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https://www.readbyqxmd.com/read/28938622/profiling-cancer-related-gene-mutations-in-oral-squamous-cell-carcinoma-from-japanese-patients-by-targeted-amplicon-sequencing
#1
Takafumi Nakagaki, Miyuki Tamura, Kenta Kobashi, Ryota Koyama, Hisayo Fukushima, Tomoko Ohashi, Masashi Idogawa, Kazuhiro Ogi, Hiroyoshi Hiratsuka, Takashi Tokino, Yasushi Sasaki
Somatic mutation analysis is a standard practice in the study of human cancers to identify mutations that cause therapeutic sensitization and resistance. We performed comprehensive genomic analyses that used PCR target enrichment and next-generation sequencing on Ion Proton semiconductor sequencers. Forty-seven oral squamous cell carcinoma (OSCC) samples and their corresponding noncancerous tissues were used for multiplex PCR amplification to obtain targeted coverage of the entire coding regions of 409 cancer-related genes (covered regions: 95...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938543/predictive-clinical-model-of-tumor-response-after-chemoradiation-in-rectal-cancer
#2
Marisa D Santos, Cristina Silva, Anabela Rocha, Carlos Nogueira, Fernando Castro-Poças, António Araujo, Eduarda Matos, Carina Pereira, Rui Medeiros, Carlos Lopes
Survival improvement in rectal cancer treated with neoadjuvant chemoradiotherapy (nCRT) is achieved only if pathological response occurs. Mandard tumor regression grade (TRG) proved to be a valid system to measure nCRT response. The ability to predict tumor response before treatment may significantly have impact the selection of patients for nCRT in rectal cancer. The aim is to identify potential predictive pretreatment factors for Mandard response and build a clinical predictive model design. 167 patients with locally advanced rectal cancer were treated with nCRT and curative surgery...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938093/a-crispr-resource-for-individual-combinatorial-or-multiplexed-gene-knockout
#3
Nicolas Erard, Simon R V Knott, Gregory J Hannon
No abstract text is available yet for this article.
September 21, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28937957/whole-blood-based-multiplex-immunoassays-for-the-evaluation-of-human-biomarker-responses-to-emerging-viruses-in-resource-limited-regions
#4
Jessica R Harmon, Stuart T Nichol, Christina F Spiropoulou, Anita K McElroy
Many emerging viruses such as Ebola and Lassa occur in resource-limited areas of the world. The advent of multiplex immunoassays has facilitated the study of biomarkers of disease since only small amounts of clinical material are required; however, such assays are designed and validated for only plasma or serum. This is a significant impediment when studying infectious diseases in the context of an outbreak in a developing nation. Plasma or serum can be difficult to obtain in the field due to the need for additional processing of infectious materials...
September 22, 2017: Viral Immunology
https://www.readbyqxmd.com/read/28937875/multiplex-cytokine-analysis-of-aqueous-humor-from-the-patients-with-chronic-primary-angle-closure-glaucoma
#5
Roopam Duvesh, George Puthuran, Kavitha Srinivasan, Venkatesh Rengaraj, S R Krishnadas, Sharmila Rajendrababu, Vijayakumar Balakrishnan, Pradeep Ramulu, Periasamy Sundaresan
PURPOSE: To compare the levels of cytokines and growth factor in aqueous humor of the patients with chronic primary angle closure glaucoma (PACG) and cataract. METHODS: Aqueous humor samples were collected from 19 chronic PACG patients and compared with 14 nonglaucomatous controls presenting for cataract surgery. The levels of 27 cytokines and growth factors were measured in the aqueous samples using multiplex bead immunoassay and compared across groups. RESULTS: Significantly higher levels of interleukin (IL)-8 (p < 0...
September 22, 2017: Current Eye Research
https://www.readbyqxmd.com/read/28937656/characterization-of-diarrheagenic-escherichia-coli-isolated-in-organic-waste-products-cattle-fecal-matter-manure-and-slurry-from-cattle-s-markets-in-ouagadougou-burkina-faso
#6
Evariste Bako, Assèta Kagambèga, Kuan Abdoulaye Traore, Touwendsida Serge Bagre, Hadiza Bawa Ibrahim, Soutongnooma Caroline Bouda, Isidore Juste Ouindgueta Bonkoungou, Saidou Kaboré, Cheikna Zongo, Alfred Sababenejo Traore, Nicolas Barro
Cattle farming can promote diarrheal disease transmission through waste, effluents or cattle fecal matter. The study aims to characterize the diarrheagenic Escherichia coli (DEC) isolated from cattle feces, manure in the composting process and slurry, collected from four cattle markets in Ouagadougou. A total of 585 samples (340 cattle feces, 200 slurries and 45 manures in the composting process) were collected from the four cattle markets between May 2015 and May 2016. A multiplex Polymerase Chain Reaction (PCR), namely 16-plex PCR, was used to screen simultaneously the virulence genes specific for shiga toxin-producing E...
