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https://www.readbyqxmd.com/read/29773720/nextgen-postdocs
#1
EDITORIAL
Tracy J Costello
No abstract text is available yet for this article.
May 18, 2018: Science
https://www.readbyqxmd.com/read/29617311/special-issue-nextgen-materials-for-3d-printing
#2
EDITORIAL
Chee Kai Chua, Wai Yee Yeong, Jia An
Only a handful of materials are well-established in three-dimensional (3D) printing and well-accepted in industrial manufacturing applications. However, recent advances in 3D printable materials have shown potential for enabling numerous novel applications in the future. This special issue, consisting of 2 reviews and 10 research articles, intends to explore the possible materials that could define next-generation 3D printing.
April 4, 2018: Materials
https://www.readbyqxmd.com/read/29610665/rifampin-modulation-of-xeno-and-endobiotic-conjugating-enzyme-mrna-expression-and-associated-micrornas-in-human-hepatocytes
#3
Brandon T Gufford, Jason D Robarge, Michael T Eadon, Hongyu Gao, Hai Lin, Yunlong Liu, Zeruesenay Desta, Todd C Skaar
Rifampin is a pleiotropic inducer of multiple drug metabolizing enzymes and transporters. This work utilized a global approach to evaluate rifampin effects on conjugating enzyme gene expression with relevance to human xeno- and endo-biotic metabolism. Primary human hepatocytes from 7 subjects were treated with rifampin (10 μmol/L, 24 hours). Standard methods for RNA-seq library construction, EZBead preparation, and NextGen sequencing were used to measure UDP-glucuronosyl transferase UGT, sulfonyltransferase SULT, N acetyltransferase NAT, and glutathione-S-transferase GST mRNA expression compared to vehicle control (0...
April 2018: Pharmacology Research & Perspectives
https://www.readbyqxmd.com/read/29574101/a-novel-virus-order-bunyavirales-from-stressed-redclaw-crayfish-cherax-quadricarinatus-from-farms-in-northern-australia
#4
Kitikarn Sakuna, Jennifer Elliman, Anna Tzamouzaki, Leigh Owens
Athtabvirus, a bunya-like virus and chequa iflavirus infect redclaw crayfish (Cherax quadricarinatus) and they may cause mortality reaching 20-40% after about three weeks following transportation stress. Lesions were seen in the muscles of broodstock and juveniles and nerve cords of craylings. Using NextGen sequencing, the whole transcriptomes of a farmed case crayfish and a tank-reared, unaffected crayfish were assembled producing over 500,000 contigs. The average depth of reads was 18 replicates with a range from 15 to 44...
March 21, 2018: Virus Research
https://www.readbyqxmd.com/read/29572815/single-short-in-del-and-copy-number-variations-detection-in-monogenic-dyslipidemia-using-an-ngs-strategy
#5
O Marmontel, S Charrière, T Simonet, V Bonnet, S Dumont, M Mahl, C Jacobs, S Nony, K Chabane, D Bozon, A Janin, N Peretti, A Lachaux, C Bardel, G Millat, P Moulin, C Marçais, M Di Filippo
Optimal molecular diagnosis of primary dyslipidemia is challenging to confirm the diagnosis, test and identify at risk relatives. The aim of this study was to test the application of a single targeted next-generation sequencing (NGS) panel for hypercholesterolemia, hypocholesterolemia, and hypertriglyceridemia molecular diagnosis. NGS workflow based on a custom AmpliSeq panel was designed for sequencing the most prevalent dyslipidemia causing genes (ANGPTL3, APOA5, APOC2, APOB, GPIHBP1, LDLR, LMF1, LPL, PCSK9) on the Ion PGM™ Sequencer...
March 23, 2018: Clinical Genetics
https://www.readbyqxmd.com/read/29456859/acute-myeloid-leukemia-in-a-father-and-son-with-a-germline-mutation-of-asxl1
#6
Karen Seiter, Kyaw Htun, Paul Baskind, Zach Liu
Background: Myelodysplastic syndromes and acute myeloid leukemia usually occur sporadically in older adults. More recently cases of familial acute myeloid leukemia and/or myelodysplastic syndrome have been reported. Case presentation: Currently we report a father and son who both developed myelodysplastic syndrome that progressed to acute myeloid leukemia. Both patients were found to have the identical mutation of ASXL1 on nextgen sequencing of both hematologic and nonhematologic tissues...
2018: Biomarker Research
https://www.readbyqxmd.com/read/29423569/time-costs-for-genetic-counseling-in-preconception-carrier-screening-with-genome-sequencing
#7
Frances L Lynch, Patricia Himes, Marian J Gilmore, Elissa M Morris, Jennifer L Schneider, Tia L Kauffman, Elizabeth Shuster, Jacob A Reiss, John F Dickerson, Michael C Leo, James V Davis, Carmit K McMullen, Benjamin S Wilfond, Katrina A B Goddard
Advances in technology and the promise of personalized health care are driving greater use of genome sequencing (GS) for a variety of clinical scenarios. As health systems consider adopting GS, they need to understand the impact of GS on the organization and cost of care. While research has documented a dramatic decrease in the cost of sequencing and interpreting GS, few studies have examined how GS impacts genetic counseling workloads. This study examined the time needed to provide genetic counseling for GS in the context of preconception carrier screening...
