2te3-nanostrings-green-synthesis-and-their-thermoelectric-properties
#1
Shuyan Song, Yu Liu, Qishun Wang, Jing Pan, Yabin Sun, Lingling Zhang
Bi2Te3 hierarchical nanostrings have been synthesized through a solvothermal approach with the assistance of sucrose. The hierarchical Bi2Te3 was supposed to be fabricated through a self-assembly process. Te nanorods first emerge with the reduction of TeO32- followed by heterogeneous nucleation of Bi2Te3 nanoplates on the surface and tips of Te nanorods. Te nanorods further transform into Bi2Te3 nanorods simultaneously with the nanoplates' growth leading to a hierarchical structure. Through controlling the reaction kinetics by adding different amount of ethylene glycol, the length of nanorods and the number of nanoplates could be tailored...
May 20, 2018: Chemistry: a European Journal
https://www.readbyqxmd.com/read/29779068/new-insights-into-the-inflamed-tumor-immune-microenvironment-of-gastric-cancer-with-lymphoid-stroma-from-morphology-and-digital-analysis-to-gene-expression
#2
Irene Gullo, Patrícia Oliveira, Maria Athelogou, Gilza Gonçalves, Marta L Pinto, Joana Carvalho, Ana Valente, Hugo Pinheiro, Sara Andrade, Gabriela M Almeida, Ralf Huss, Kakoli Das, Patrick Tan, José C Machado, Carla Oliveira, Fátima Carneiro
BACKGROUND: Gastric cancer with lymphoid stroma (GCLS) is characterized by prominent stromal infiltration of T-lymphocytes. The aim of this study was to investigate GCLS biology through analysis of clinicopathological features, EBV infection, microsatellite instability (MSI), immune gene-expression profiling and PD-L1 status in neoplastic cells and tumor immune microenvironment. METHODS: Twenty-four GCLSs were analyzed by RNA in situ hybridization for EBV (EBER), PCR/fragment analysis for MSI, immunohistochemistry (PD-L1, cytokeratin, CD3, CD8), co-immunofluorescence (CK/PD-L1, CD68/PD-L1), NanoString gene-expression assay for immune-related genes and PD-L1 copy number alterations...
May 19, 2018: Gastric Cancer
https://www.readbyqxmd.com/read/29769262/a-new-molecular-assay-and-genomic-complexity-predict-outcome-in-conventional-and-leukemic-non-nodal-mantle-cell-lymphoma
#3
Guillem Clot, Pedro Jares, Eva Giné, Alba Navarro, Cristina Royo, Magda Pinyol, David Martín-Garcia, Santiago Demajo, Blanca Espinet, Antonio Salar, Ana Ferrer, Ana Muntañola, Marta Aymerich, Hilka Rauert-Wunderlich, Elaine S Jaffe, Joseph M Connors, Randy D Gascoyne, Jan Delabie, Armando López-Guillermo, German Ott, George W Wright, Louis M Staudt, Andreas Rosenwald, David W Scott, Lisa M Rimsza, Sílvia Beà, Elías Campo
Mantle cell lymphoma (MCL) is an aggressive B-cell malignancy but some patients have a very indolent evolution. This heterogeneous course is related, in part, to the different biological characteristics of conventional MCL (cMCL) and the distinct subgroup of leukemic non-nodal MCL (nnMCL). Robust criteria to distinguish these MCL subtypes and additional biological parameters that influence their evolution are not well defined. Herein, we describe a novel molecular assay that reliably distinguishes cMCL and nnMCL using blood samples...
