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https://www.readbyqxmd.com/read/28225594/mass-spectral-feature-list-optimizer-ms-flo-a-tool-to-minimize-false-positive-peak-reports-in-untargeted-lc-ms-data-processing
#1
Brian C Defelice, Sajjan Singh Mehta, Stephanie Samra, Tomas Cajka, Benjamin Wancewicz, Johannes F Fahrmann, Oliver Fiehn
Untargeted metabolomics by liquid chromatography-mass spectrometry generates data rich chromatograms in form of m/z-retention time features. Managing such datasets is a bottleneck. Many popular data processing tools, including XCMS-online and MZmine2, yield numerous false positive peak detections. Flagging and removing such false peaks manually is a time consuming task and prone to human error. We present a web application, MS Feature List Optimizer (MS-FLO), to improve the quality of feature lists after initial processing to expedite the process of data curation...
February 22, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28225259/one-step-ligand-immobilization-and-single-sample-injection-for-regeneration-free-surface-plasmon-resonance-measurements-of-biomolecular-interactions
#2
Xiaoying Wang, Zhiqiang Li, Nguyen Ly, Feimeng Zhou
Surface plasmon resonance (SPR) has been well established as a method of choice for label-free kinetic measurements of biomolecular interactions. The conventional approach involves multiple injections of an analyte of different concentrations into a fluidic channel covered with a fixed ligand density. Optimization of the experimental conditions and assessment of the data quality can be complicated by issues such as disruption of the ligand structure by the regeneration step and limited availability of the sample solution...
February 22, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28223349/identification-of-antibody-targets-for-tuberculosis-serology-using-high-density-nucleic-acid-programmable-protein-arrays
#3
Lusheng Song, Garrick Wallstrom, Xiaobo Yu, Marika Hopper, Jennifer Van Duine, Jason Steel, Jin Park, Peter Wiktor, Peter Khan, Al Brunner, Douglas Wilson, Elizabeth R Jenny-Avital, Ji Qiu, Joshua LaBaer, D Mitchell Magee, Jacqueline M Achkar
Better and more diverse biomarkers for the development of simple point-of-care tests for active tuberculosis (TB), a clinically heterogeneous disease, are urgently needed. We generated a proteomic Mycobacterium tuberculosis (Mtb) High-Density Nucleic Acid Programmable Protein Array (HD-NAPPA) that used a novel multiplexed strategy for expedited high-throughput screening for antibody responses to the Mtb proteome. We screened sera from HIV uninfected and co-infected TB patients and controls (n = 120) from the US and South Africa (SA) using the multiplex HD-NAPPA for discovery, followed by deconvolution and validation through single protein HD-NAPPA with biologically independent samples (n=124)...
February 21, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28222055/ex-situ-perfusion-of-human-limb-allografts-for-24-hours
#4
Nicole L Werner, Fares Alghanem, Stephanie L Rakestraw, Dylan C Sarver, Bruce Nicely, Richard E Pietroski, Paul Lange, Steven M Rudich, Christopher L Mendias, Alvaro Rojas-Pena, John C Magee, Robert H Bartlett, Kagan Ozer
BACKGROUND: Vascularized composite allografts, particularly hand and forearm, have limited ischemic tolerance after procurement. In bilateral hand transplantations, this demands a 2 team approach and expedited transfer of the allograft, limiting the recovery to a small geographic area. Ex situ perfusion may be an alternative allograft preservation method to extend allograft survival time. This is a short report of 5 human limbs maintained for 24 hours with ex situ perfusion. METHODS: Upper limbs were procured from brain-dead organ donors...
March 2017: Transplantation
https://www.readbyqxmd.com/read/28221357/direct-assembly-of-multiply-oxygenated-carbon-chains-by-decarbonylative-radical-radical-coupling-reactions
#5
Kengo Masuda, Masanori Nagatomo, Masayuki Inoue
Pentoses and hexoses contain more than three oxygen-bearing stereocentres and are ideal starting materials for the synthesis of multiply oxygenated natural products such as sagittamide D, maitotoxin and hikizimycin. Here we demonstrate new radical-radical homocoupling reactions of sugar derivatives with minimal perturbation of their chiral centres. The radical exchange procedure using Et3B/O2 converted sugar-derived α-alkoxyacyl tellurides into α-alkoxy radicals via decarbonylation and rapidly dimerized the monomeric radicals...
