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https://www.readbyqxmd.com/read/29163915/field-deployable-quantitative-rapid-identification-of-active-ebola-virus-infection-in-unprocessed-blood
#1
Kavit Shah, Emma Bentley, Adam Tyler, Kevin S R Richards, Edward Wright, Linda Easterbrook, Diane Lee, Claire Cleaver, Louise Usher, Jane E Burton, James K Pitman, Christine B Bruce, David Edge, Martin Lee, Nelson Nazareth, David A Norwood, Sterghios A Moschos
The West African Ebola virus outbreak underlined the importance of delivering mass diagnostic capability outside the clinical or primary care setting in effectively containing public health emergencies caused by infectious disease. Yet, to date, there is no solution for reliably deploying at the point of need the gold standard diagnostic method, real time quantitative reverse transcription polymerase chain reaction (RT-qPCR), in a laboratory infrastructure-free manner. In this proof of principle work, we demonstrate direct performance of RT-qPCR on fresh blood using far-red fluorophores to resolve fluorogenic signal inhibition and controlled, rapid freeze/thawing to achieve viral genome extraction in a single reaction chamber assay...
November 1, 2017: Chemical Science
https://www.readbyqxmd.com/read/29163118/semi-automated-anatomical-labeling-and-inter-subject-warping-of-high-density-intracranial-recording-electrodes-in-electrocorticography
#2
Liberty S Hamilton, David L Chang, Morgan B Lee, Edward F Chang
In this article, we introduce img_pipe, our open source python package for preprocessing of imaging data for use in intracranial electrocorticography (ECoG) and intracranial stereo-EEG analyses. The process of electrode localization, labeling, and warping for use in ECoG currently varies widely across laboratories, and it is usually performed with custom, lab-specific code. This python package aims to provide a standardized interface for these procedures, as well as code to plot and display results on 3D cortical surface meshes...
2017: Frontiers in Neuroinformatics
https://www.readbyqxmd.com/read/29162012/meeting-report-tissue-based-image-analysis
#3
Chandra Saravanan, Vanessa Schumacher, Danielle Brown, Robert Dunstan, Jean-Rene Galarneau, Marielle Odin, Sasmita Mishra
Quantitative image analysis (IA) is a rapidly evolving area of digital pathology. Although not a new concept, the quantification of histological features on photomicrographs used to be cumbersome, resource-intensive, and limited to specialists and specialized laboratories. Recent technological advances like highly efficient automated whole slide digitizer (scanner) systems, innovative IA platforms, and the emergence of pathologist-friendly image annotation and analysis systems mean that quantification of features on histological digital images will become increasingly prominent in pathologists' daily professional lives...
October 2017: Toxicologic Pathology
https://www.readbyqxmd.com/read/29158151/a-novel-liquid-media-mycobacteria-extraction-method-for-maldi-tof-ms-identification-using-vitek%C3%A2-ms
#4
Erik Moreno, Eric Miller, Elizabeth Miller, Heather Totty, Parampal Deol
A low-cost identification method that can be performed directly from a positive liquid medium culture is needed for the diagnosis of mycobacterial infections. Here, we describe a novel, cost-effective, and validated method that allows for direct and rapid identification of mycobacteria from a positive liquid culture using VITEK® MS with a total process duration under 45min. From a liquid mycobacteria culture a 3.0mL aliquot is removed 24-72h post positivity and centrifuged to create a pellet. After decanting, the tube is blotted dry, the pellet is re-suspended in 0...
November 17, 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/29153028/annals-express-development-of-a-simple-indocyanine-green-measurement-method-using-an-automated-biochemical-analyzer
#5
Yuka Sato, Masanori Seimiya, Toshihiko Yoshida, Yuji Sawabe, Eisaku Hokazono, Susumu Osawa, Kazuyuki Matsushita
Background The indocyanine green (ICG) retention rate is important for assessing the severity of liver disorders. In the conventional method, blood needs to be collected twice. In the present study, we developed an automated ICG method that does not require blood sampling before intravenous ICG injections and is applicable to an automated biochemical analyzer. Methods The sera of 471 patients collected before and after intravenous ICG injections and submitted to the clinical laboratory of our hospital were used as samples...
