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https://www.readbyqxmd.com/read/27933602/fish-tales-the-use-of-zebrafish-xenograft-human-cancer-cell-models
#1
REVIEW
Yvette Drabsch, B Ewa Snaar-Jagalska, Peter Ten Dijke
Advances in scientific techniques have provided researchers with exceptional new opportunities to identify and monitor changes between different cancer types, during different stages of progression, between individual tumor cells and in the surrounding stroma. The wealth of information that can be obtained from new scientific techniques places additional requirements on the conventional cancer models. New models that could be used to rapidly access the (potential) functional importance of newly identified (epi)genetic and proteomic changes and test the efficacy on emerging (combinatorial) therapies are desperately required...
December 9, 2016: Histology and Histopathology
https://www.readbyqxmd.com/read/27933522/complex-trait-analyses-of-the-collaborative-cross-tools-and-databases
#2
Ramesh Ram, Grant Morahan
The Collaborative cross (CC) is a powerful mouse resource for investigating complex genetic traits. Here we discuss various tools and techniques for gene mapping and identification using the CC. The data analyses procedures are illustrated with examples.
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27933521/genenetwork-a-toolbox-for-systems-genetics
#3
Megan K Mulligan, Khyobeni Mozhui, Pjotr Prins, Robert W Williams
The goal of systems genetics is to understand the impact of genetic variation across all levels of biological organization, from mRNAs, proteins, and metabolites, to higher-order physiological and behavioral traits. This approach requires the accumulation and integration of many types of data, and also requires the use of many types of statistical tools to extract relevant patterns of covariation and causal relations as a function of genetics, environment, stage, and treatment. In this protocol we explain how to use the GeneNetwork web service, a powerful and free online resource for systems genetics...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27933493/norovirus-gii-pe-genotype-tracking-a-foodborne-outbreak-on-a-cruise-ship-through-molecular-epidemiology-brazil-2014
#4
Simone Guadagnucci Morillo, Adriana Luchs, Audrey Cilli, Cibele Daniel Ribeiro, Rita de Cássia Compagnoli Carmona, Maria do Carmo Sampaio Tavares Timenetsky
Norovirus (NoV) is recognized as the most common cause of foodborne outbreaks. In 2014, an outbreak of acute gastroenteritis occurred on a cruise ship in Brazil, and NoV became the suspected etiology. Here we present the molecular identification of the NoV strains and the use of sequence analysis to determine modes of virus transmission. Food (cream cheese, tuna salad, grilled fish, orange mousse, and vegetables soup) and clinical samples were analyzed by ELISA, conventional RT-PCR, qRT-PCR, and sequencing...
December 8, 2016: Food and Environmental Virology
https://www.readbyqxmd.com/read/27933468/conditional-screening-for-ultra-high-dimensional-covariates-with-survival-outcomes
#5
Hyokyoung G Hong, Jian Kang, Yi Li
Identifying important biomarkers that are predictive for cancer patients' prognosis is key in gaining better insights into the biological influences on the disease and has become a critical component of precision medicine. The emergence of large-scale biomedical survival studies, which typically involve excessive number of biomarkers, has brought high demand in designing efficient screening tools for selecting predictive biomarkers. The vast amount of biomarkers defies any existing variable selection methods via regularization...
December 8, 2016: Lifetime Data Analysis
https://www.readbyqxmd.com/read/27933407/simvascular-an-open-source-pipeline-for-cardiovascular-simulation
#6
REVIEW
Adam Updegrove, Nathan M Wilson, Jameson Merkow, Hongzhi Lan, Alison L Marsden, Shawn C Shadden
Patient-specific cardiovascular simulation has become a paradigm in cardiovascular research and is emerging as a powerful tool in basic, translational and clinical research. In this paper we discuss the recent development of a fully open-source SimVascular software package, which provides a complete pipeline from medical image data segmentation to patient-specific blood flow simulation and analysis. This package serves as a research tool for cardiovascular modeling and simulation, and has contributed to numerous advances in personalized medicine, surgical planning and medical device design...
