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Molecular diagnostic methods

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https://www.readbyqxmd.com/read/28099523/the-role-of-liquid-based-cytology-and-ancillary-techniques-in-the-peritoneal-washing-analysis-our-institutional-experience
#1
Esther Rossi, Tommaso Bizzarro, Maurizio Martini, Adhemar Longatto-Filho, Fernando Schmitt, Anna Fagotti, Giovanni Scambia, Gian Franco Zannoni
BACKGROUND: The cytological analysis of peritoneal effusions serves as a diagnostic and prognostic aid for either primary or metastatic diseases. Among the different cytological preparations, liquid based cytology (LBC) represents a feasible and reliable method ensuring also the application of ancillary techniques (i.e immunocytochemistry-ICC and molecular testing). METHODS: We recorded 10348 LBC peritoneal effusions between January 2000 and December 2014. They were classified as non-diagnostic (ND), negative for malignancy-NM, atypical-suspicious for malignancy-SM and positive for malignancy-PM...
2017: PloS One
https://www.readbyqxmd.com/read/28096624/genetic-variability-and-discrimination-of-low-doses-of-toxocara-spp-from-public-areas-soil-inferred-by-loop-mediated-isothermal-amplification-assay-as-a-field-friendly-molecular-tool
#2
Maryam Ozlati, Adel Spotin, Abbas Shahbazi, Mahmoud Mahami-Oskouei, Teimour Hazratian, Mohammad Adibpor, Ehsan Ahmadpour, Afsaneh Dolatkhah, Paria Khoshakhlagh
ABSTRACT: Aim: One of the main diagnostic problems of conventional polymerase chain reaction (PCR) is indiscrimination of low parasitic loads in soil samples. The aim of this study is to determine the genetic diversity and identification of Toxocara spp. from public areas soil inferred by loop-mediated isothermal amplification (LAMP) assay. MATERIALS AND METHODS: A total of 180 soil samples were collected from various streets and public parks of northwest Iran. The DNA of recovered Toxocara eggs were extracted and amplified by PCR and LAMP following ZnSO4 flotation technique...
December 2016: Veterinary World
https://www.readbyqxmd.com/read/28095298/molecular-identification-and-genotyping-of-trypanosoma-cruzi-dna-in-autochthonous-chagas-disease-patients-from-texas-usa
#3
Melissa N Garcia, Hadley Burroughs, Rodion Gorchakov, Sarah M Gunter, Eric Dumonteil, Kristy O Murray, Claudia P Herrera
The parasitic protozoan Trypanosoma cruzi, the causative agent of Chagas disease, is widely distributed throughout the Americas, from the southern United States (US) to northern Argentina, and infects at least 6 million people in endemic areas. Much remains unknown about the dynamics of T. cruzi transmission among mammals and triatomine vectors in sylvatic and peridomestic eco-epidemiological cycles, as well as of the risk of transmission to humans in the US. Identification of T. cruzi DTUs among locally-acquired cases is necessary for enhancing our diagnostic and clinical prognostic capacities, as well as to understand parasite transmission cycles...
January 14, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28095078/diagnosis-classification-and-therapeutic-interventions-for-sinopulmonary-aspergillosis
#4
Matthew William McCarthy, Daniel Aguilar-Zapata, Vidmantas Petraitis, Thomas J Walsh
Sinopulmonary aspergillosis represents a diverse collection of allergic, invasive, and chronic sinus and respiratory conditions. These diseases can affect patients with and without immune impairment and in some cases may be life-threatening. Areas Covered: We review the diagnosis, classification, and therapeutic options available to treat sinopulmonary aspergillosis and look ahead to emerging diagnostic and therapeutic options that may soon play an important role in clinical practice. Expert Commentary: Histopathology and tissue culture remain the gold standard for the diagnosis of invasive sinopulmonary aspergillosis, but several new molecular detection methods have recently emerged, including various PCR-based platforms, MALDI-TOF, and lateral flow assays...
January 17, 2017: Expert Review of Respiratory Medicine
https://www.readbyqxmd.com/read/28094255/specific-and-sensitive-isothermal-electrochemical-biosensor-for-plant-pathogen-dna-detection-with-colloidal-gold-nanoparticles-as-probes
#5
Han Yih Lau, Haoqi Wu, Eugene J H Wee, Matt Trau, Yuling Wang, Jose R Botella
Developing quick and sensitive molecular diagnostics for plant pathogen detection is challenging. Herein, a nanoparticle based electrochemical biosensor was developed for rapid and sensitive detection of plant pathogen DNA on disposable screen-printed carbon electrodes. This 60 min assay relied on the rapid isothermal amplification of target pathogen DNA sequences by recombinase polymerase amplification (RPA) followed by gold nanoparticle-based electrochemical assessment with differential pulse voltammetry (DPV)...