January 1, 2017: Annals of Clinical Biochemistry
https://www.readbyqxmd.com/read/29150102/evaluation-of-criteria-of-manual-blood-smear-review-following-automated-complete-blood-counts-in-a-large-university-hospital
#6
Samuel Ricardo Comar, Mariester Malvezzi, Ricardo Pasquini
BACKGROUND: There is great interest in reducing the number of automated complete blood counts requiring manual blood smear reviews without sacrificing the quality of patient care. This study was aimed at evaluating and establishing appropriate screening criteria for manual blood smear reviews to improve the performance in a hematology laboratory. METHOD: A total of 1977 consecutive samples from the daily workload were used to evaluate four sets of screening criteria for manual blood smear reviews to identify samples with positive smear findings...
October 2017: Revista Brasileira de Hematologia e Hemoterapia
https://www.readbyqxmd.com/read/29149735/carbamazepine-lamotrigine-levetiracetam-and-valproic-acid-in-dried-blood-spots-with-liquid-chromatography-tandem-mass-spectrometry-method-development-and-validation
#7
Camilla Linder, Anna Hansson, Sara Sadek, Lars L Gustafsson, Anton Pohanka
Monitoring of antiepileptic drugs in children with epilepsy require multiple visits at a clinic for blood collection. Dried blood spot sampling is an alternative way of collection, performed at home by self-collection and can save time and costs for patients and family members. The aim was to develop and validate an LC-MS/MS dried blood spot method for carbamazepine, lamotrigine, levetiracetam and valproic acid with the requirements of using standard equipment and material in a routine laboratory setting. Whatman-903 filter paper was utilized, and discs were punched into a 96 well plate with an automated puncher and barcode reading...
November 4, 2017: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
https://www.readbyqxmd.com/read/29146920/andy-s-algorithms-new-automated-digital-image-analysis-pipelines-for-fiji
#8
Andrew M K Law, Julia X M Yin, Lesley Castillo, Adelaide I J Young, Catherine Piggin, Samuel Rogers, Catherine Elizabeth Caldon, Andrew Burgess, Ewan K A Millar, Sandra A O'Toole, David Gallego-Ortega, Christopher J Ormandy, Samantha R Oakes
Quantification of cellular antigens and their interactions via antibody-based detection methods are widely used in scientific research. Accurate high-throughput quantitation of these assays using general image analysis software can be time consuming and challenging, particularly when attempted by users with limited image processing and analysis knowledge. To overcome this, we have designed Andy's Algorithms, a series of automated image analysis pipelines for FIJI, that permits rapid, accurate and reproducible batch-processing of 3,3'-diaminobenzidine (DAB) immunohistochemistry, proximity ligation assays (PLAs) and other common assays...
November 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29145785/adenosine-deaminase-activity-in-pig-saliva-analytical-validation-of-two-spectrophotometric-assays
#9
Fernando Tecles, Camila P Rubio, María D Contreras-Aguilar, Marina López-Arjona, Silvia Martínez-Miró, Silvia Martínez-Subiela, José J Cerón
We validated 2 assays for the measurement of adenosine deaminase (ADA) activity in the saliva of pigs: the Giusti-Galanti manual method (ADA-GG) and a commercial automated assay (Diazyme Laboratories; ADA-D). Intra-assay coefficients of variation (CVs) were <7 and 9%, and interassay CVs were <12 and 5%, for ADA-GG and ADA-D, respectively. Accuracy was measured by 2 methods: recovery and linearity-under-dilution. Recovery was 82.4-106.8% for ADA-GG, and 92.8-107.9% for ADA-D. Serial dilutions showed R(2) > 0...
November 1, 2017: Journal of Veterinary Diagnostic Investigation
https://www.readbyqxmd.com/read/29140977/low-cost-and-open-source-multi-fluorescence-imaging-system-for-teaching-and-research-in-biology-and-bioengineering
#10
Isaac Nuñez, Tamara Matute, Roberto Herrera, Juan Keymer, Timothy Marzullo, Timothy Rudge, Fernán Federici
The advent of easy-to-use open source microcontrollers, off-the-shelf electronics and customizable manufacturing technologies has facilitated the development of inexpensive scientific devices and laboratory equipment. In this study, we describe an imaging system that integrates low-cost and open-source hardware, software and genetic resources. The multi-fluorescence imaging system consists of readily available 470 nm LEDs, a Raspberry Pi camera and a set of filters made with low cost acrylics. This device allows imaging in scales ranging from single colonies to entire plates...
