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https://www.readbyqxmd.com/read/28549078/herod-a-human-ethnic-and-regional-specific-omics-database
#1
Xian Zeng, Lin Tao, Zhang Peng, Chu Qin, Shangying Chen, Weidong He, Ying Tan, Hong Xia Liu, Sheng Yong Yang, Zhe Chen, Yu Yang Jiang, Yu Zong Chen
Motivation: Genetic and gene expression variations within and between populations and across geographical regions have substantial effects on the biological phenotypes, diseases, and therapeutic response. The development of precision medicines can be facilitated by the OMICS studies of the patients of specific ethnicity and geographic region. However, there is an inadequate facility for broadly and conveniently accessing the ethnic and regional specific OMICS data. Results: Here, we introduced a new free database, HEROD, a human ethnic and regional specific OMICS database...
May 26, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28544816/analytical-characterization-of-three-cathinone-derivatives-4-mpd-4%C3%A2-f-php-and-bk-epdp-purchased-as-bulk-powder-from-online-vendors
#2
Orapan Apirakkan, Anca Frinculescu, Trevor Shine, Mark C Parkin, Agostino Cilibrizzi, Nunzianda Frascione, Vincenzo Abbate
Novel emerging drugs of abuse, also referred as new psychoactive substances (NPS), constitute an ever-changing mixture of chemical compounds designed to circumvent legislative controls by means of chemical modifications of previously banned recreational drugs. One of such class, synthetic cathinones, namely β-keto derivatives of amphetamines, has been largely abused over the past decade. A number of new synthetic cathinones are detected each year, either in bulk powders/crystals or in biological matrices. It is therefore important to continuously monitor the supply of new synthetic derivatives and promptly report them...
May 23, 2017: Drug Testing and Analysis
https://www.readbyqxmd.com/read/28544602/drug-residues-in-syringes-and-other-injecting-paraphernalia-in-hungary
#3
Anna Péterfi, József Csorba, Tamás Figeczki, József Kiss, Katalin Medgyesi-Frank, János Posta, V Anna Gyarmathy
The appearance and spread of new psychoactive substances (NPS) is a phenomenon detected throughout Europe since 2008. Synthetic cathinones, a group of NPS, have been self-reported as the drug injected by the vast majority of people who inject drugs (PWID) in Hungary. This study aims at updating our knowledge on what exactly the compounds injected by PWID. This multi-site study analysed residues from used injecting drug paraphernalia collected from PWID via low threshold services and from public places in Budapest, Debrecen, Miskolc, Szeged, Békéscsaba and Pécs between March 2015 and February 2016...
May 23, 2017: Drug Testing and Analysis
https://www.readbyqxmd.com/read/28539341/advances-afoot-in-microbiology
#4
Robin Patel, Brad S Karon
In 2016, the American Academy of Microbiology convened a colloquium to examine point-of-care (POC) microbiology testing and to evaluate its effects on clinical microbiology. Colloquium participants included representatives from clinical microbiology laboratories, industry, and the government, who together made recommendations regarding the implementation, oversight and evaluation of POC microbiology testing. The colloquium report is timely and well-written. (V. Dolen et al., Changing Diagnostic Paradigms for Microbiology, 2017, https://www...
May 24, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28529077/plmd-an-updated-data-resource-of-protein-lysine-modifications
#5
Haodong Xu, Jiaqi Zhou, Shaofeng Lin, Wankun Deng, Ying Zhang, Yu Xue
Post-translational modifications (PTMs) occurring at protein lysine residues, or protein lysine modifications (PLMs), play critical roles in regulating biological processes. Due to the explosive expansion of the amount of PLM substrates and the discovery of novel PLM types, here we greatly updated our previous studies, and presented a much more integrative resource of protein lysine modification database (PLMD). In PLMD, we totally collected and integrated 284,780 modification events in 53,501 proteins across 176 eukaryotes and prokaryotes for up to 20 types of PLMs, including ubiquitination, acetylation, sumoylation, methylation, succinylation, malonylation, glutarylation, glycation, formylation, hydroxylation, butyrylation, propionylation, crotonylation, pupylation, neddylation, 2-hydroxyisobutyrylation, phosphoglycerylation, carboxylation, lipoylation and biotinylation...
