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https://www.readbyqxmd.com/read/28231512/the-impact-of-third-generation-genomic-technologies-on-plant-genome-assembly
#1
REVIEW
Wen-Biao Jiao, Korbinian Schneeberger
Since the introduction of next generation sequencing, plant genome assembly projects do not need to rely on dedicated research facilities or community-wide consortia anymore, even individual research groups can sequence and assemble the genomes they are interested in. However, such assemblies are typically not based on the entire breadth of genomic technologies including genetic and physical maps and their contiguities tend to be low compared to the full-length gold standard reference sequences. Recently emerging third generation genomic technologies like long-read sequencing or optical mapping promise to bridge this quality gap and enable simple and cost-effective solutions for chromosomal-level assemblies...
February 20, 2017: Current Opinion in Plant Biology
https://www.readbyqxmd.com/read/28231263/uniformity-under-in-vitro-conditions-changes-in-the-phenotype-of-cancer-cell-lines-derived-from-different-medulloblastoma-subgroups
#2
Petr Chlapek, Karel Zitterbart, Leos Kren, Lenka Filipova, Jaroslav Sterba, Renata Veselska
Medulloblastoma comprises four main subgroups (WNT, SHH, Group 3 and Group 4) originally defined by transcriptional profiling. In primary medulloblastoma tissues, these groups are thought to be distinguishable using the immunohistochemical detection of β-catenin, filamin A, GAB1 and YAP1 protein markers. To investigate the utility of these markers for in vitro studies using medulloblastoma cell lines, immunoblotting and indirect immunofluorescence were employed for the detection of β-catenin, filamin A, GAB1 and YAP1 in both DAOY and D283 Med reference cell lines and the panel of six medulloblastoma cell lines derived in our laboratory from the primary tumor tissues of known molecular subgroups...
2017: PloS One
https://www.readbyqxmd.com/read/28230908/probiotics-for-people-with-hepatic-encephalopathy
#3
REVIEW
Rohan Dalal, Richard G McGee, Stephen M Riordan, Angela C Webster
BACKGROUND: Hepatic encephalopathy is a disorder of brain function as a result of liver failure or portosystemic shunt or both. Both hepatic encephalopathy (clinically overt) and minimal hepatic encephalopathy (not clinically overt) significantly impair patient's quality of life and daily functioning, and represent a significant burden on healthcare resources. Probiotics are live micro-organisms, which when administered in adequate amounts, may confer a health benefit on the host. OBJECTIVES: To determine the beneficial and harmful effects of probiotics in any dosage, compared with placebo or no intervention, or with any other treatment for people with any grade of acute or chronic hepatic encephalopathy...
February 23, 2017: Cochrane Database of Systematic Reviews
https://www.readbyqxmd.com/read/28230906/evaluation-of-skin-surface-as-an-alternative-source-of-reference-dna-samples-a-pilot-study
#4
Mohammed H Albujja, Abdul Aziz Bin Dukhyil, Abdul Rauf Chaudhary, Ahmed Ch Kassab, Ahmed M Refaat, Saranya Ramesh Babu, Mohammad K Okla, Sachil Kumar
An acceptable area for collecting DNA reference sample is a part of the forensic DNA analysis development. The aim of this study was to evaluate skin surface cells (SSC) as an alternate source of reference DNA sample. From each volunteer (n = 10), six samples from skin surface areas (forearm and fingertips) and two traditional samples (blood and buccal cells) were collected. Genomic DNA was extracted and quantified then genotyped using standard techniques. The highest DNA concentration of SSC samples was collected using the tape/forearm method of collection (2...
February 23, 2017: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/28230569/procedure-oriented-torsional-anatomy-of-the-hand-for-spasticity-injection
#5
Joslyn John, John Cianca, Faye Chiou-Tan, Sindhu Pandit, Erin Furr-Stimming, Katherine H Taber
OBJECTIVES: To provide musculoskeletal ultrasound (MSKUS) images of hand anatomy in the position of hemiparetic flexion as a reference for spasticity injections. After a stroke, spasticity can result in anatomic distortion of the hand. Spasticity may require treatment with botulinum toxin or phenol injections. Anatomic distortion may decrease the accuracy of injections. Standard anatomic references are of limited utility because they are not in this spastic hemiparetic position. There presently is no anatomic reference in the literature for these spastic postures...