January 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28093123/synthesis-of-stable-isotopically-labeled-peptides-with-filter-assisted-enzymatic-labeling-for-the-diagnosis-of-hepatitis-b-virus-infection-utilizing-mass-spectrometry-based-proteomics-strategy
#6
Hsing-Fen Tsai, He-Hsuan Hsiao
A facile method for the preparation of stable isotopically labeled peptides was developed by means of filter-assisted tryptic (16)O/(18)O water labeling, which could be directly applied to the determination of hepatitis B virus infection from human serum with tandem mass spectrometry. Tryptic peptides of hepatitis B surface antigen or hepatitis B e antigen from different subtypes of hepatitis B virus were synthesized with traditional solid-phase peptide synthesis as potential biomarkers. Trypsin catalyzed oxygen-18 exchange at their amidated c-terminus of arginine or lysine residue...
March 1, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28092381/miniaturized-devices-for-point-of-care-molecular-detection-of-hiv
#7
REVIEW
Michael Mauk, Jinzhao Song, Haim H Bau, Robert Gross, Frederic D Bushman, Ronald G Collman, Changchun Liu
The HIV pandemic affects 36.7 million people worldwide, predominantly in resource-poor settings. Nucleic acid-based molecular detection of HIV plays a significant role in antiretroviral treatment monitoring for HIV patients, as well as diagnosis of HIV infection in infants. Currently available molecular diagnostic methods are complex, time-consuming and relatively expensive, thus limiting their use in resource-poor settings. Recent advances in microfluidics technology have made possible low-cost integrated miniaturized devices for molecular detection and quantification of HIV at the point of care...
January 16, 2017: Lab on a Chip
https://www.readbyqxmd.com/read/28091414/acute-myeloid-leukemia-advancements-in-diagnosis-and-treatment
#8
REVIEW
Meng-Ge Yu, Hu-Yong Zheng
OBJECTIVE: Leukemia is the most common pediatric malignancy and a major cause of morbidity and mortality in children. Among all subtypes, a lack of consensus exists regarding the diagnosis and treatment of acute myeloid leukemia (AML). Patient survival rates have remained modest for the past three decades in AML. Recently, targeted therapy has emerged as a promising treatment. DATA SOURCES: We searched the PubMed database for recently published research papers on diagnostic development, target therapy, and other novel therapies of AML...
2017: Chinese Medical Journal
https://www.readbyqxmd.com/read/28088186/concentration-of-fine-needle-aspirates-similar-to-molecular-method-improves-sensitivity-of-the-diagnosis-of-tuberculous-lymphadenitis-in-addis-ababa-ethiopia
#9
Olifan Zewdie, Tamrat Abebe, Adane Mihret, Eyob Hirpa, Gobena Ameni
BACKGROUND: Tuberculous lymphadenitis (TBLN) diagnosis has been a true challenge solely by clinical evidence in developing countries, due to limited the diagnostic facility on hand. However, the availability and affordability of available diagnostic tools in resource-limited settings like Ethiopia necessitates the quest for other techniques with added value over direct Z-N microscopy. Therefore, we aimed at to assess whether the concentration of lymph node aspirate similarly improves the detection rate of tuberculous lymphadenitis or not...
January 14, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28087349/combination-of-multiple-ligation-dependent-probe-amplification-and-illumina-miseq-amplicon-sequencing-for-tsc1-tsc2-gene-analyses-in-patients-with-tuberous-sclerosis-complex
#10
Nur Farrah Dila Ismail, Abdul Qawee Rani, Nik Mohd Ariff Nik Abdul Malik, Chia Boon Hock, Siti Nabilahuda Mohd Azlan, Salmi Abdul Razak, Wee Teik Keng, Lock Hock Ngu, Abdul Rashid Silawati, Nor AzniYahya, Narazah Mohd Yusoff, Teguh Haryo Sasongko, Zabidi Azhar Mohd Hussin
Tuberous sclerosis complex (TSC) is an autosomal dominant neurocutaneous disorder characterized by tumor growth in multiple organs and caused by mutations in either TSC1 or TSC2 genes. Because of their relatively large genomic sizes, absence of hotspots, and common type of mutations, mutation detection in TSC1 and TSC2 genes has been challenging. We devised a combination of multiple ligation-dependent probe amplification (MLPA) and amplicon sequencing (AS) to simplify the detection strategy, yet we come up with reasonably high detection rate...
