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https://www.readbyqxmd.com/read/29223137/sysmex-uf-1000i-flow-cytometer-to-screen-urinary-tract-infections-the-uriscam-multicentre-study
#1
O Herráez, M A Asencio, R Carranza, M M Jarabo, M Huertas, O Redondo, A Arias, S Jiménez-Álvarez, S Solís, P Zamarrón, M S Illescas, M A Galán
The new Sysmex UF-1000i analyzer - which incorporates bacteria morphology distinction - allows to automatically screen samples to be cultured at microbiology laboratories. We have evaluated the feasibility and accuracy of Sysmex UF-1000i to screen urine tract infections (UTIs). A total amount of 2,468 urine samples from six Spanish hospitals were analysed. Demographic and clinical data such as age, gender, source and sample type, preserving conditions, cytometer parameters (bacteria, leucocytes, and bacteria morphology) as well as urine culture results (gold standard) were recorded...
December 9, 2017: Letters in Applied Microbiology
https://www.readbyqxmd.com/read/29223123/differentiation-of-human-blood-from-animal-blood-using-raman-spectroscopy-a-survey-of-forensically-relevant-species
#2
Kyle C Doty, Igor K Lednev
The identification of blood samples is a crucial facet of forensic investigations, particularly for violent crimes. One step in forensic serology (i.e., the analysis of bodily fluids) that is often skipped or overlooked is the determination that a bloodstain is of human or nonhuman origin. Typically, subsequent to identifying a stain as blood using a presumptive blood test, which have the propensity of providing false positive results, the stain is submitted for extraction of a DNA profile to compare with those in a database...
November 27, 2017: Forensic Science International
https://www.readbyqxmd.com/read/29223087/oxidative-stress-in-birds-along-a-nox-and-urbanisation-gradient-an-interspecific-approach
#3
Pablo Salmón, Emilie Stroh, Amparo Herrera-Dueñas, Maria von Post, Caroline Isaksson
Urbanisation is regarded as one of the most threatening global issues for wildlife, however, measuring its impact is not always straight forward. Oxidative stress physiology has been suggested to be a useful biomarker of health and therefore, a potentially important indicator of the impact that urban environmental stressors, especially air pollution, can have on wildlife. For example, nitrogen oxides (NOx), released during incomplete combustion of fossil fuels, are highly potent pro-oxidants, thus predicted to affect either the protective antioxidants and/or cause oxidative damage to bio-molecules...
December 6, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/29223064/patient-characteristics-incidence-technique-outcomes-and-early-prediction-of-tracheostomy-in-the-state-of-victoria-australia
#4
Andrew Casamento, Michael Bailey, Ray Robbins, David Pilcher, Stephen Warrillow, Angaj Ghosh, Rinaldo Bellomo
BACKGROUND: Tracheostomy is a relatively common procedure in Intensive Care Unit (ICU) patients. AIMS: To study the patient characteristics, incidence, technique, outcomes and prediction of tracheostomy in the State of Victoria, Australia. METHODS: We used data from the Australian and New Zealand Intensive Care Society Adult Patient Database (ANZICS APD) and the Victorian Admitted Episode Dataset (VAED) to identify and match patients who had received a tracheostomy from 2004 to 2014...
December 1, 2017: Journal of Critical Care
https://www.readbyqxmd.com/read/29223052/wavelength-selection-for-portable-noninvasive-blood-component-measurement-system-based-on-spectral-difference-coefficient-and-dynamic-spectrum
#5
Ximeng Feng, Gang Li, Haixia Yu, Shaohui Wang, Xiaoqing Yi, Ling Lin
Noninvasive blood component analysis by spectroscopy has been a hotspot in biomedical engineering in recent years. Dynamic spectrum provides an excellent idea for noninvasive blood component measurement, but studies have been limited to the application of broadband light sources and high-resolution spectroscopy instruments. In order to remove redundant information, a more effective wavelength selection method has been presented in this paper. In contrast to many common wavelength selection methods, this method is based on sensing mechanism which has a clear mechanism and can effectively avoid the noise from acquisition system...