February 23, 2017: Journal of Computer Assisted Tomography
https://www.readbyqxmd.com/read/28230344/fully-automatic-in-syringe-magnetic-stirring-assisted-dispersive-liquid-liquid-microextraction-hyphenated-to-high-temperature-torch-integrated-sample-introduction-system-inductively-coupled-plasma-spectrometer-with-direct-analysis-of-the-organic-phase
#6
Raquel Sanchez, Burkhard Horstkotte, Katerina Fikarova, Hana Sklenářová, Salvador Maestre, Manuel Miró, José Luis Todoli
A proof of concept study involving the on-line coupling of automatic dispersive liquid-liquid microextraction (DLLME) to ICP OES with direct introduction and analysis of the organic extract is herein reported for the first time. The flow-based analyzer features a Lab-In-Syringe (LIS) setup with an integrated stirring system, a Meinhard® nebulizer in combination with a heated single-pass spray chamber, and a rotary injection valve, used as on-line interface between the microextraction system and the detection instrument...
February 23, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28229911/diagnostic-accuracy-of-carotid-intima-media-thickness-in-predicting-coronary-plaque-burden-on-coronary-computed-tomography-angiography-in-patients-with-obstructive-sleep-apnoea
#7
David J Murphy, Sophie J Crinion, Ciaran E Redmond, Gerard M Healy, Walter T McNicholas, Silke Ryan, Jonathan D Dodd
AIM: To assess the diagnostic accuracy of common carotid artery intima media thickness (CIMT) for coronary artery disease (CAD) detection in patients with obstructive sleep apnoea (OSA). MATERIALS & METHODS: Patients with clinically suspected OSA prospectively underwent polysomnography (PSG), ultrasound CIMT measurement and coronary computed tomography angiography (CTA). An average CIMT of ≥0.9 mm in either common carotid artery designated as a positive test...
February 11, 2017: Journal of Cardiovascular Computed Tomography
https://www.readbyqxmd.com/read/28229462/harmonization-of-nucleic-acid-testing-for-zika-virus-development-of-the-1-st-world-health-organization-international-standard
#8
Sally A Baylis, Kay-Martin O Hanschmann, Barbara S Schnierle, Jan-Hendrik Trösemeier, Johannes Blümel
BACKGROUND: With the ongoing public health emergency due to Zika virus (ZIKV), nucleic acid testing (NAT) is essential for clinical diagnosis and screening of blood donors. However, NAT for ZIKV has not been standardized, and this study was performed to establish a World Health Organization (WHO) International Standard (IS) for ZIKV RNA; WHO ISs have been used to improve detection and quantification of blood-borne viruses. STUDY DESIGN AND METHODS: The candidate IS (cIS), code number 11468/16, was prepared by heat inactivation and lyophilization of a ZIKV strain isolated from a patient in French Polynesia in 2013...
February 23, 2017: Transfusion
https://www.readbyqxmd.com/read/28229316/utility-of-the-elf-test-for-detecting-steatohepatitis-in-morbid-obese-patients-with-suspicion-of-nonalcoholic-fatty-liver-disease
#9
Iria Cebreiros López, Florentina Guzmán Aroca, Maria Dolores Frutos Bernal, Juan Antonio Luján Mompeán, Águeda Bas Bernal, Antonio Miguel Hernández Martínez, Enrique Martínez Barba, Jose Antonio Noguera Velasco, Pascual Parilla Paricio
BACKGROUND: Morbid obese patients have a high rate of nonalcoholic fatty liver disease (NAFLD) and nonalcoholic steatohepatitis (NASH). NASH is related to the progression and poor evolution of chronic hepatopathy in NAFLD, so that its detection makes it possible to identify the subjects who are most at risk in order to prioritize treatment. The ELF test (Enhanced Liver Fibrosis test; Siemens Diagnostics, NY, USA) has been assessed for its capacity to detect fibrosis in patients with NAFLD, but its capacity for diagnosing NASH has not been checked...
February 22, 2017: Obesity Surgery
https://www.readbyqxmd.com/read/28229191/-18-f-fdg-pet-ct-imaging-versus-bone-marrow-biopsy-in-pediatric-hodgkin-s-lymphoma-a-quantitative-assessment-of-marrow-uptake-and-novel-insights-into-clinical-implications-of-marrow-involvement
#10
Aamna Hassan, Maimoona Siddique, Humayun Bashir, Saima Riaz, Rabia Wali, Asma Mahreen, M Khalid Nawaz
OBJECTIVE: To evaluate whether positron emission tomography/computed tomography using fluorine-18 fluoro-deoxyglucose ((18)F-FDG PET-CT) predicts bone marrow involvement (BMI) in pediatric Hodgkin's lymphoma (pHL) with sufficient accuracy to supplant routine staging bone marrow biopsy (BMB), and to assess the clinical importance of marrow disease by comparing the prognosis of stage IV HL with BMI versus that without BMI. METHODS: Data were retrospectively analyzed for all cases of pHL between July 2010 and June 2015 referred for staging (18)F-FDG PET-CT scan and BMB...