March 2017: Nature Chemistry
https://www.readbyqxmd.com/read/28220892/epigenetic-determinants-of-space-radiation-induced-cognitive-dysfunction
#6
Munjal M Acharya, Al Anoud D Baddour, Takumi Kawashita, Barrett D Allen, Amber R Syage, Thuan H Nguyen, Nicole Yoon, Erich Giedzinski, Liping Yu, Vipan K Parihar, Janet E Baulch
Among the dangers to astronauts engaging in deep space missions such as a Mars expedition is exposure to radiations that put them at risk for severe cognitive dysfunction. These radiation-induced cognitive impairments are accompanied by functional and structural changes including oxidative stress, neuroinflammation, and degradation of neuronal architecture. The molecular mechanisms that dictate CNS function are multifaceted and it is unclear how irradiation induces persistent alterations in the brain. Among those determinants of cognitive function are neuroepigenetic mechanisms that translate radiation responses into altered gene expression and cellular phenotype...
February 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28220851/first-evidence-of-denitrification-vis-%C3%A3-vis-monsoon-in-the-arabian-sea-since-late-miocene
#7
Shubham Tripathi, Manish Tiwari, Jongmin Lee, Boo-Keun Khim
In the Arabian Sea, South Asian monsoon (SAM)-induced high surface water productivity coupled with poor ventilation of intermediate water results in strong denitrification within the oxygen minimum zone (OMZ). Despite the significance of denitrification in the Arabian Sea, we have no long-term record of its evolution spanning the past several million years. Here, we present the first record of denitrification evolution since Late Miocene (~10.2 Ma) in the Eastern Arabian Sea, where the SAM generates moderate surface water productivity, based on the samples retrieved during the International Ocean Discovery Program (IODP) Expedition 355...
February 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28220112/predominance-of-viable-spore-forming-piezophilic-bacteria-in-high-pressure-enrichment-cultures-from-1-5-to-2-4-km-deep-coal-bearing-sediments-below-the-ocean-floor
#8
Jiasong Fang, Chiaki Kato, Gabriella M Runko, Yuichi Nogi, Tomoyuki Hori, Jiangtao Li, Yuki Morono, Fumio Inagaki
Phylogenetically diverse microorganisms have been observed in marine subsurface sediments down to ~2.5 km below the seafloor (kmbsf). However, very little is known about the pressure-adapted and/or pressure-loving microorganisms, the so called piezophiles, in the deep subseafloor biosphere, despite that pressure directly affects microbial physiology, metabolism, and biogeochemical processes of carbon and other elements in situ. In this study, we studied taxonomic compositions of microbial communities in high-pressure incubated sediment, obtained during the Integrated Ocean Drilling Program (IODP) Expedition 337 off the Shimokita Peninsula, Japan...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28219601/syndrome-of-inappropriate-anti-diuretic-hormone-secretion-secondary-to-strongyloides-stercoralis-infection-in-an-allogeneic-stem-cell-transplant-patient-a-case-report-and-literature-review
#9
M Khushman, M I Morris, L Diaz, M Goodman, D Pereira, K Fuller, M Garcia-Buitrago, B Moshiree, S Zelaya, A Nayer, C L Benjamin, K V Komanduri
Syndrome of inappropriate anti-diuretic hormone (SIADH) has been reported to be associated with systemic Strongyloides stercoralis. Here, we report a case of a stem cell transplant (SCT) recipient who developed severe SIADH secondary to systemic S Stercoralis. The SIADH resolved quickly after treating the systemic S Stercoralis with ivermectin. A systematic review of the literature was performed by PubMed, Scopus, and Cochrane database search. Only eight cases of S Stercoralis in allogeneic SCT recipients have been previously reported...