2017: PloS One
https://www.readbyqxmd.com/read/29140880/high-risk-human-papillomavirus-determination-in-formalin-fixed-paraffin-embedded-cervical-tissue-using-the-roche-cobas-4800-system-a-comparative-study-with-liquid-based-cytology
#11
Juan C Tardío, Olivia Cambero, Carolina Sánchez-Estévez, Ana B Sánchez-García, Fernando Angulo, Amalia Moreno
Roche cobas 4800 human papillomavirus (HPV) test is an automated real-time polymerase chain reaction-based system that allows the simultaneous detection of 14 human papillomavirus high-risk (HR-HPV) genotypes. This test is Food and Drug Administration approved since 2011 for HPV determination in liquid-based cytologic samples, but a clinically validated technique for formalin-fixed, paraffin-embedded (FFPE) tissue specimens is presently not commercially available. In our laboratory, we have developed an HPV detection procedure in FFPE tissue by cobas 4800 HPV test...
November 14, 2017: International Journal of Gynecological Pathology
https://www.readbyqxmd.com/read/29140404/evaluation-of-opportunities-to-improve-hematopathology-diagnosis-for-vietnam-pathologists
#12
Vanessa Dayton, Chi Kim Nguyen, Trinh Thu Van, Nguyen Van Thanh, Ta Van To, Nguyen Phi Hung, Nguyen Ngoc Dung, Danny A Milner
Objectives: We evaluate the need for, feasibility of, and impediments to improving hematopathology diagnoses for cancer hospitals in Vietnam. Methods: Two hematopathologists from the United States visited three major cancer treatment hospitals in Vietnam to workshop a sampling of difficult hematopathology cases. With Vietnamese pathologists, they toured histopathology, immunohistochemistry, and ancillary laboratory facilities. Results: Automated tissue processors and slide staining equipment were documented for each of the three hospitals...
November 11, 2017: American Journal of Clinical Pathology
https://www.readbyqxmd.com/read/29135992/internal-quality-assurance-in-diagnostic-microbiology-a-simple-approach-for-insightful-data
#13
Valentin Scherz, Christian Durussel, Gilbert Greub
Given the importance of microbiology results on patient care, high quality standards are expected. Internal quality assurance (IQA) could mitigate the limitations of internal quality control, competency assessment and external quality assurance, adding a longitudinal insight, including pre- and post-analytical steps. Here, we implemented an IQA program in our clinical microbiology facilities with blind resubmission of routine samples during 22 months. One-hundred-and-twenty-one out of 123 (98.4%) serological analyses and 112 out of 122 (91...
2017: PloS One
https://www.readbyqxmd.com/read/29134742/innovative-technologies-for-point-of-care-testing-of-viral-hepatitis%C3%A2-in-low-resource-and-decentralized-settings
#14
Léa Duchesne, Karine Lacombe
According to the Global Burden of Diseases, chronic viral hepatitis B and C are one of the most challenging global health conditions that rank among the first causes of morbidity and mortality worldwide. Low and middle income countries are particularly affected by the health burden associated with HBV or HCV infection. One major gap in efficiently addressing the issue of viral hepatitis is universal screening. However, the costs and chronic lack of human resources for using traditional screening strategies based on serology and molecular biology preclude any scaling-up...
November 13, 2017: Journal of Viral Hepatitis
https://www.readbyqxmd.com/read/29134129/comparison-of-clinical%C3%A2-laboratory-standards-institute-standards-in-antimicrobial-susceptibility-among-the-carbapenemase-producing-enterobacteriaceae
#15
Fidelis Enyinnaya, Patricia Cruz, Mark P Buttner, Chad Cross, David R Woodard
Aim: Carbapenems are antibiotics reserved for treatment of severe infections. Carbapenem antimicrobial susceptibility testing profiles were determined in a population of Klebsiella pneumoniae, and their resistance assessed based on previous and current Clinical and Laboratory Standards Institute criteria. Materials & methods: Isolates were examined using an automated antimicrobial susceptibility testing method, and real time polymerase chain reaction to detect the resistance (blaKPC) gene...