May 16, 2018: Blood
https://www.readbyqxmd.com/read/29767359/simultaneous-multiplexed-detection-of-rna-and-protein-on-the-nanostring-%C3%A2-ncounter-%C3%A2-platform
#4
Sarah Warren
The NanoString nCounter Analysis System uses a digital fluorescent barcode technology that allows for direct multiplexed measurement of gene expression (mRNA), DNA, and protein. The technology uses molecular barcodes and single-molecule imaging to detect and count unique mRNA and protein targets in a single reaction. nCounter-based detection is enzyme-free (no amplification of mRNA is required), fully automated, and allows simultaneous detection of up to 770 mRNA and 30 protein targets from multiple sample types...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29755683/increased-mucosal-expression-of-mir-215-precedes-the-development-of-neoplasia-in-patients-with-long-standing-ulcerative-colitis
#5
Joel Pekow, Katherine Meckel, Urszula Dougherty, Haider I Haider, Zifeng Deng, John Hart, David T Rubin, Marc Bissonnette
Identification of biological markers predicting the onset of neoplasia in patients with long-standing ulcerative colitis (UC) could allow for risk stratification in this population. In this study, we retrospectively identified subjects with chronic UC who developed colon neoplasia ( n = 16) matched to UC patients who never developed neoplasia. RNA was extracted from archived colonic biopsies obtained at an interval of 1-2 years prior and 3-5 years prior to the onset of neoplasia. miRNA expression was assessed using Nanostring arrays in 12 subjects, and significantly up-regulated miRNAs were evaluated by real time pcr in the entire cohort of patients...
April 17, 2018: Oncotarget
https://www.readbyqxmd.com/read/29748761/gene-expression-in-triple-negative-breast-cancer-in-relation-to-survival
#6
Shuyang Wang, Alicia Beeghly-Fadiel, Qiuyin Cai, Hui Cai, Xingyi Guo, Liang Shi, Jie Wu, Fei Ye, Qingchao Qiu, Ying Zheng, Wei Zheng, Ping-Ping Bao, Xiao-Ou Shu
PURPOSE: The identification of biomarkers related to the prognosis of triple-negative breast cancer (TNBC) is critically important for improved understanding of the biology that drives TNBC progression. METHODS: We evaluated gene expression in total RNA isolated from formalin-fixed paraffin-embedded tumor samples using the NanoString nCounter assay for 469 TNBC cases from the Shanghai Breast Cancer Survival Study. We used Cox regression to quantify Hazard Ratios (HR) and corresponding confidence intervals (CI) for overall survival (OS) and disease-free survival (DFS) in models that included adjustment for breast cancer intrinsic subtype...
May 10, 2018: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/29742110/identification-of-a-neutrophil-related-gene-expression-signature-that-is-enriched-in-adult-systemic-lupus-erythematosus-patients-with-active-nephritis-clinical-pathologic-associations-and-etiologic-mechanisms
#7
Joan E Wither, Stephenie D Prokopec, Babak Noamani, Nan-Hua Chang, Dennisse Bonilla, Zahi Touma, Carmen Avila-Casado, Heather N Reich, James Scholey, Paul R Fortin, Paul C Boutros, Carolina Landolt-Marticorena
Both a lack of biomarkers and relatively ineffective treatments constitute impediments to management of lupus nephritis (LN). Here we used gene expression microarrays to contrast the transcriptomic profiles of active SLE patients with and without LN to identify potential biomarkers for this condition. RNA isolated from whole peripheral blood of active SLE patients was used for transcriptomic profiling and the data analyzed by linear modeling, with corrections for multiple testing. Results were validated in a second cohort of SLE patients, using NanoString technology...
2018: PloS One
https://www.readbyqxmd.com/read/29739450/m1-macrophage-recruitment-correlates-with-worse-outcome-in-shh-medulloblastomas
#8
Chanhee Lee, Joongyub Lee, Seung Ah Choi, Seung-Ki Kim, Kyu-Chang Wang, Sung-Hye Park, Se Hoon Kim, Ji Yeoun Lee, Ji Hoon Phi
BACKGROUND: Recent progress in molecular analysis has advanced the understanding of medulloblastoma (MB) and is anticipated to facilitate management of the disease. MB is composed of 4 molecular subgroups: WNT, SHH, Group 3, and Group 4. Macrophages play a crucial role in the tumor microenvironment; however, the functional role of their activated phenotype (M1/M2) remains controversial. Herein, we investigate the correlation between tumor-associated macrophage (TAM) recruitment within the MB subgroups and prognosis...