February 22, 2017: European Journal of Nuclear Medicine and Molecular Imaging
https://www.readbyqxmd.com/read/28229115/data-on-the-auditory-duration-mismatch-negativity-for-different-sound-pressure-levels-and-visual-perceptual-loads
#11
Stefan Wiens, Malina Szychowska, Rasmus Eklund, Mats E Nilsson
The data presented in this article are related to our research article entitled "Effects of sound pressure level and visual perceptual load on the auditory mismatch negativity" (M. Szychowska, R. Eklund, M.E. Nilsson, S. Wiens, 2016) [1]. The duration MMN was recorded at three sound pressure levels (SPLs) during two levels of visual perceptual load. In an oddball paradigm (standard=75 ms, deviant=30 ms, within-subjects design), participants were presented with tones at 56, 66, or 76 dB SPL (between-subjects design)...
April 2017: Data in Brief
https://www.readbyqxmd.com/read/28229053/large-artery-stiffness-assessment-using-sphygmocor-technology
#12
REVIEW
Mark Butlin, Ahmad Qasem
Large artery stiffness assessment has been an integral part of the SphygmoCor technology since 1998. Aortic stiffness is approximated with non-invasive measurement of carotid-femoral pulse wave velocity, with improvements made with time to make the assessment procedure quicker and more user independent. Also standard in the devices is the ability to reliably calculate the central aortic waveform shape from a peripheral pressure waveform from either the brachial or radial artery. This waveform contains much information beyond peak and trough (systolic and diastolic pressure)...
January 2017: Pulse (Basel, Switzerland)
https://www.readbyqxmd.com/read/28228889/application-of-hong-s-technique-for-removal-of-stuck-hemodialysis-tunneled-catheter-to-pacemaker-leads
#13
Chaudhry Adeel Ebad, Stephen Davitt, Ramal Gnanasekaran, Amjad Khan, Anne-Marie Moran
The term "stuck catheter" refers to situations where a central venous catheter cannot be removed from the central veins or right atrium using standard technique, usually due to development of a fibrin sheath leading to adherence to SVC or right atrial wall. Endoluminal dilatation is an interventional radiology technique that has been previously reported in the removal of stuck hemodialysis catheters, and to the best of our knowledge, this case describes the first application of the technique to remove a hemodialysis catheter that was adherent to SVC wall and transvenous pacemaker leads...
March 2017: Radiology case reports
https://www.readbyqxmd.com/read/28228493/hepatitis-e-virus-detection-and-quantification-by-an-rt-qpcr-assay-calibrated-to-the-world-health-organization-standard-for-hev-rna
#14
Jeffrey J Germer, Irina Ankoudinova, Yevgeniy S Belousov, Walt Mahoney, Chen Dong, Jihong Meng, Jayawant N Mandrekar, Joseph D Yao
Hepatitis E virus (HEV) has emerged as a cause of chronic hepatitis among immunocompromised patients. Molecular assays have become important tools for the diagnosis and management of these chronically-infected patients. A reverse transcription, real-time PCR (RT-qPCR) assay utilizing Pleiades probe chemistry and an RNA internal control for simultaneous detection and quantification of HEV RNA in human serum was developed based on adaptation of a previously described and broadly reactive primer set targeting the overlapping open reading frame (ORF) 2/3 nucleotide sequence of HEV...
February 22, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28228197/the-fundamentals-of-resident-dismissal
#15
Paul J Schenarts, Sean Langenfeld
Residents have the rights and responsibilities of both students and employees. Dismissal of a resident from a training program is traumatic and has lasting repercussions for the program director, the faculty, the dismissed resident, and the residency. A review of English language literature was performed using PUBMED and OVID databases, using the search terms, resident dismissal, resident termination, student dismissal, student and resident evaluation, legal aspects of education, and remediation. The references of each publication were also reviewed to identify additional appropriate citations...