December 8, 2016: Annals of Biomedical Engineering
https://www.readbyqxmd.com/read/27933369/imaging-mass-spectrometry-in-drug-development-and-toxicology
#7
REVIEW
Oskar Karlsson, Jörg Hanrieder
During the last decades, imaging mass spectrometry has gained significant relevance in biomedical research. Recent advances in imaging mass spectrometry have paved the way for in situ studies on drug development, metabolism and toxicology. In contrast to whole-body autoradiography that images the localization of radiolabeled compounds, imaging mass spectrometry provides the possibility to simultaneously determine the discrete tissue distribution of the parent compound and its metabolites. In addition, imaging mass spectrometry features high molecular specificity and allows comprehensive, multiplexed detection and localization of hundreds of proteins, peptides and lipids directly in tissues...
December 8, 2016: Archives of Toxicology
https://www.readbyqxmd.com/read/27933225/rational-design-of-dual-active-sites-in-a-single-protein-scaffold-a-case-study-of-heme-protein-in-myoglobin
#8
Xiao-Gang Shu, Ji-Hu Su, Ke-Jie Du, Yong You, Shu-Qin Gao, Ge-Bo Wen, Xiangshi Tan, Ying-Wu Lin
Rational protein design has been proven to be a powerful tool for creating functional artificial proteins. Although many artificial metalloproteins with a single active site have been successfully created, those with dual active sites in a single protein scaffold are still relatively rare. In this study, we rationally designed dual active sites in a single heme protein scaffold, myoglobin (Mb), by retaining the native heme site and creating a copper-binding site remotely through a single mutation of Arg118 to His or Met...
June 2016: ChemistryOpen
https://www.readbyqxmd.com/read/27933072/development-and-evaluation-of-chromosome-segment-substitution-lines-carrying-overlapping-chromosome-segments-of-the-whole-wild-rice-genome
#9
Dewei Yang, Xinfu Ye, Xianghua Zheng, Chaoping Cheng, Ning Ye, Fenghuang Huang
Common wild rice (Oryza rufipogon Griff.) represents an important resource for rice improvement. Genetic populations provide the basis for a wide range of genetic and genomic studies. In particular, chromosome segment substitution lines (CSSLs) are most powerful tools for the detection and precise mapping of quantitative trait loci (QTLs). In this study, 146 CSSLs were produced; they were derived from the crossing and back-crossing of two rice cultivars: Dongnanihui 810 (Oryza sativa L.), an indica rice cultivar as the recipient, and ZhangPu wild rice, a wild rice cultivar as the donor...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27932545/population-genomics-of-daphnia-pulex
#10
Michael Lynch, Ryan Gutenkunst, Matthew Ackerman, Ken Spitze, Zhiqiang Ye, Takahiro Maruki, Zhiyuan Jia
Using data from 83 isolates from a single population, the population genomics of the microcrustacean Daphnia pulex are described and compared to current knowledge for the only other well-studied invertebrate, Drosophila melanogaster These two species are quite similar with respect to effective population sizes and mutation rates, although some features of recombination appear to be different, with linkage disequilibrium being elevated at short (< 100 bp) distances in D. melanogaster and at long distances in D...
December 7, 2016: Genetics
https://www.readbyqxmd.com/read/27932277/detection-of-subclinical-ultrasound-enthesopathy-and-nail-disease-in-patients-at-risk-of-psoriatic-arthritis
#11
Marie Acquitter, Laurent Misery, Alain Saraux, Luc Bressollette, Sandrine Jousse-Joulin
OBJECTIVES: To detect subclinical entheses and nail abnormalities using gray-scale (GS) and power Doppler ultrasonography (PDUS) between patients with nail psoriasis and those with inverse and scalp psoriasis. METHODS: In this prospective monocentric study, patients with nail, inverse and scalp psoriasis, without psoriatic arthritis or systemic treatment, were included. Clinical evaluation and ultrasonographic assessment of 14 entheses and 12 nails were done by a dermatologist (clinical assessment) and a rheumatologist (ultrasonographic assessment)...