November 26, 2017: Spectrochimica Acta. Part A, Molecular and Biomolecular Spectroscopy
https://www.readbyqxmd.com/read/29223005/the-emerging-role-of-systems-biology-for-engineering-protein-production-in-cho-cells
#6
REVIEW
Chih-Chung Kuo, Austin Wt Chiang, Isaac Shamie, Mojtaba Samoudi, Jahir M Gutierrez, Nathan E Lewis
To meet the ever-growing demand for effective, safe, and affordable protein therapeutics, decades of intense efforts have aimed to maximize the quantity and quality of recombinant proteins produced in CHO cells. Bioprocessing innovations and cell engineering efforts have improved product titer; however, uncharacterized cellular processes and gene regulatory mechanisms still hinder cell growth, specific productivity, and protein quality. Herein, we summarize recent advances in systems biology and data-driven approaches aiming to unravel how molecular pathways, cellular processes, and extrinsic factors (e...
December 6, 2017: Current Opinion in Biotechnology
https://www.readbyqxmd.com/read/29222926/depressive-personality-vulnerability-in-chronic-physical-pain-centrality-of-sociotropy
#7
Golan Shahar, Sheera F Lerman, Maayan Topaz, Silviu Brill, Hadar Shalev, Zvia Rudich
BACKGROUND: Chronic physical pain is one of modern medicine's principal challenges. Recently, there has been a keen research interest in the role of Depressive Personality Vulnerability (DPV) in the course of chronic pain. OBJECTIVE: This is the first attempt to examine the role of three leading DPV dimensions - sociotropy, autonomy, and self-criticism - in chronic pain. METHOD: Chronic pain patients (N = 428) were assessed four times as to their pain, disability, anxious-depression, and pain-based catastrophizing...
December 9, 2017: Journal of Personality
https://www.readbyqxmd.com/read/29222917/diagnostic-modalities-for-non-alcoholic-fatty-liver-disease-nafld-non-alcoholic-steatohepatitis-nash-and-associated-fibrosis
#8
REVIEW
Zobair M Younossi, Rohit Loomba, Quentin M Anstee, Mary E Rinella, Elisabetta Bugianesi, Giulio Marchesini, Brent A Neuschwander-Tetri, Lawrence Serfaty, Francesco Negro, Stephen H Caldwell, Vlad Ratziu, Kathleen E Corey, Scott L Friedman, Manal F Abdelmalek, Stephen A Harrison, Arun J Sanyal, Joel E Lavine, Philippe Mathurin, Michael R Charlton, Zachary D Goodman, Naga P Chalasani, Kris V Kowdley, Jacob George, Keith Lindor
NAFLD is a spectrum comprised of isolated steatosis, NASH, advanced fibrosis, and cirrhosis. The majority of NAFLD subjects do not have NASH and don't carry a significant risk for adverse outcomes (cirrhosis and mortality). Globally, the prevalence of NAFLD is approximately 25%. In Asia, a gradient of high prevalence rates to low rates are noted from urban to rural areas. Given the prevalence of NAFLD, the clinical and economic burden of NAFLD and NASH can be substantial. With increasing recognition as an important liver disease, the diagnosis of NASH still requires a liver biopsy which is suboptimal...