February 1, 2017: American Surgeon
https://www.readbyqxmd.com/read/28228055/increased-enoxaparin-dosing-for-venous-thromboembolism-prophylaxis-in-general-trauma-patients
#16
Cheri K Walker, Elizabeth A Sandmann, Taylor J Horyna, Mark A Gales
OBJECTIVE: To review the evidence regarding increased enoxaparin dosing for venous thromboembolism (VTE) prophylaxis in the general trauma patient population. DATA SOURCES: A search of MEDLINE databases (1946 to October 2016) was conducted using the search terms enoxaparin, thromboembolism prophylaxis, venous thromboembolism, trauma, anti-factor Xa, and weight-based dosing. Additional references were identified from a review of literature citations. STUDY SELECTION AND DATA EXTRACTION: Search results were limited to English-language studies conducted in humans...
April 2017: Annals of Pharmacotherapy
https://www.readbyqxmd.com/read/28228026/general-technique-for-analytical-derivatives-of-post-projected-hartree-fock
#17
Takashi Tsuchimochi, Seiichiro Ten-No
In electronic structure theory, the availability of an analytical derivative is one of the desired features for a method to be useful in practical applications, as it allows for geometry optimization as well as computation of molecular properties. With the recent advances in the development of symmetry-projected Hartree-Fock (PHF) methods, we here aim at further extensions by devising the analytic gradients of post-PHF approaches with a special focus on spin-extended (spin-projected) configuration interaction with single and double substitutions (ECISD)...
February 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28227985/a-multi-criteria-evaluation-platform-for-segmentation-algorithms
#18
Pierre Laurent, Thierry Cresson, Carlos Vazquez, Nicola Hagemeister, Jacques A de Guise, Pierre Laurent, Thierry Cresson, Carlos Vazquez, Nicola Hagemeister, Jacques A de Guise, Thierry Cresson, Carlos Vazquez, Nicola Hagemeister, Jacques A de Guise, Pierre Laurent
The purpose of this paper is to present a platform for evaluating segmentation algorithms that detect anatomical structures in medical images. Structure detection being subject to human interpretation, we first describe a method to define a ground truth model, i.e. a generated bronze standard, that will be the reference for subsequent analysis. This bronze standard will be characterized in order to retrieve its confidence level that will later be used to normalize the algorithm evaluation. We then describe how the developed platform helps in evaluating algorithm performances described using five evaluation criteria: accuracy, reliability, robustness, under/over segmentation sensitivity and outlier sensitivity...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227953/in-vivo-characterization-of-a-versatile-8-channel-digital-biopotential-recording-system-with-sub-%C3%AE-vrms-input-noise
#19
Oscar F Cota, Dennis Plachta, Thomas Stieglitz, Sarath Kundumattathil, Yiannos Manoli, Matthias Kuhl, Oscar F Cota, Dennis Plachta, Thomas Stieglitz, Sarath Kundumattathil, Yiannos Manoli, Matthias Kuhl, Thomas Stieglitz, Dennis Plachta, Matthias Kuhl, Oscar F Cota, Yiannos Manoli, Sarath Kundumattathil
This work presents the design and testing of an integrated 8-channel CMOS biopotential recording chip, consisting of low-noise input stages, tunable second stage, a multiplexer, and two analog-to-digital converters (ADC). Through its variable supply concept, the integrated input-referred noise of the first stage is selectable from 1.5 down to 0.63 μVRMS (ISS = 200 μA), which is superior to standard laboratory recording systems. The device features variable lower and upper corner frequencies, and outputs two digital 16-bit data streams at 62...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227949/wrist-worn-heartbeat-monitoring-system-based-on-bio-impedance-analysis
#20
Jia Xu, Xiaomeng Gao, Alexander Lee, Shuhei Yamada, Ehsan Yavari, Victor Lubecke, Olga Boric-Lubecke, Jia Xu, Xiaomeng Gao, Alexander Lee, Shuhei Yamada, Ehsan Yavari, Victor Lubecke, Olga Boric-Lubecke, Olga Boric-Lubecke, Xiaomeng Gao, Shuhei Yamada, Ehsan Yavari, Jia Xu, Victor Lubecke, Alexander Lee
In this paper, a bio-impedance analysis (BIA) based wrist-worn heartbeat monitoring system is proposed. The system is able to estimate heart rate from a subject's wrist with only four electrodes. The design is achieved with a standard BIA device and off-the-shelf components for signal conditioning. The measured heartbeat-related impedance signal is compared with a reference heart rate signal obtained from piezoelectric finger pulse transducer. The BIA results agree with the reference, which validates the feasibility of the proposed system...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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