March 2017: Transplantation Proceedings
https://www.readbyqxmd.com/read/28218728/compliment-graphene-oxide-coating-on-silk-fiber-surface-via-electrostatic-force-for-capacitive-humidity-sensor-applications
#10
Kook In Han, Seungdu Kim, In Gyu Lee, Jong Pil Kim, Jung-Ha Kim, Suck Won Hong, Byung Jin Cho, Wan Sik Hwang
Cylindrical silk fiber (SF) was coated with Graphene oxide (GO) for capacitive humidity sensor applications. Negatively charged GO in the solution was attracted to the positively charged SF surface via electrostatic force without any help from adhesive intermediates. The magnitude of the positively charged SF surface was controlled through the static electricity charges created on the SF surface. The GO coating ability on the SF improved as the SF's positive charge increased. The GO-coated SFs at various conditions were characterized using an optical microscope, scanning electron microscopy (SEM), energy-dispersive X-ray spectroscopy (EDS), Raman spectroscopy, and LCR meter...
February 19, 2017: Sensors
https://www.readbyqxmd.com/read/28215657/methodological-considerations-with-data-uncertainty-in-road-safety-analysis
#11
Matthias Schlögl, Rainer Stütz
The analysis of potential influencing factors that affect the likelihood of road accident occurrence has been of major interest for safety researchers throughout the recent decades. Even though steady methodological progresses were made over the years, several impediments pertaining to the statistical analysis of crash data remain. While issues related to methodological approaches have been subject to constructive discussion, uncertainties inherent to the most fundamental part of any analysis have been widely neglected: data...
February 16, 2017: Accident; Analysis and Prevention
https://www.readbyqxmd.com/read/28215053/-the-first-intervention-is-leaving-home-reasons-for-electing-an-out-of-hospital-birth-among-minnesotan-mothers
#12
Helen Hazen
The Twin Cities, Minnesota has seen a recent increase in the number of mothers seeking an out-of-hospital birth. This research uses in-depth interviews with 24 mothers who intended an out-of-hospital birth in the previous two years, exploring their reasons for pursuing an alternative approach to birth. For many women an out-of-hospital birth fits within a philosophy that rejects the pathologizing of birth. Escaping rigid hospital protocols is seen as critical to avoiding what many mothers described as unnecessary interventions...
February 18, 2017: Medical Anthropology Quarterly
https://www.readbyqxmd.com/read/28212525/ablation-of-ferroptosis-regulator-glutathione-peroxidase-4-in-forebrain-neurons-promotes-cognitive-impairment-and-neurodegeneration
#13
William Sealy Hambright, Rene Solano Fonseca, Liuji Chen, Ren Na, Qitao Ran
Synaptic loss and neuron death are the underlying cause of neurodegenerative diseases such as Alzheimer's disease (AD); however, the modalities of cell death in those diseases remain unclear. Ferroptosis, a newly identified oxidative cell death mechanism triggered by massive lipid peroxidation, is implicated in the degeneration of neurons populations such as spinal motor neurons and midbrain neurons. Here, we investigated whether neurons in forebrain regions (cerebral cortex and hippocampus) that are severely afflicted in AD patients might be vulnerable to ferroptosis...
February 1, 2017: Redox Biology
https://www.readbyqxmd.com/read/28211195/a-comparison-of-the-new-japanese-expedited-approval-legislation-for-regenerative-medicine-product-with-the-existing-systems-of-the-united-states-and-european-union
#14
Yoji Jokura, Kazuo Yano, Masayuki Yamato
Expedited approval pathways/programs for drugs, biologics, or medical devices have been enacted for rapid product commercialization of innovative products in the United States (US) and European Union (EU). However, less innovative products are increasingly using these expedited pathways and frequently obligations to collect and report post-marketing data on approved products are being bypassed. The Japanese government recently enacted a new conditional and time-limited approval pathway dedicated to regenerative medicine products...