May 8, 2018: BMC Cancer
https://www.readbyqxmd.com/read/29723294/probing-the-role-of-ppar%C3%AE-in-the-regulation-of-late-onset-alzheimer-s-disease-associated-genes
#9
Julio Barrera, Shobana Subramanian, Ornit Chiba-Falek
Peroxisome proliferator-activated receptor-γ (PPARγ), is a transcription factor that governs pathways, such as lipid metabolism and immune response, that have been implicated in the etiology of LOAD. Previously, we established HepG2-derived cell-lines with stable knockdown of PPARγ gene, and showed an increase in mRNA levels of genes mapped in the APOE linkage disequilibrium (LD) region on chromosome 19q13.32, with the greatest effect observed for APOE-mRNA. Here, we extended the analysis using our PPARγ knockdown model system and investigated the broader effect on expression changes of genes implicated in LOAD via genome wide association studies (GWAS)...
2018: PloS One
https://www.readbyqxmd.com/read/29712685/novel-effector-phenotype-of-tim-3-regulatory-t-cells-leads-to-enhanced-suppressive-function-in-head-and-neck-cancer-patients
#10
Zhuqing Liu, Elizabeth L McMichael, Gulidanna Shayan, Jing Li, Kevin Chen, Raghvendra M Srivastava, Lawrence P Kane, Binfeng Lu, Robert L Ferris
PURPOSE: Regulatory T (Treg) cells are important suppressive cells among tumor infiltrating lymphocytes (TIL). Treg express the well-known immune checkpoint receptor PD-1, which is reported to mark "exhausted" Treg with lower suppressive function. T cell immunoglobulin mucin (Tim)-3, a negative regulator of Th1 immunity, is expressed by a sizeable fraction of TIL Tregs, but the functional status of Tim-3+ Tregs remains unclear. EXPERIMENTAL DESIGN: CD4+CTLA-4+CD25high Treg were sorted from freshly excised head and neck squamous cell carcinoma (HNSCC) TIL based on Tim-3 expression...
April 30, 2018: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/29704252/baseline-intrahepatic-and-peripheral-innate-immunity-are-associated-with-hepatitis-c-virus-clearance-during-daa-therapy
#11
Hawwa Alao, Maggie Cam, Chithra Keembiyehetty, Fang Zhang, Elisavet Serti, Daniel Suarez, Heiyoung Park, Nicolaas H Fourie, Elizabeth C Wright, Wendy A Henderson, Qisheng Li, T Jake Liang, Barbara Rehermann, Marc G Ghany
OBJECTIVE: Hepatitis C virus (HCV) infection induces interferon-stimulated genes (ISGs) and downstream innate immune responses. This study investigated whether baseline and on-treatment differences in these responses predict response versus virological breakthrough during therapy with direct-acting antivirals (DAA). METHODS: Thirteen HCV genotype 1b-infected patients who had previously failed a course of peginterferon/ribavirin were re-treated with asunaprevir/daclatasvir for 24 weeks...
April 27, 2018: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/29659895/identification-of-differential-transcriptional-patterns-in-primary-and-secondary-hyperparathyroidism
#12
Samira M Sadowski, Marc Pusztaszeri, Marie-Claude Brulhart-Meynet, Volodymyr Petrenko, Claudio De Vito, Jonathan Sobel, Céline Delucinge-Vivier, Electron Kebebew, Romano Regazzi, Jacques Philippe, Frédéric Triponez, Charna Dibner
Context: Hyperparathyroidism is associated with hypercalcemia and the excess of parathyroid hormone secretion. However, the alterations in molecular pattern of functional genes during parathyroid tumorigenesis have not been unraveled. We aimed at establishing transcriptional patterns of normal and pathological parathyroid glands (PG) in sporadic primary and secondary hyperparathyroidism (HPT1, 2). Objective: To evaluate dynamic alterations in molecular patterns as a function of the type of PG pathology, a comparative transcript analysis was conducted in subgroups of healthy samples, sporadic HPT1 adenoma and hyperplasia, and HPT2...