September 22, 2017: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/28937361/multiplex-detection-of-pancreatic-cancer-biomarkers-using-a-sers-based-immunoassay
#7
Nariman Banaei, Anne Foley, Jean Marie Houghton, Yubing Sun, Byung Kim
Early diagnosis of pancreatic cancer is critical to reduce the mortality rate of this disease. Current biological analysis approaches cannot robustly detect several low abundance pancreatic cancer biomarkers in sera, limiting the clinical application of these biomarkers. This study demonstrates a novel system for multiplex detection of pancreatic biomarkers CA19-9, MMP7 and MUC4 in sera samples with high sensitivity. Measuring the levels of these biomarkers in pancreatic cancer patients, pancreatitis patients, and healthy individuals reveals the unique expression pattern of these markers in pancreatic cancer patients, suggesting the great potential of using this approach for early diagnostics of pancreatic cancers...
September 22, 2017: Nanotechnology
https://www.readbyqxmd.com/read/28937030/a-de-novo-mutation-in-dystrophin-causing-muscular-dystrophy-in-a-female-patient
#8
Hao Yu, Yu-Chao Chen, Gong-Lu Liu, Zhi-Ying Wu
BACKGROUND: Duchenne muscular dystrophy (DMD) and Becker muscular dystrophy (BMD) are X-linked recessive neuromuscular diseases resulting from dystrophin (DMD) gene mutations. It has been known that the carrier of DMD mutations may also have symptoms of the disease. While de novo mutation is quite common in BMD/DMD patients, it is rarely reported in the female carriers. METHODS: Two sporadic Chinese patients with progressive muscular dystrophy and their familial members were recruited...
October 5, 2017: Chinese Medical Journal
https://www.readbyqxmd.com/read/28936825/optical-demodulation-system-for-digitally-encoded-suspension-array-in-fluoroimmunoassay
#9
Qinghua He, Dongmei Li, Yonghong He, Tian Guan, Yilong Zhang, Zhiyuan Shen, Xuejing Chen, Siyu Liu, Bangrong Lu, Yanhong Ji
A laser-induced breakdown spectroscopy and fluorescence spectroscopy-coupled optical system is reported to demodulate digitally encoded suspension array in fluoroimmunoassay. It takes advantage of the plasma emissions of assembled elemental materials to digitally decode the suspension array, providing a more stable and accurate recognition to target biomolecules. By separating the decoding procedure of suspension array and adsorption quantity calculation of biomolecules into two independent channels, the cross talk between decoding and label signals in traditional methods had been successfully avoided, which promoted the accuracy of both processes and realized more sensitive quantitative detection of target biomolecules...
September 2017: Journal of Biomedical Optics
https://www.readbyqxmd.com/read/28936537/platinum-tripods-as-nanometric-frequency-multiplexing-devices
#10
Bruno Cury Camargo, Benjamin Lassagne, Raul Arenal, Christophe Gatel, Thomas Blon, Guillaume Viau, Lise-Marie Lacroix, Walter Escoffier
Electrical and structural characterization studies of nano-particles are very important steps to determine their potential applications in microelectronics. In this paper, we address the crystallographic and electric transport properties of soft-chemistry-grown nanometric Pt tribranches. We report that Pt nanostars grown from the reduction of H2PtCl6 salt in pure oleylamine present a remarkable crystalline structure and deeply metallic character despite being grown under mild conditions. We demonstrate that such devices are able to operate at current densities surpassing 200 MA cm(-2), actuating as highly compact frequency multiplexers in the non-ohmic regime...
September 22, 2017: Nanoscale
https://www.readbyqxmd.com/read/28936383/programmable-microfluidic-synthesis-of-over-one-thousand-uniquely-identifiable-spectral-codes
#11
H Q Nguyen, B C Baxter, K Brower, C A Diaz-Botia, J L DeRisi, P M Fordyce, K S Thorn
Encoded microparticles have become a powerful tool for a wide array of applications, including high-throughput sample tracking and massively parallel biological multiplexing. Spectral encoding, where particles are encoded with distinct luminescence spectra, provides a particularly appealing encoding strategy because of the ease of reading codes and assay flexibility. To date, spectral encoding has been limited in the number of codes that can be accurately resolved. Here, we demonstrate an automated 5-dimensional spectral encoding scheme using lanthanide nanophosphors that is capable of producing isotropic spherical microparticles with up to 1,100 unique codes, which we term MRBLEs (Microspheres with Ratiometric Barcode Lanthanide Encoding)...