February 17, 2017: Journal of Tissue Engineering and Regenerative Medicine
https://www.readbyqxmd.com/read/28210626/osteogenic-differentiation-capacity-of-in-vitro-cultured-human-skeletal-muscle-for-expedited-bone-tissue-engineering
#15
Chunlei Miao, Lulu Zhou, Lufeng Tian, Yingjie Zhang, Wei Zhang, Fanghong Yang, Tianyi Liu, Shengjian Tang, Fangjun Liu
Expedited bone tissue engineering employs the biological stimuli to harness the intrinsic regenerative potential of skeletal muscle to trigger the reparative process in situ to improve or replace biological functions. When genetically modified with adenovirus mediated BMP2 gene transfer, muscle biopsies from animals have demonstrated success in regenerating bone within rat bony defects. However, it is uncertain whether the human adult skeletal muscle displays an osteogenic potential in vitro when a suitable biological trigger is applied...
2017: BioMed Research International
https://www.readbyqxmd.com/read/28209793/targeting-lncrnas-in-cardiovascular-disease-options-and-expeditions
#16
Stefan Haemmig, Mark W Feinberg
No abstract text is available yet for this article.
February 17, 2017: Circulation Research
https://www.readbyqxmd.com/read/28209395/highlights-from-the-2016-hiv-diagnostics-conference-the-new-landscape-of-hiv-testing-in-laboratories-public-health-programs-and-clinical-practice
#17
Laura G Wesolowski, Monica M Parker, Kevin P Delaney, S Michele Owen
The 2016 HIV Diagnostics Conference, held in Atlanta, Georgia, was attended by public health officials, laboratorians, HIV testing program managers, surveillance coordinators and industry representatives. The conference addressed test performance data, the implementation of new testing algorithms, quality assurance, and the application of new tests in a variety of settings. With regard to the recommended Centers for Disease Control and Prevention/Association of Public Health Laboratories HIV laboratory testing algorithm, the conference featured performance data, implementation challenges such as a lack of test options for the second and third steps, as well as data needs for new tests that may be used as part of the algorithm...
February 7, 2017: Journal of Clinical Virology: the Official Publication of the Pan American Society for Clinical Virology
https://www.readbyqxmd.com/read/28205640/quantitative-bioassay-to-identify-antimicrobial-drugs-through-drug-interaction-fingerprint-analysis
#18
Zohar B Weinstein, Muhammad H Zaman
Drug interaction analysis, which reports the extent to which the presence of one drug affects the efficacy of another, is a powerful tool to select potent combinatorial therapies and predict connectivity between cellular components. Combinatorial effects of drug pairs often vary even for drugs with similar mechanism of actions. Therefore, drug interaction fingerprinting may be harnessed to differentiate drug identities. We developed a method to analyze drug interactions for the application of identifying active pharmaceutical ingredients, an essential step to assess drug quality...
February 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28205262/modern-multiple-myeloma-therapy-deep-sustained-treatment-response-and-good-clinical-outcomes
#19
REVIEW
O Landgren, K Iskander
In the USA at the beginning of this century, the average overall survival in patients with multiple myeloma was about 3 years. Around that time, three drugs (bortezomib, lenalidomide and thalidomide) were introduced for the treatment of multiple myeloma and, in 2012, carfilzomib received accelerated approval by the US Food and Drug Administration (FDA). Driven by access to better drugs, median overall survival in younger patients (aged <50 years) was >10 years by 2014. The FDA approved 14 new drugs for the treatment of cancer in 2015; four of these were approved for the treatment of myeloma (panobinostat, daratumumab, elotuzumab and ixazomib)...
February 16, 2017: Journal of Internal Medicine
https://www.readbyqxmd.com/read/28202204/expedited-partner-therapy-a-review-for-the-pediatric-nurse-practitioner
#20
Lauren M Hopson, Sabrina Opiola McCauley
The rate of sexually transmitted infections in the United States increased in 2015 for the second year in a row. Adolescents bear an undue portion of this burden because of increased physiologic susceptibility, higher rates of reinfection, and developmental age. Despite expedited partner therapy (EPT) being legalized in 39 states, health care providers still report infrequently providing EPT to their adolescent patients. Patients who benefit most from EPT include those with high-risk sexual behavior, a steady relationship status, higher education level, or an established relationship with the provider...
February 12, 2017: Journal of Pediatric Health Care
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