December 9, 2017: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/29222764/optimization-of-multi-omic-genome-scale-models-methodologies-hands-on-tutorial-and-perspectives
#9
Supreeta Vijayakumar, Max Conway, Pietro Lió, Claudio Angione
Genome-scale metabolic models are valuable tools for assessing the metabolic potential of living organisms. Being downstream of gene expression, metabolism is increasingly being used as an indicator of the phenotypic outcome for drugs and therapies. We here present a review of the principal methods used for constraint-based modelling in systems biology, and explore how the integration of multi-omic data can be used to improve phenotypic predictions of genome-scale metabolic models. We believe that the large-scale comparison of the metabolic response of an organism to different environmental conditions will be an important challenge for genome-scale models...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222760/computational-prediction-of-synthetic-lethals-in-genome-scale-metabolic-models-using-fast-sl
#10
Karthik Raman, Aditya Pratapa, Omkar Mohite, Shankar Balachandran
In this chapter, we describe Fast-SL, an in silico approach to predict synthetic lethals in genome-scale metabolic models. Synthetic lethals are sets of genes or reactions where only the simultaneous removal of all genes or reactions in the set abolishes growth of an organism. In silico approaches to predict synthetic lethals are based on Flux Balance Analysis (FBA), a popular constraint-based analysis method based on linear programming. FBA has been shown to accurately predict the viability of various genome-scale metabolic models...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222756/metabolic-model-reconstruction-and-analysis-of-an-artificial-microbial-ecosystem
#11
Chao Ye, Nan Xu, Xiulai Chen, Liming Liu
Microbial communities are widespread in the environment, and to isolate and identify species or to determine relations among microorganisms, some 'omics methods like metagenomics, proteomics, and metabolomics have been used. When combined with various 'omics data, models known as artificial microbial ecosystems (AME) are powerful methods that can make functional predictions about microbial communities. Reconstruction of an AME model is the first step for model analysis. Many techniques have been applied to the construction of AME models, e...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222755/integrated-host-pathogen-metabolic-reconstructions
#12
Anu Raghunathan, Neema Jamshidi
The science and art of Genome scale metabolic network reconstructions have been explicitly documented in the literature for organisms across all the three kingdoms of life. Constraints-based models derived from such reconstructions have been used to assess metabolic phenotypes of their complex connections to genotype accurately. The problem of infectious disease is complex due to the multifactorial response of the host to the pathogen. Systems biology approaches and modeling allow one to study, understand, and predict emergent properties of such complex responses...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222754/template-assisted-metabolic-reconstruction-and-assembly-of-hybrid-bacterial-models
#13
Tiziano Vignolini, Alessio Mengoni, Marco Fondi
Intraspecific genomic exchanges happen frequently between bacteria living in the same natural environment and can also be performed artificially in the laboratory for basic research or genetic/metabolic engineering purposes. In silico metabolic reconstruction and simulation of the metabolism of the hybrid strains that result from these processes can be used to predict the phenotypic outcome of such genomic rearrangements; this can be especially helpful as a designing tool in the purview of synthetic biology...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222753/integration-of-comparative-genomics-with-genome-scale-metabolic-modeling-to-investigate-strain-specific-phenotypical-differences
#14
Jonathan Monk, Emanuele Bosi
Genome-scale metabolic reconstructions are powerful resources that allow translation biological knowledge and genomic information to phenotypical predictions using a number of constraint-based methods. This approach has been applied in recent years to gain deep insights into the cellular phenotype role of the genes at a systems-level, driving the design of targeted experiments and paving the way for knowledge-based synthetic biology.The identification of genetic determinants underlying the variability at the phenotypical level is crucial to understand the evolutionary trajectories of a bacterial species...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222751/reconstruction-and-analysis-of-central-metabolism-in-microbes
#15
Janaka N Edirisinghe, José P Faria, Nomi L Harris, Benjamin H Allen, Christopher S Henry
Genome-scale metabolic models (GEMs) generated from automated reconstruction pipelines often lack accuracy due to the need for extensive gapfilling and the inference of periphery metabolic pathways based on lower-confidence annotations. The central carbon pathways and electron transport chains are among the most well-understood regions of microbial metabolism, and these pathways contribute significantly toward defining cellular behavior and growth conditions. Thus, it is often useful to construct a simplified core metabolic model (CMM) that is comprised of only the high-confidence central pathways...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29222738/ct-based-3d-printing-is-superior-to-transesophageal-echocardiography-for-pre-procedure-planning-in-left-atrial-appendage-device-closure
#16
Edinrin Obasare, Sumeet K Mainigi, D Lynn Morris, Leandro Slipczuk, Igor Goykhman, Evan Friend, Mary Rodriguez Ziccardi, Gregg S Pressman
Accurate assessment of the left atrial appendage (LAA) is important for pre-procedure planning when utilizing device closure for stroke reduction. Sizing is traditionally done with transesophageal echocardiography (TEE) but this is not always precise. Three-dimensional (3D) printing of the LAA may be more accurate. 24 patients underwent Watchman device (WD) implantation (71 ± 11 years, 42% female). All had complete 2-dimensional TEE. Fourteen also had cardiac computed tomography (CCT) with 3D printing to produce a latex model of the LAA for pre-procedure planning...