November 2017: Future Science OA
https://www.readbyqxmd.com/read/29132926/molecular-epidemiology-of-%C3%AE-lactamase-production-in-penicillin-susceptible-staphylococcus-aureus-under-high-susceptibility-conditions
#16
Takashi Matono, Maki Nagashima, Kazuhisa Mezaki, Ayano Motohashi, Satoshi Kutsuna, Kayoko Hayakawa, Norio Ohmagari, Mitsuo Kaku
Little is known about the prevalence of β-lactamase production in penicillin-susceptible Staphylococcus aureus isolates under high-susceptibility conditions. We analyzed S. aureus isolates with penicillin G minimum inhibitory concentration (MIC) ≤ 0.12 μg/ml that were recovered from in-/outpatients (n = 108) between 2016 and 2017 in Japan. β-Lactamase production was detected by nitrocefin-based and Clinical and Laboratory Standards Institute penicillin zone edge testing and blaZ PCR. All isolates were categorized as having penicillin G MIC ≤0...
November 10, 2017: Journal of Infection and Chemotherapy: Official Journal of the Japan Society of Chemotherapy
https://www.readbyqxmd.com/read/29132744/-morphometry-of-pulmonary-tissue-from-manual-to-high-throughput-automation
#17
C Sallon, D Soulet, Y Tremblay
Weibel's research has shown that any alteration of the pulmonary structure has effects on function. This demonstration required a quantitative analysis of lung structures called morphometry. This is possible thanks to stereology, a set of methods based on principles of geometry and statistics. His work has helped to better understand the morphological harmony of the lung, which is essential for its proper functioning. An imbalance leads to pathophysiology such as chronic obstructive pulmonary disease in adults and bronchopulmonary dysplasia in neonates...
November 10, 2017: Revue des Maladies Respiratoires
https://www.readbyqxmd.com/read/29131538/flexible-and-accessible-automated-operation-of-miniature-chromatography-columns-on-a-liquid-handling-station
#18
Spyridon Konstantinidis, Hai-Yuan Goh, José Mauricio Martin Bufájer, Paul de Galbert, Maria Parau, Ajoy Velayudhan
The High Throughput (HT) investigation of chromatographic separations is an important element of downstream bioprocess development due to the importance of chromatography as a technique for achieving stringent regulatory requirements on product purity. Various HT formats for chromatography exist, but the miniature column approach has characteristics resembling large scale packed bed column chromatography the most. The operation of such columns on robotic stations can be automated, but this is not always a straightforward procedure; the robotic manipulations are highly dependent on the settings of each experiment and the standard commands of the supporting software may not provide readily the required flexibility and accessibility for 'plug and play' functionality...
November 13, 2017: Biotechnology Journal
https://www.readbyqxmd.com/read/29128077/automated-analysis-of-clinical-flow-cytometry-data-a-chronic-lymphocytic-leukemia-illustration
#19
REVIEW
Richard H Scheuermann, Jack Bui, Huan-You Wang, Yu Qian
Flow cytometry is used in cell-based diagnostic evaluation for blood-borne malignancies including leukemia and lymphoma. The current practice for cytometry data analysis relies on manual gating to identify cell subsets in complex mixtures, which is subjective, labor-intensive, and poorly reproducible. This article reviews recent efforts to develop, validate, and disseminate automated computational methods and pipelines for cytometry data analysis that could help overcome the limitations of manual analysis and provide for efficient and data-driven diagnostic applications...
December 2017: Clinics in Laboratory Medicine
https://www.readbyqxmd.com/read/29124905/rapid-and-simple-detection-of-foot-and-mouth-disease-virus-evaluation-of-a-cartridge-based-molecular-detection-system-for-use-in-basic-laboratories
#20
K V Goller, V Dill, M Madi, P Martin, Y Van der Stede, V Vandenberge, B Haas, S Van Borm, F Koenen, C J Kasanga, N Ndusilo, M Beer, L Liu, V Mioulet, B Armson, D P King, V L Fowler
Highly contagious transboundary animal diseases such as foot-and-mouth disease (FMD) are major threats to the productivity of farm animals. To limit the impact of outbreaks and to take efficient steps towards a timely control and eradication of the disease, rapid and reliable diagnostic systems are of utmost importance. Confirmatory diagnostic assays are typically performed by experienced operators in specialized laboratories, and access to this capability is often limited in the developing countries with the highest disease burden...
November 9, 2017: Transboundary and Emerging Diseases
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