May 3, 2017: Journal of Genetics and Genomics, Yi Chuan Xue Bao
https://www.readbyqxmd.com/read/28525843/formation-of-platinum-ii-as-a-six-member-ring-for-sustained-polymeric-delivery
#6
Sanjeewa N Senadheera, Ti Zhang, Chad E Groer, M Laird Forrest
A new pH-activated polymer chelate of cisplatin was synthesized using a scalable and green aqueous technique. Synthesis of the chelate was based on formation of a 6-member ring of platinum(II) with acetyl-homo-Lysine (Ac-homo-Lys), which was accomplished under completely aqueous conditions using a traceless photocleavable protection chemistry. Synthesis preceded by, first, amidation of a photocaged homo-Ac-Lys with hyaluronic acid (HA) in water using a p-hydroxyphenacyl (pHP) group as the photoremovable protecting group, followed by reaction of cisplatin (diaqua form) in water to form the reversible chelate...
May 6, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28505382/facile-phenylphosphinidene-transfer-reactions-from-carbene-phosphinidene-zinc-complexes
#7
Chris Slootweg, Tetiana Krachko, Mark Bispinghoff, Aaron Tondreau, Daniel Stein, Matthew Baker, Andreas Ehlers, Hansjörg Grützmacher
Phosphinidenes [R-P] are convenient P1 building blocks for the synthesis of a plethora of organophosphorus compounds. Thus far, transition-metal complexed phosphinidenes have been used for their singlet ground-state reactivity, promoting selective addition and insertion reactions. One disadvantage of this approach is that after transfer of the P1 moiety to the substrate a challenging demetallation step is required to provide the free phosphine. Here we report a simple method which allows the Lewis acid-promoted transfer of phenylphosphinidene, [PhP], from NHC=PPh adducts (NHC = N-heterocyclic carbene) to various substrates to produce directly uncoordinated phosphorus heterocycles that are difficult to obtain otherwise...
May 15, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28489812/are-public-health-physicians-still-needed-in-medically-underserved-rural-areas-in-korea
#8
Baeg Ju Na, Jin Yong Lee, Hyun Joo Kim
Public health physicians (PHPs) are certified physicians who are serving in a public health center or subcenter in a rural village, instead of serving in the military. However, the PHP program has recently become the subject of a profound debate, over 30 years after its adoption. In this study, we attempted to ascertain physicians' perspectives on the PHP program, including: whether the PHP policy should continue; if they agree on changing the role of PHPs in healthcare; what would be the desired role of PHPs; and what resources would be required and what possible barriers would be anticipated under the changes...
May 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28487832/isfahan-misp-dataset
#9
Masoud Kashefpur, Rahele Kafieh, Sahar Jorjandi, Hadis Golmohammadi, Zahra Khodabande, Mohammadreza Abbasi, Nilufar Teifuri, Ali Akbar Fakharzadeh, Maryam Kashefpoor, Hossein Rabbani
An online depository was introduced to share clinical ground truth with the public and provide open access for researchers to evaluate their computer-aided algorithms. PHP was used for web programming and MySQL for database managing. The website was entitled "biosigdata.com." It was a fast, secure, and easy-to-use online database for medical signals and images. Freely registered users could download the datasets and could also share their own supplementary materials while maintaining their privacies (citation and fee)...
January 2017: Journal of Medical Signals and Sensors
https://www.readbyqxmd.com/read/28487275/a-phenome-database-neauhlfpd-designed-and-constructed-for-broiler-lines-divergently-selected-for-abdominal-fat-content
#10
Li Min, Dong Xiangyu, Liang Hao, Leng Li, Zhang Hui, Wang Shouzhi, Li Hui, Du Zhi-Qiang
Effective management and analysis of precisely recorded phenotypic traits are important components of the selection and breeding of superior livestocks. Over two decades, we divergently selected chicken lines for abdominal fat content at Northeast Agricultural University (Northeast Agricultural University High and Low Fat, NEAUHLF), and collected large volume of phenotypic data related to the investigation on molecular genetic basis of adipose tissue deposition in broilers. To effectively and systematically store, manage and analyze phenotypic data, we built the NEAUHLF Phenome Database (NEAUHLFPD)...