December 8, 2017: International Journal of Cardiovascular Imaging
https://www.readbyqxmd.com/read/29222678/dose-responses-for-mortality-from-cerebrovascular-and-heart-diseases-in-atomic-bomb-survivors-1950-2003
#17
Helmut Schöllnberger, Markus Eidemüller, Harry M Cullings, Cristoforo Simonetto, Frauke Neff, Jan Christian Kaiser
The scientific community faces important discussions on the validity of the linear no-threshold (LNT) model for radiation-associated cardiovascular diseases at low and moderate doses. In the present study, mortalities from cerebrovascular diseases (CeVD) and heart diseases from the latest data on atomic bomb survivors were analyzed. The analysis was performed with several radio-biologically motivated linear and nonlinear dose-response models. For each detrimental health outcome one set of models was identified that all fitted the data about equally well...
December 8, 2017: Radiation and Environmental Biophysics
https://www.readbyqxmd.com/read/29222563/quantitative-analysis-and-classification-of-the-nasal-base-using-a-parametric-model
#18
Christian H Barnes, Heidi Chen, Jason J Chen, Erica Su, Wesley J Moy, Brian J F Wong
Importance: The nasal base view is often overlooked in rhinoplasty analysis and, unlike lateral and frontal views, lacks detailed quantitative analysis and descriptors. While shape-category analysis of the nasal base is well established, these descriptive methods remain subjective and do not facilitate quantitative analysis. Objective: To establish a simple and quantitative classification scheme using a multiple-parameter numerical model for analyzing and describing the shape of the nasal base...
December 7, 2017: JAMA Facial Plastic Surgery
https://www.readbyqxmd.com/read/29222540/validation-study-of-the-american-joint-committee-on-cancer-eighth-edition-prognostic-stage-compared-with-the-anatomic-stage-in-breast-cancer
#19
Anna Weiss, Mariana Chavez-MacGregor, Daphne Y Lichtensztajn, Min Yi, Audree Tadros, Gabriel N Hortobagyi, Sharon H Giordano, Kelly K Hunt, Elizabeth A Mittendorf
Importance: The American Joint Committee on Cancer (AJCC) eighth edition staging manual introduced a new prognostic stage for breast cancer incorporating biologic factors in addition to traditional anatomic factors. Objective: To perform a validation study of the AJCC eighth edition prognostic stage in a single-institution cohort and a large population database. Design, Setting, and Participants: Patients with breast cancer treated with surgery as an initial intervention were identified in a prospective institutional database from The University of Texas MD Anderson Cancer Center and the California Cancer Registry...
December 7, 2017: JAMA Oncology
https://www.readbyqxmd.com/read/29222512/improving-gene-regulatory-network-inference-by-incorporating-rates-of-transcriptional-changes
#20
Jigar S Desai, Ryan C Sartor, Lovely Mae Lawas, S V Krishna Jagadish, Colleen J Doherty
Organisms respond to changes in their environment through transcriptional regulatory networks (TRNs). The regulatory hierarchy of these networks can be inferred from expression data. Computational approaches to identify TRNs can be applied in any species where quality RNA can be acquired, However, ChIP-Seq and similar validation methods are challenging to employ in non-model species. Improving the accuracy of computational inference methods can significantly reduce the cost and time of subsequent validation experiments...
December 8, 2017: Scientific Reports
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