December 5, 2016: Joint, Bone, Spine: Revue du Rhumatisme
https://www.readbyqxmd.com/read/27931959/imaging-of-gout-new-tools-and-biomarkers
#12
REVIEW
Elizabeth G Araujo, Bernhard Manger, Fernando Perez-Ruiz, Ralf G Thiele
While joint aspiration and crystal identification by polarizing microscopy remain the gold standard for diagnosing tophaceous gout, agreement among medical and ancillary health personnel examining synovial fluid using polarizing microscopy for the detection of monosodium urate (MSU) crystals appears to be poor. Imaging modalities, including conventional radiography (CR), ultrasonography (US), magnetic resonance imaging (MRI), and dual-energy computed tomography (DECT), have been found to provide information on the deposition of MSU crystals in tissues, and the consequences of such deposition...
August 2016: Best Practice & Research. Clinical Rheumatology
https://www.readbyqxmd.com/read/27931815/evaluation-of-mutagenicity-of-acrylamide-using-rbc-pig-a-and-pigret-assays-by-single-peroral-dose-in-rats
#13
Katsuyoshi Horibata, Akiko Ukai, Masamitsu Honma
The Pig-a gene mutation assay, a powerful tool for evaluating in vivo genotoxicity, is based on flow cytometric enumeration of red blood cells (RBCs), which are deficient in glycosylphosphatidylinositol anchored proteins caused by mutation(s) in the Pig-a gene. Various approaches for measuring cells with mutated Pig-a gene have been developed. The Pig-a assay targeting concentrated reticulocytes - the PIGRET assay - has the potential to detect genotoxicity in early stages of the study. To verify the potential and usefulness of the PIGRET assay for short-term testing, we conducted a joint research with the Mammalian Mutagenicity Study (MMS) Group of the Japanese Environmental Mutagen Society...
November 15, 2016: Mutation Research
https://www.readbyqxmd.com/read/27931723/psoas-muscle-area-as-a-predictor-of-outcomes-in-transcatheter-aortic-valve-implantation
#14
Lohit Garg, Sahil Agrawal, Timothy Pew, George S Hanzel, Amr E Abbas, Michael J Gallagher, Francis L Shannon, Ivan D Hanson
Frailty is a powerful predictor of outcomes after transcatheter aortic valve implantation (TAVI). Sarcopenia as assessed by psoas muscle area (PMA) is a validated tool to assess frailty before surgical procedures. We evaluated PMA as a predictor of outcomes after TAVI in 152 consecutive patients who underwent this procedure at our institution from 2011 to 2014. Preoperative computed tomography scans were used to measure PMA, which then was indexed to body surface area. Outcomes evaluated included (1) early poor outcome (30 days mortality, stroke, dialysis, and prolonged ventilation), (2) 1-year mortality, and (3) high-resource utilization (length of stay >7 days, discharge to rehabilitation, or readmission within 30 days)...
November 1, 2016: American Journal of Cardiology
https://www.readbyqxmd.com/read/27931215/why-the-convention-on-the-rights-of-the-child-must-become-a-guiding-framework-for-the-realization-of-the-rights-of-children-affected-by-tuberculosis
#15
Robindra Basu Roy, Nicola Brandt, Nicolette Moodie, Mitra Motlagh, Kumanan Rasanathan, James A Seddon, Anne K Detjen, Beate Kampmann
BACKGROUND: Until recently, paediatric tuberculosis (TB) has been relatively neglected by the broader TB and the maternal and child health communities. Human rights-based approaches to children affected by TB could be powerful; however, awareness and application of such strategies is not widespread. DISCUSSION: We summarize the current challenges faced by children affected by TB, including: consideration of their family context; the limitations of preventive, diagnostic and treatment options; paucity of paediatric-specific research; failure in implementation of interventions; and stigma...