February 8, 2018: Journal of Genetic Counseling
https://www.readbyqxmd.com/read/29315700/binding-affinity-and-decontamination-of-dermal-decontamination-gel-to-model-chemical-warfare-agent-simulants
#8
Yachao Cao, Akram Elmahdy, Hanjiang Zhu, Xiaoying Hui, Howard Maibach
Six chemical warfare agent simulants (trimethyl phosphate, dimethyl adipate, 2-chloroethyl methyl sulfide, diethyl adipate, chloroethyl phenyl sulfide and diethyl sebacate) were studied in in vitro human skin to explore relationship between dermal penetration/absorption and the mechanisms of simulant partitioning between stratum corneum (SC) and water as well as between dermal decontamination gel (DDGel) and water. Both binding affinity to and decontamination of simulants using DDGel were studied. Partition coefficients of six simulants between SC and water (Log PSC/w ) and between DDGel and water (Log PDDGel/w ) were determined...
May 2018: Journal of Applied Toxicology: JAT
https://www.readbyqxmd.com/read/29248102/the-center-for-vein-restoration-study-on-presenting-symptoms-treatment-modalities-and-outcomes-in-medicare-eligible-patients-with-chronic-venous-disorders
#9
Peter J Pappas, Sanjiv Lakhanpal, Khanh Q Nguyen, Rohan Vanjara
BACKGROUND: Chronic venous disorders (CVDs) have been estimated to affect up to 20 million Americans. Despite this huge prevalence, the signs, symptoms, and treatment outcomes in patients 65 years of age and older are not well defined. Our goal was to determine the presentation and treatment outcomes in elderly patients compared with a cohort of patients younger than 65 years. METHODS: From January 2015 to December 2016, we retrospectively reviewed prospectively collected data from 38,750 patients with CVD from the Center for Vein Restoration's electronic medical record (NextGen Healthcare Information Systems, Irvine, Calif)...
January 2018: Journal of Vascular Surgery. Venous and Lymphatic Disorders
https://www.readbyqxmd.com/read/29196973/a-novel-homozygous-mutation-in-sptbn2-leads-to-spinocerebellar-ataxia-in-a-consanguineous-family-report-of-a-new-infantile-onset-case-and-brief-review-of-the-literature
#10
Mohammad A Al-Muhaizea, Faten AlMutairi, Rawan Almass, Safinaz AlHarthi, Mazhor S Aldosary, Maysoon Alsagob, Ali AlOdaib, Dilek Colak, Namik Kaya
The objective of this study was the identification of likely genes and mutations associated with an autosomal recessive (AR) rare spinocerebellar ataxia (SCA) phenotype in two patients with infantile onset, from a consanguineous family. Using genome-wide SNP screening, autozygosity mapping, targeted Sanger sequencing and nextgen sequencing, family segregation analysis, and comprehensive neuropanel, we discovered a novel mutation in SPTBN2. Next, we utilized multiple sequence alignment of amino acids from various species as well as crystal structures provided by protein data bank (PDB# 1WYQ and 1WJM) to model the mutation site and its effect on β-III-spectrin...
December 1, 2017: Cerebellum
https://www.readbyqxmd.com/read/29023824/cholangiocyte-autophagy-contributes-to-hepatic-cystogenesis-in-polycystic-liver-disease-and-represents-a-potential-therapeutic-target
#11
Anatoliy I Masyuk, Tatyana V Masyuk, Maria J Lorenzo Pisarello, Jingyi Francess Ding, Lorena Loarca, Bing Q Huang, Nicholas F LaRusso
Polycystic liver disease (PLD) is a group of genetic disorders with limited treatment options and significant morbidity. Hepatic cysts arise from cholangiocytes exhibiting a hyperproliferative phenotype. Considering that hyperproliferation of many cell types is associated with alterations in autophagy, we hypothesized that autophagy is altered in PLD cholangiocytes, contributes to hepatic cystogenesis, and might represent a potential therapeutic target. We employed functional pathway cluster analysis and next-generation sequencing, transmission electron microscopy, immunofluorescence confocal microscopy, and western blotting to assess autophagy in human and rodent PLD cholangiocytes...
March 2018: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/28944234/the-nextgen-study-patient-motivation-for-participation-in-genome-sequencing-for-carrier-status
#12
Tia L Kauffman, Stephanie A Irving, Michael C Leo, Marian J Gilmore, Patricia Himes, Carmit K McMullen, Elissa Morris, Jennifer Schneider, Benjamin S Wilfond, Katrina A B Goddard
BACKGROUND: While translational genomic sequencing research is increasing, few studies have been limited to healthy individuals; most have focused on patients with a disease or a strong family history of a disorder. The limited studies that have included healthy individuals have focused on the disclosure of medically actionable secondary results, rather than carrier status, to assess reproductive risks. To address this important gap, we conducted the NextGen study, which focuses on carrier status and medically actionable secondary findings in a population of women planning a pregnancy...