February 2, 2017: Advanced Optical Materials
https://www.readbyqxmd.com/read/28935125/maternal-circulating-adipokine-profile-and-insulin-resistance-in-women-at-high-risk-of-developing-gestational-diabetes-mellitus
#12
Kym J Guelfi, Ming Jing Ong, Shaofu Li, Karen E Wallman, Dorota A Doherty, Paul A Fournier, John P Newnham, Jeffrey A Keelan
BACKGROUND: Cytokines produced by adipose and placental tissues (adipokines) have been implicated in the development of gestational diabetes mellitus (GDM). There is, however, limited research regarding the relationship between advancing pregnancy, maternal adipokine profile, insulin resistance and the development of GDM. Furthermore, no studies have investigated these parameters in women with a history of GDM who are at the highest risk of recurrence. This study examined the circulating concentrations of a number of adipokines associated with insulin resistance at two points in pregnancy, and determined whether they were altered in women who developed GDM...
August 24, 2017: Metabolism: Clinical and Experimental
https://www.readbyqxmd.com/read/28934980/in-vitro-antibiotic-susceptibility-and-biofilm-production-of-staphylococcus-aureus-isolates-recovered-from-bovine-intramammary-infections-that-persisted-or-not-following-extended-therapies-with-cephapirin-pirlimycin-or-ceftiofur
#13
Céline Ster, Valérie Lebeau, Julia Leclerc, Alexandre Fugère, Koui A Veh, Jean-Philippe Roy, François Malouin
Staphylococcus aureus intramammary infections (IMIs) have low cure rates using standard antibiotic treatment and increasing the duration of treatment usually improves therapeutic success. Chronic IMIs are thought to be caused by bacteria presenting a specific virulence phenotype that includes the capacity to produce greater amounts of biofilm. In this study, antibiotic susceptibility and biofilm production by S. aureus isolates recovered from IMIs that were cured or not following an extended therapy with cephapirin, pirlimycin or ceftiofur for 5, 8 and 8 days, respectively, were compared...
September 21, 2017: Veterinary Research
https://www.readbyqxmd.com/read/28934280/recurrent-deletions-of-the-x-chromosome-linked-cnv64-cnv67-and-cnv69-shows-geographic-differences-across-china-and-no-association-with-idiopathic-infertility-in-men
#14
Xiulan Ma, Martin Kuete, Xiuli Gu, Hui Zhou, Chengliang Xiong, Honggang Li
A recent study found that three recurrent deletions of X chromosome linked copy number variations (CNVs), CNV64, CNV67 and CNV69 were associated with idiopathic male infertility in Spanish and Italian populations, especially CNV67 resembling the azoospermia factor deletions. That merits further investigations among different populations. This study was conducted to examine the prevalence of the three CNVs deletions and their associations with idiopathic male infertility in Chinese Han population. The present study included a large population of 1550 Chinese Han subjects recruited between 2014 and 2016...
2017: PloS One
https://www.readbyqxmd.com/read/28934125/optimized-mtdna-control-region-primer-extension-capture-analysis-for-forensically-relevant-samples-and-highly-compromised-mtdna-of-different-age-and-origin
#15
Mayra Eduardoff, Catarina Xavier, Christina Strobl, Andrea Casas-Vargas, Walther Parson
The analysis of mitochondrial DNA (mtDNA) has proven useful in forensic genetics and ancient DNA (aDNA) studies, where specimens are often highly compromised and DNA quality and quantity are low. In forensic genetics, the mtDNA control region (CR) is commonly sequenced using established Sanger-type Sequencing (STS) protocols involving fragment sizes down to approximately 150 base pairs (bp). Recent developments include Massively Parallel Sequencing (MPS) of (multiplex) PCR-generated libraries using the same amplicon sizes...
September 21, 2017: Genes
https://www.readbyqxmd.com/read/28933704/the-association-between-serum-cytokine-and-chemokine-levels-and-antiviral-response-by-entecavir-treatment-in-chronic-hepatitis-b-patients
#16
Mio Kurihara, Masataka Tsuge, Eisuke Murakami, Nami Mori, Waka Ohishi, Takuro Uchida, Hatsue Fujino, Takashi Nakahara, Hiromi Abe-Chayama, Tomokazu Kawaoka, Daiki Miki, Akira Hiramatsu, Michio Imamura, Yoshiiku Kawakami, Hiroshi Aikata, Hidenori Ochi, Yizhou Zhang, Grace Naswa Makokha, C Nelson Hayes, Kazuaki Chayama
BACKGROUND: Although Nucleos(t)ide analogue therapy is thought to suppress chronic hepatitis B(CHB) via regulation of inflammatory cytokines/chemokines, the mechanism is still unclear. In this study, serum cytokine/chemokine levels were measured in CHB patients treated with entecavir, and the association with antiviral response was analyzed. METHODS: Seventy-eight Japanese patients with CHB were enrolled, and serum cytokine/chemokine levels were measured at baseline and at 12, 24, and 48 weeks of entecavir treatment using the MULTIPLEX kit...