January 10, 2017: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/28081126/a-pan-lyssavirus-taqman-real-time-rt-pcr-assay-for-the-detection-of-highly-variable-rabies-virus-and-other-lyssaviruses
#11
Ashutosh Wadhwa, Kimberly Wilkins, Jinxin Gao, Rene Edgar Condori Condori, Crystal M Gigante, Hui Zhao, Xiaoyue Ma, James A Ellison, Lauren Greenberg, Andres Velasco-Villa, Lillian Orciari, Yu Li
Rabies, resulting from infection by Rabies virus (RABV) and related lyssaviruses, is one of the most deadly zoonotic diseases and is responsible for up to 70,000 estimated human deaths worldwide each year. Rapid and accurate laboratory diagnosis of rabies is essential for timely administration of post-exposure prophylaxis in humans and control of the disease in animals. Currently, only the direct fluorescent antibody (DFA) test is recommended for routine rabies diagnosis. Reverse-transcription polymerase chain reaction (RT-PCR) based diagnostic methods have been widely adapted for the diagnosis of other viral pathogens, but there is currently no widely accepted rapid real-time RT-PCR assay for the detection of all lyssaviruses...
January 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28079984/medical-application-of-glycosaminoglycans-a-review
#12
REVIEW
Alexander Köwitsch, Guoying Zhou, Thomas Groth
The characteristic molecular composition of the different glycosaminoglycans (GAG) is related to their role as structural components and regulators of a multitude of functions of proteins, cells and tissues in the human body. Therefore, it is not surprising that GAG are widely used as coating materials for implants, components of 3D-constructs like tissue engineering scaffolds and hydrogels, but also as diagnostic devices like biosensors and in controlled release applications. Beside a physisorption or encapsulation of GAG, these applications often require their chemical modification to allow a stable covalent attachment on surfaces or cross-linking reactions with other molecules...
January 12, 2017: Journal of Tissue Engineering and Regenerative Medicine
https://www.readbyqxmd.com/read/28077935/development-of-a-microarray-based-method-for-allergen-specific-ige-and-igg4-detection
#13
Guzel Feyzkhanova, Sergei Voloshin, Olga Smoldovskaya, Alla Arefieva, Marina Filippova, Viktor Barsky, Ludmila Pavlushkina, Veronika Butvilovskaya, Alexei Tikhonov, Yuri Reznikov, Alla Rubina
BACKGROUND: sIgE and sIgG4 detection is necessary for more accurate and effective type I hypersensitivity diagnostics and the estimation of disease development. Typically, the analyses of these antibodies are performed separately with the help of various specialized systems. The aim of this study was to develop a microarray-based method for the simultaneous quantitative detection of sIgE and sIgG4 to the most common allergens in a single sample. METHODS: A quantitative method for the simultaneous detection of sIgE and sIgG4 was developed based on the technology of hydrogel microchips previously designed at Engelhardt Institute of Molecular Biology, Russian Academy of Sciences (EIMB RAS)...
2017: Clinical Proteomics
https://www.readbyqxmd.com/read/28077149/plasmodium-falciparum-malaria-co-infection-with-tick-borne-relapsing-fever-in-dakar
#14
Mamadou A Diallo, Baidy S Kane, Mouhamadou Ndiaye, Mouhamed Dieng, Khadim Diongue, Aida S Badiane, Mame Cheikh Seck, Daouda Ndiaye
BACKGROUND: West African tick-borne relapsing fever (TBRF) due to Borrelia crocidurae and malaria are co-endemics in Senegal. Although expected to be high, co-infections are rarely reported. A case of falciparum malaria and B. crocidurae co-infection in a patient from Velingara (South of Senegal) is discussed. CASE: A 28 year-old-male patient presented to Aristide Le Dantec Hospital for recurrent fever. He initially presented to a local post health of Pikine (sub-urban of Dakar) and was diagnosed for malaria on the basis of positive malaria rapid diagnostic test (RDT) specific to Plamodium falciparum...
January 11, 2017: Malaria Journal
https://www.readbyqxmd.com/read/28072974/-clinicopathologic-features-of-mammary-analogue-secretory-carcinoma-of-salivary-glands
#15
X P Zhang, H Ni, X Wang, H Chen, S S Shi, B Yu, X J Zhou, Q Rao
Objective: To investigate the clinicopathological features of mammary analogue secretory carcinoma (MASC) of salivary glands, and its diagnosis, differential diagnosis, immunohistochemistry and molecular pathology. Methods: Seventeen cases of MASC were enrolled, with 9 cases of salivary acinar cell carcinoma and 18 cases of adenoid cystic carcinoma as control groups from Nanjing General Hospital from 1997 to 2014 were included in this retrospective study, combined with immunohistochemistry and molecular detection of ETV6-NTRK3 gene fusion...