May 20, 2017: Yi Chuan, Hereditas
https://www.readbyqxmd.com/read/28486703/ammos2-a-web-server-for-protein-ligand-water-complexes-refinement-via-molecular-mechanics
#11
Céline M Labbé, Tania Pencheva, Dessislava Jereva, Dimitri Desvillechabrol, Jérôme Becot, Bruno O Villoutreix, Ilza Pajeva, Maria A Miteva
AMMOS2 is an interactive web server for efficient computational refinement of protein-small organic molecule complexes. The AMMOS2 protocol employs atomic-level energy minimization of a large number of experimental or modeled protein-ligand complexes. The web server is based on the previously developed standalone software AMMOS (Automatic Molecular Mechanics Optimization for in silico Screening). AMMOS utilizes the physics-based force field AMMP sp4 and performs optimization of protein-ligand interactions at five levels of flexibility of the protein receptor...
May 9, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28485711/mctp-is-an-er-resident-calcium-sensor-that-stabilizes-synaptic-transmission-and-homeostatic-plasticity
#12
Özgür Genç, Dion Kai Dickman, Wenpei Ma, Amy Tong, Richard D Fetter, Graeme W Davis
Presynaptic homeostatic plasticity (PHP) controls synaptic transmission in organisms from Drosophila to human and is hypothesized to be relevant to the cause of human disease. However, the underlying molecular mechanisms of PHP are just emerging and direct disease associations remain obscure. In a forward genetic screen for mutations that block PHP we identified mctp (Multiple C2 Domain Proteins with Two Transmembrane Regions). Here we show that MCTP localizes to the membranes of the endoplasmic reticulum (ER) that elaborate throughout the soma, dendrites, axon and presynaptic terminal...
May 9, 2017: ELife
https://www.readbyqxmd.com/read/28480121/alchemy-a-web-2-0-real-time-quality-assurance-platform-for-human-immunodeficiency-virus-hepatitis-c-virus-and-bk-virus-quantitation-assays
#13
Emmanuel Agosto-Arroyo, Gina M Coshatt, Thomas S Winokur, Shuko Harada, Seung L Park
BACKGROUND: The molecular diagnostics laboratory faces the challenge of improving test turnaround time (TAT). Low and consistent TATs are of great clinical and regulatory importance, especially for molecular virology tests. Laboratory information systems (LISs) contain all the data elements necessary to do accurate quality assurance (QA) reporting of TAT and other measures, but these reports are in most cases still performed manually: a time-consuming and error-prone task. The aim of this study was to develop a web-based real-time QA platform that would automate QA reporting in the molecular diagnostics laboratory at our institution, and minimize the time expended in preparing these reports...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28472919/webgivi-a-web-based-gene-enrichment-analysis-and-visualization-tool
#14
Liang Sun, Yongnan Zhu, A S M Ashique Mahmood, Catalina O Tudor, Jia Ren, K Vijay-Shanker, Jian Chen, Carl J Schmidt
BACKGROUND: A major challenge of high throughput transcriptome studies is presenting the data to researchers in an interpretable format. In many cases, the outputs of such studies are gene lists which are then examined for enriched biological concepts. One approach to help the researcher interpret large gene datasets is to associate genes and informative terms (iTerm) that are obtained from the biomedical literature using the eGIFT text-mining system. However, examining large lists of iTerm and gene pairs is a daunting task...
May 4, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28471688/atherogenic-impact-of-lecithin-cholesterol-acyltransferase-and-its-relation-to-cholesterol-esterification-rate-in-hdl-fer-hdl-and-aip-log-tg-hdl-c-biomarkers-the-butterfly-effect
#15
M Dobiášová
The atherogenic impact and functional capacity of LCAT was studied and discussed over a half century. This review aims to clarify the key points that may affect the final decision on whether LCAT is an anti-atherogenic or atherogenic factor. There are three main processes involving the efflux of free cholesterol from peripheral cells, LCAT action in intravascular pool where cholesterol esterification rate is under the control of HDL, LDL and VLDL subpopulations, and finally the destination of newly produced cholesteryl esters either to the catabolism in liver or to a futile cycle with apoB lipoproteins...