December 8, 2016: BMC International Health and Human Rights
https://www.readbyqxmd.com/read/27931206/survivalgwas_power-a-user-friendly-tool-for-power-calculations-in-pharmacogenetic-studies-with-time-to-event-outcomes
#16
Hamzah Syed, Andrea L Jorgensen, Andrew P Morris
BACKGROUND: Power calculators are currently available for the design of genetic association studies of binary phenotypes and quantitative traits, but not for "time to event" outcomes, which are of particular relevance in pharmacogenetics. With the rapid emergence of pharmacogenetic association studies of single nucleotide polymorphisms (SNPs), and the complexity of clinical outcomes they consider, there is a need for software to perform power calculations of time to event data over a range of design scenarios and analytical methodologies...
December 8, 2016: BMC Bioinformatics
https://www.readbyqxmd.com/read/27930885/robust-synthetic-circuits-for-two-dimensional-control-of-gene-expression-in-yeast
#17
Andres Aranda-Diaz, Kieran Mace, Ignacio Zuleta, Patrick Harrigan, Hana El-Samad
Cellular phenotypes are the result of complex interactions between many components. Understanding and predicting the system level properties of the resulting networks requires the development of perturbation tools that can simultaneously and independently modulate multiple cellular variables. Here, we develop synthetic modules that use different arrangements of two transcriptional regulators to achieve either concurrent and independent control of the expression of two genes, or decoupled control of the mean and variance of a single gene...
December 8, 2016: ACS Synthetic Biology
https://www.readbyqxmd.com/read/27930472/risks-associated-with-lentiviral-vector-exposures-and-prevention-strategies
#18
Ryan Schlimgen, John Howard, Dawn Wooley, Maureen Thompson, Lindsey R Baden, Otto O Yang, David C Christiani, Gustavo Mostoslavsky, David V Diamond, Elizabeth Gilman Duane, Karen Byers, Thomas Winters, Jeffrey A Gelfand, Gary Fujimoto, T Warner Hudson, Jatin M Vyas
Lentiviral vectors (LVVs) are powerful genetic tools that are being used with greater frequency in biomedical laboratories and clinical trials. Adverse events reported from initial clinical studies provide a basis for risk assessment of occupational exposures, yet many questions remain about the potential harm that LVVs may cause. We review those risks and provide a framework for principal investigators, Institutional Biosafety Committees, and occupational health professionals to assess and communicate the risks of exposure to staff...
December 2016: Journal of Occupational and Environmental Medicine
https://www.readbyqxmd.com/read/27930344/specific-detection-of-biomolecules-in-physiological-solutions-using-graphene-transistor-biosensors
#19
Ning Gao, Teng Gao, Xiao Yang, Xiaochuan Dai, Wei Zhou, Anqi Zhang, Charles M Lieber
Nanomaterial-based field-effect transistor (FET) sensors are capable of label-free real-time chemical and biological detection with high sensitivity and spatial resolution, although direct measurements in high-ionic-strength physiological solutions remain challenging due to the Debye screening effect. Recently, we demonstrated a general strategy to overcome this challenge by incorporating a biomolecule-permeable polymer layer on the surface of silicon nanowire FET sensors. The permeable polymer layer can increase the effective screening length immediately adjacent to the device surface and thereby enable real-time detection of biomolecules in high-ionic-strength solutions...
December 5, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27929744/surveillance-of-poliomyelitis-in-northern-italy-results-of-acute-flaccid-paralysis-surveillance-and-environmental-surveillance-2012-2015
#20
Laura Pellegrinelli, Laura Bubba, Valeria Primache, Elena Pariani, Andrea Battistone, Roberto Delogu, Fiore Stefano, Sandro Binda
Although in the last years poliovirus (PV) transmission has been reported at the lowest levels ever recorded, the spread of virus from endemic countries endures; the high levels of immigration flows across the Mediterranean Sea jeopardize Italy for PV reintroduction. The World Health Organization (WHO) strategic plan for global poliomyelitis (polio) eradication indicates the nationwide surveillance of Acute Flaccid Paralysis (AFP) as the gold standard for detecting cases of polio. In addition, the Environmental Surveillance (ES), seeking the presence of PV and Non-Polio Enterovirus (NPEV) in sewage, is recognized as a powerful tool to confirm PV circulation in absence of AFP cases, especially in polio-free countries...
December 8, 2016: Human Vaccines & Immunotherapeutics
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