April 5, 2018: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/29659698/molecular-subtyping-of-cancer-current-status-and-moving-toward-clinical-applications
#13
Lan Zhao, Victor H F Lee, Michael K Ng, Hong Yan, Maarten F Bijlsma
Cancer is a collection of genetic diseases, with large phenotypic differences and genetic heterogeneity between different types of cancers and even within the same cancer type. Recent advances in genome-wide profiling provide an opportunity to investigate global molecular changes during the development and progression of cancer. Meanwhile, numerous statistical and machine learning algorithms have been designed for the processing and interpretation of high-throughput molecular data. Molecular subtyping studies have allowed the allocation of cancer into homogeneous groups that are considered to harbor similar molecular and clinical characteristics...
April 12, 2018: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/29643013/circulating-micrornas-predict-survival-of-patients-with-tumors-of-glial-origin
#14
Drusco A, P Fadda, Nigita G, Fassan M, Bottoni A, Gardiman Mp, D Sacchi, Calore F, Carosi M, Antenucci A, B Casini, Kelani H, Pescarmona E, Di Leva G, Zanesi N, Berger Ms, Croce Cm
The World Health Organization has recently introduced molecular prognostic-diagnostic biomarkers in the classification of Central Nervous System (CNS) tumors. In order to characterize subclasses of tumors that cannot find a precise location in the current classification, and, or cannot be tested because of scant material, it is important to find new molecular biomarkers in tissue and, or biological fluid samples. In this study, we identified serum microRNAs that could serve as biomarkers for the diagnosis and prognosis of patients with tumors of glial origin...
March 21, 2018: EBioMedicine
https://www.readbyqxmd.com/read/29616179/expression-and-localization-of-cathepsins-b-d-and-g-in-dupuytren-s-disease
#15
Kirin Tan, Helen D Brasch, Bede van Schaijik, James R Armstrong, Reginald W Marsh, Paul F Davis, Swee T Tan, Tinte Itinteang
Background: The pathogenesis of Dupuytren's disease (DD) remains unclear. An embryonic stem cell (ESC)-like population in the endothelium of the microvessels around tissues that expresses components of the renin-angiotensin system (RAS) has been reported. This study investigated if this primitive population expresses cathepsins B, D, and G, that contribute to RAS bypass loops. Methods: 3,3-Diaminobenzidine immunohistochemical (IHC) staining for cathepsins B, D, and G was performed on sections of formalin-fixed paraffin-embedded DD cords (n = 10) and nodules (n = 10)...
February 2018: Plastic and Reconstructive Surgery. Global Open
https://www.readbyqxmd.com/read/29609951/bone-metastasis-in-advanced-breast-cancer-analysis-of-gene-expression-microarray
#16
Irawan Cosphiadi, Tubagus D Atmakusumah, Nurjati C Siregar, Abdul Muthalib, Alida Harahap, Muchtarruddin Mansyur
BACKGROUND: Approximately 30% to 40% of breast cancer recurrences involve bone metastasis (BM). Certain genes have been linked to BM; however, none have been able to predict bone involvement. In this study, we analyzed gene expression profiles in advanced breast cancer patients to elucidate genes that can be used to predict BM. PATIENTS AND METHODS: A total of 92 advanced breast cancer patients, including 46 patients with BM and 46 patients without BM, were identified for this study...
March 8, 2018: Clinical Breast Cancer
https://www.readbyqxmd.com/read/29593102/a-conserved-transcriptional-response-to-intranasal-ebola-virus-exposure-in-nonhuman-primates-prior-to-onset-of-fever
#17
Emily Speranza, Sandra L Bixler, Louis A Altamura, Catherine E Arnold, William D Pratt, Cheryl Taylor-Howell, Christina Burrows, William Aguilar, Franco Rossi, Joshua D Shamblin, Suzanne E Wollen, Justine M Zelko, Timothy Minogue, Elyse Nagle, Gustavo Palacios, Arthur J Goff, John H Connor
Ebola virus disease (EVD), caused by Ebola virus (EBOV), is a severe illness characterized by case fatality rates of up to 90%. The sporadic nature of outbreaks in resource-limited areas has hindered the ability to characterize the pathogenesis of EVD at all stages of infection but particularly early host responses. Pathogenesis is often studied in nonhuman primate (NHP) models of disease that replicate major aspects of human EVD. Typically, NHP models use a large infectious dose, are carried out through intramuscular or aerosol exposure, and have a fairly uniform disease course...