May 4, 2017: Physiological Research
https://www.readbyqxmd.com/read/28467336/early-results-for-treatment-of-two-and-three-part-fractures-of-the-proximal-humerus-using-contours-php-proximal-humeral-plate
#16
Alessio Biazzo, Carlo Cardile, Luca Brunelli, Paolo Ragni, Daniele Clementi
BACKGROUND AND AIM OF THE WORK: The management of displaced 2- and 3-part fractures of the proximal humerus is controversial, both in younger and in elderly patients. The purpose of this paper is to evaluate the functional results of the Contours Proximal Humerus Plate (OrthofixR, Bussolengo,Verona, Italy), for the treatment of displaced 2- and 3-part fractures of the proximal humerus. METHODS: We retrospectively reviewed 55 patients with proximal humerus fractures, who underwent osteosynthesis with Contours Proximal Humerus Plate from December 2011 to March 2015...
April 28, 2017: Acta Bio-medica: Atenei Parmensis
https://www.readbyqxmd.com/read/28462029/crf-detection-of-crispr-arrays-using-random-forest
#17
Kai Wang, Chun Liang
CRISPRs (clustered regularly interspaced short palindromic repeats) are particular repeat sequences found in wide range of bacteria and archaea genomes. Several tools are available for detecting CRISPR arrays in the genomes of both domains. Here we developed a new web-based CRISPR detection tool named CRF (CRISPR Finder by Random Forest). Different from other CRISPR detection tools, a random forest classifier was used in CRF to filter out invalid CRISPR arrays from all putative candidates and accordingly enhanced detection accuracy...
2017: PeerJ
https://www.readbyqxmd.com/read/28451967/using-pfp-and-esg-protein-function-prediction-web-servers
#18
Qing Wei, Joshua McGraw, Ishita Khan, Daisuke Kihara
Elucidating biological function of proteins is a fundamental problem in molecular biology and bioinformatics. Conventionally, protein function is annotated based on homology using sequence similarity search tools such as BLAST and FASTA. These methods perform well when obvious homologs exist for a query sequence; however, they will not provide any functional information otherwise. As a result, the functions of many genes in newly sequenced genomes are left unknown, which await functional interpretation. Here, we introduce two webservers for function prediction methods, which effectively use distantly related sequences to improve function annotation coverage and accuracy: Protein Function Prediction (PFP) and Extended Similarity Group (ESG)...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28451811/prospective-clinical-and-pharmacological-evaluation-of-the-delcath-system-s-second-generation-gen2-hemofiltration-system-in-patients-undergoing-percutaneous-hepatic-perfusion-with-melphalan
#19
Eleonora M de Leede, Mark C Burgmans, T Susanna Meijer, Christian H Martini, Fred G J Tijl, Jaap Vuyk, Arian R van Erkel, Cornelis J H van der Velde, Ellen Kapiteijn, Alexander L Vahrmeijer
INTRODUCTION: Percutaneous hepatic perfusion (PHP) with melphalan is an effective treatment for patients with hepatic metastases, but associated with high rates of bone marrow depression. To reduce systemic toxicity, improvements have been made to the filtration system. In pre-clinical studies, the Delcath System's GEN2 filter was superior to the first-generation filters. In this clinical study, we analysed the pharmacokinetics and toxicity of PHP using the new GEN2 filter. METHODS AND MATERIALS: Starting February 2014, two prospective phase II studies were initiated in patients with hepatic metastases from ocular melanoma or colorectal cancer...
April 27, 2017: Cardiovascular and Interventional Radiology
https://www.readbyqxmd.com/read/28450250/deciphering-the-interactions-of-fish-gelatine-and-hyaluronic-acid-in-aqueous-solutions
#20
Md Abdur Razzak, Moojoong Kim, Hyun-Jung Kim, Yong-Cheol Park, Donghwa Chung
The interactions of fish gelatine (FG) with hyaluronic acid (HA) are studied in an aqueous environment at 25°C by turbidimetric titration, confocal scanning laser microscopy, dynamic light scattering, zeta potentiometry, spectrophotometry with methylene blue, and construction of state diagrams. FG forms soluble complexes with HA above a boundary pH (pHφ1), where both biopolymers are net-negatively charged, but develop insoluble complexes as liquid-state complex coacervates below pHφ1, where the two biopolymers are oppositely charged...
April 24, 2017: International Journal of Biological Macromolecules
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