September 21, 2017: Antiviral Therapy
https://www.readbyqxmd.com/read/28933650/investigating-multiple-sclerosis-genetic-susceptibility-on-the-founder-population-of-east-central-sardinia-via-association-and-linkage-analysis-of-immune-related-loci
#17
Teresa Fazia, Roberta Pastorino, Luisa Foco, Lide Han, Mark Abney, Ashley Beecham, Athena Hadjixenofontos, Hui Guo, Davide Gentilini, Charalampos Papachristou, Pier Paolo Bitti, Anna Ticca, Carlo Berzuini, Jacob L McCauley, Luisa Bernardinelli
BACKGROUND: A wealth of single-nucleotide polymorphisms (SNPs) responsible for multiple sclerosis (MS) susceptibility have been identified; however, they explain only a fraction of MS heritability. OBJECTIVES: We contributed to discovery of new MS susceptibility SNPs by studying a founder population with high MS prevalence. METHODS: We analyzed ImmunoChip data from 15 multiplex families and 94 unrelated controls from the Nuoro Province, Sardinia, Italy...
September 1, 2017: Multiple Sclerosis: Clinical and Laboratory Research
https://www.readbyqxmd.com/read/28933634/development-of-a-multiplexed-opsonophagocytic-killing-assay-mopa-for-group-b-streptococcus
#18
Min Joo Choi, Ji Yun Noh, Hee Jin Cheong, Woo Joo Kim, Shun-Mei Lin, Yong Zhi, Jae Hyang Lim, Sangyong Lim, Ho Seong Seo, Joon Young Song
Group B Streptococcus (GBS) is a leading cause of sepsis in infants as well as chorioamnionitis in pregnant women. Opsonophagocytic killing assays (OPAs) are an essential technique in vaccine studies of encapsulated bacteria for estimating serotype-specific functional antibody levels in vitro. Here, we developed a three-fold multiplexed OPA (MOPA) to enable practical, large-scale assessment of GBS vaccine immunogenicity, including against serotypes Ia, III, and V. First, three target bacteria strains resistant to streptomycin, spectinomycin, or kanamycin were generated by natural selection through exposure to increasing antibiotic concentrations...
September 21, 2017: Human Vaccines & Immunotherapeutics
https://www.readbyqxmd.com/read/28933153/rapid-sequential-in-situ-multiplexing-with-dna-exchange-imaging-in-neuronal-cells-and-tissues
#19
Yu Wang, Johannes B Woehrstein, Noah Donoghue, Mingjie Dai, Maier S Avendano, Ron C J Schackmann, Jason Zoeller, Shan Shan H Wang, Paul W Tillberg, Demian Park, Sylvain W Lapan, Edward S Boyden, Joan S Brugge, Pascal S Kaeser, George Church, Sarit S Agasti, Ralf Jungmann, Peng Yin
To decipher the molecular mechanism of biological function, it is critical to map the molecular composition of individual cells or even more importantly tissue samples in the context of their biological environment in situ. Immunofluorescence (IF) provides specific labeling for molecular profiling. However, conventional IF methods have finite multiplexing capabilities due to spectral overlap of the fluorophores. Various sequential imaging methods have been developed to circumvent this spectral limit, but are not widely adopted due to the common limitation of requiring multi-rounds of slow (typically over 2 hours at room temperature to overnight at 4 °C in practice) immunostaining...
September 21, 2017: Nano Letters
https://www.readbyqxmd.com/read/28932927/screening-for-germline-mutations-in-mismatch-repair-genes-in-patients-with-lynch-syndrome-by-next-generation-sequencing
#20
Barbara Luísa Soares, Ayslan Castro Brant, Renan Gomes, Tatiane Pastor, Naye Balzan Schneider, Ândrea Ribeiro-Dos-Santos, Paulo Pimentel de Assumpção, Maria Isabel W Achatz, Patrícia Ashton-Prolla, Miguel Angelo Martins Moreira
Lynch syndrome (LS) is an autosomal dominant disorder, with high penetrance that affects approximately 3% of the cases of colorectal cancer. Affected individuals inherit germline mutations in genes responsible for DNA mismatch repair, mainly at MSH2, MLH1, MSH6 and PMS2. The molecular screening of these individuals is frequently costly and time consuming due to the large size of these genes. In addition, PMS2 mutation detection is often a challenge because there are 16 different pseudogenes identified until now...
September 20, 2017: Familial Cancer
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