January 8, 2017: Zhonghua Bing Li Xue za Zhi Chinese Journal of Pathology
https://www.readbyqxmd.com/read/28068213/utilization-of-size-polymorphism-in-its1-and-its2-regions-for-identification-of-pathogenic-yeast-species
#16
Hossein Khodadadi, Ladan Karimi, Niloufar Jalali-Zand, Hassan Adin, Hossein Mirhendi
Despite the existence of a variety of available yeast identification strategies, easier and more cost-effective methods are required for routine use in clinical laboratories. The internal transcribed spacer (ITS) regions of fungal rRNA genes exhibit variable sizes depending on the yeast species. In the present study, fragment size polymorphism (FSP) analysis of the ITS1 and ITS2 regions for identification of the clinically most important yeast species was assessed. The ITS1 and ITS2 regions of 190 strains, including isolates of 31 standard strains and 159 clinical isolates, were separately PCR-amplified with two primer sets: ITS1-ITS2 and ITS3-ITS4...
January 9, 2017: Journal of Medical Microbiology
https://www.readbyqxmd.com/read/28065665/unbiased-identification-of-blood-based-biomarkers-for-pulmonary-tuberculosis-by-modeling-and-mining-molecular-interaction-networks
#17
Awanti Sambarey, Abhinandan Devaprasad, Abhilash Mohan, Asma Ahmed, Soumya Nayak, Soumya Swaminathan, George D'Souza, Anto Jesuraj, Chirag Dhar, Subash Babu, Annapurna Vyakarnam, Nagasuma Chandra
Efficient diagnosis of tuberculosis (TB) is met with multiple challenges, calling for a shift of focus from pathogen-centric diagnostics towards identification of host-based multi-marker signatures. Transcriptomics offer a list of differentially expressed genes, but cannot by itself identify the most influential contributors to the disease phenotype. Here, we describe a computational pipeline that adopts an unbiased approach to identify a biomarker signature. Data from RNA sequencing from whole blood samples of TB patients were integrated with a curated genome-wide molecular interaction network, from which we obtain a comprehensive perspective of variations that occur in the host due to TB...
February 2017: EBioMedicine
https://www.readbyqxmd.com/read/28057717/pathology-driven-comprehensive-proteomic-profiling-of-the-prostate-cancer-tumour-microenvironment
#18
Lisa Staunton, Claire Tonry, Rosina Lis, Virginia Espina, Lance Liotta, Rosanna Inziatari, Michaela Bowden, Aurelie Fabre, John O'Leary, Stephen P Finn, Massimo Loda, Stephen R Pennington
: Prostate cancer (PCa) is the second most common cancer in men worldwide. Gleason grading is an important predictor of PCa outcomes and is influential in determining patient treatment options. Clinical decisions based on a Gleason score of 7 are difficult as the prognosis for individuals diagnosed with Gleason 4+3 cancer is much worse than for those diagnosed with Gleason 3+4 cancer. Laser capture microdissection (LCM) is a highly precise method to isolate specific cell populations or discrete microregions from tissues...
January 5, 2017: Molecular Cancer Research: MCR
https://www.readbyqxmd.com/read/28057606/diagnostic-approach-to-hemoglobins-with-high-oxygen-affinity-experience-from-france-and-belgium-and-review-of-the-literature
#19
Corentin Orvain, Philippe Joly, Serge Pissard, Stéphanie Badiou, Catherine Badens, Nathalie Bonello-Palot, Nathalie Couque, Béatrice Gulbis, Patricia Aguilar-Martinez
Congenital causes of erythrocytosis are now more easily identified due to the improvement of the molecular characterization of many of them. Among these causes, hemoglobins with high oxygen affinity take a large place. The aim of this work was to reevaluate the diagnostic approach of these disorders. To assess the current practices, we sent a questionnaire to the expert laboratories in the diagnosis of hemoglobinopathies in France and Belgium. In parallel, we gathered the methods used for the diagnosis of the hemoglobins with high oxygen affinity indexed in the international database HbVar...
January 5, 2017: Annales de Biologie Clinique
https://www.readbyqxmd.com/read/28057604/biological-markers-in-the-diagnosis-of-tuberculous-pleural-effusion
#20
Bastien Mollo, Stéphane Jouveshomme, François Philippart, Benoît Pilmis
Tuberculosis is one of the main etiologies to evoke in the context of lymphocyte pleurisy. However, diagnosis is difficult and is based on mycobacteriology that is not enough sensitive and time-consuming, or on histology that requires invasive biopsy gesture. This literature review, carried out from Medline, summarizes the main meta-analyzes, reviews, and originator publications in English on biomarkers, classic and more innovative, studied for the diagnosis of tuberculous pleurisy. Among the immuno-biochemical markers, interferon-γ (IFN-γ), isoenzyme of adenosine deaminase 2 (ADA2) and total adenosine deaminase (ADA) seem the most relevant with respective sensitivities of 89% (87-91), 97...
January 5, 2017: Annales de Biologie Clinique
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