March 28, 2018: Science Translational Medicine
https://www.readbyqxmd.com/read/29589052/the-nitrone-spin-trap-5-5-dimethyl-1-pyrroline-n-oxide-dampens-lipopolysaccharide-induced-transcriptomic-changes-in-macrophages
#18
M D Muñoz, M C Della Vedova, P R Bushel, D Ganini da Silva, R P Mason, Z Zhai, S E Gomez Mejiba, D C Ramirez
OBJECTIVE: M1-like inflammatory phenotype of macrophages plays a critical role in tissue damage in chronic inflammatory diseases. Previously, we found that the nitrone spin trap 5,5-dimethyl-1-pyrroline N-oxide (DMPO) dampens lipopolysaccharide (LPS)-triggered inflammatory priming of RAW 264.7 cells. Herein, we tested whether DMPO by itself can induce changes in macrophage transcriptome, and that these effects may prevent LPS-induced activation of macrophages. MATERIALS AND METHODS: To test our hypothesis, we performed a transcriptomic and bioinformatics analysis in RAW 264...
March 27, 2018: Inflammation Research: Official Journal of the European Histamine Research Society ... [et Al.]
https://www.readbyqxmd.com/read/29581837/molecular-and-clinical-features-of-the-tp53-signature-gene-expression-profile-in-early-stage-breast-cancer
#19
Shigeo Yamaguchi, Shin Takahashi, Kaoru Mogushi, Yuki Izumi, Yumi Nozaki, Tadashi Nomizu, Yoichiro Kakugawa, Takanori Ishida, Noriaki Ohuchi, Chikashi Ishioka, Shunsuke Kato
Purpose: TP53 signature has a robust predictive performance for prognosis in early-stage breast cancer, but the experiment that reported this relied on public microarray data and fresh-frozen samples. Before TP53 signature can be used in a clinical setting, a simple and low-cost diagnostic system using formalin-fixed paraffin-embedded (FFPE) samples is needed. New treatments based on the biological characteristics of TP53 signature are expected to follow. Experimental Design: TP53 signature was evaluated in 174 FFPE early breast cancer specimens using digital quantification via the nCounter technique (NanoString)...
March 6, 2018: Oncotarget
https://www.readbyqxmd.com/read/29565640/sigmoid-colon-mucosal-gene-expression-supports-alterations-of-neuronal-signaling-in-irritable-bowel-syndrome-with-constipation
#20
Elizabeth J Videlock, Swapna Mahurkar-Joshi, Jill M Hoffman, Dimitrios Iliopoulos, Charalabos Pothoulakis, Emeran A Mayer, Lin Chang
OBJECTIVE: Peripheral factors likely play a role in at least a subset of irritable bowel syndrome (IBS) patients. Few studies have investigated mucosal gene expression using an unbiased approach. Here, we performed mucosal gene profiling in a sex-balanced sample to identify relevant signaling pathways and gene networks and compare to publicly available profiling data from additional cohorts. DESIGN: 20 Rome III+ IBS patients (10 IBS with constipation (IBS-C), 10 IBS with diarrhea (IBS-D) 5 men/women each) and 10 age/sex-matched healthy controls (HCs) underwent sigmoidoscopy with biopsy for gene microarray analysis, including differential expression, weighted gene co-expression network analysis (WGCNA), gene set enrichment analysis and comparison with publicly available data...
March 22, 2018: American Journal of Physiology. Gastrointestinal and Liver Physiology
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