September 2017: Molecular Genetics & Genomic Medicine
https://www.readbyqxmd.com/read/28912962/gene-panel-sequencing-in-brazilian-patients-with-retinitis-pigmentosa
#13
Kárita Antunes Costa, Mariana Vallim Salles, Chris Whitebirch, John Chiang, Juliana Maria Ferraz Sallum
BACKGROUND: Retinal dystrophies constitute a group of diseases characterized by clinical variability and pronounced genetic heterogeneity. Retinitis pigmentosa is the most common subtype of hereditary retinal dystrophy and is characterized by a progressive loss of peripheral field vision (Tunnel Vision), eventual loss of central vision, and progressive night blindness. The characteristics of the fundus changes include bone-spicule formations, attenuated blood vessels, reduced and/or abnormal electroretinograms, changes in structure imaged by optical coherence tomography, and subjective changes in visual function...
2017: International Journal of Retina and Vitreous
https://www.readbyqxmd.com/read/28838068/rat-genome-and-model-resources
#14
REVIEW
Mary Shimoyama, Jennifer R Smith, Elizabeth Bryda, Takashi Kuramoto, Laura Saba, Melinda Dwinell
Rats remain a major model for studying disease mechanisms and discovery, validation, and testing of new compounds to improve human health. The rat's value continues to grow as indicated by the more than 1.4 million publications (second to human) at PubMed documenting important discoveries using this model. Advanced sequencing technologies, genome modification techniques, and the development of embryonic stem cell protocols ensure the rat remains an important mammalian model for disease studies. The 2004 release of the reference genome has been followed by the production of complete genomes for more than two dozen individual strains utilizing NextGen sequencing technologies; their analyses have identified over 80 million variants...
July 1, 2017: ILAR Journal
https://www.readbyqxmd.com/read/28759038/high-depth-high-accuracy-microsatellite-genotyping-enables-precision-lung-cancer-risk-classification
#15
K R Velmurugan, R T Varghese, N C Fonville, H R Garner
There remains a large discrepancy between the known genetic contributions to cancer and that which can be explained by genomic variants, both inherited and somatic. Recently, understudied repetitive DNA regions called microsatellites have been identified as genetic risk markers for a number of diseases including various cancers (breast, ovarian and brain). In this study, we demonstrate an integrated process for identifying and further evaluating microsatellite-based risk markers for lung cancer using data from the cancer genome atlas and the 1000 genomes project...
November 16, 2017: Oncogene
https://www.readbyqxmd.com/read/28701812/next-generation-data-systems-and-knowledge-products-to-support-agricultural-producers-and-science-based-policy-decision-making
#16
Susan M Capalbo, John M Antle, Clark Seavert
Research on next generation agricultural systems models shows that the most important current limitation is data, both for on-farm decision support and for research investment and policy decision making. One of the greatest data challenges is to obtain reliable data on farm management decision making, both for current conditions and under scenarios of changed bio-physical and socio-economic conditions. This paper presents a framework for the use of farm-level and landscape-scale models and data to provide analysis that could be used in NextGen knowledge products, such as mobile applications or personal computer data analysis and visualization software...
July 2017: Agricultural Systems
https://www.readbyqxmd.com/read/28701811/next-generation-agricultural-system-data-models-and-knowledge-products-introduction
#17
John M Antle, James W Jones, Cynthia E Rosenzweig
Agricultural system models have become important tools to provide predictive and assessment capability to a growing array of decision-makers in the private and public sectors. Despite ongoing research and model improvements, many of the agricultural models today are direct descendants of research investments initially made 30-40 years ago, and many of the major advances in data, information and communication technology (ICT) of the past decade have not been fully exploited. The purpose of this Special Issue of Agricultural Systems is to lay the foundation for the next generation of agricultural systems data, models and knowledge products...
July 2017: Agricultural Systems
https://www.readbyqxmd.com/read/28701810/next-generation-agricultural-system-models-and-knowledge-products-synthesis-and-strategy
#18
EDITORIAL
John M Antle, James W Jones, Cynthia Rosenzweig
The purpose of this Special Issue of Agricultural Systems is to lay the foundation for the next generation of agricultural systems data, models and knowledge products. In the Introduction to this Special Issue, we described a vision for accelerating the rate of agricultural innovation and meeting the growing global need for food and fiber. In this concluding article of the NextGen Special Issue we synthesize insights and formulate a strategy to advance data, models, and knowledge products that are consistent with this vision...
July 2017: Agricultural Systems
https://www.readbyqxmd.com/read/28655556/comparison-of-two-bioinformatics-tools-used-to-characterize-the-microbial-diversity-and-predictive-functional-attributes-of-microbial-mats-from-lake-obersee-antarctica
#19
COMPARATIVE STUDY
Hyunmin Koo, Joseph A Hakim, Casey D Morrow, Peter G Eipers, Alfonso Davila, Dale T Andersen, Asim K Bej
In this study, using NextGen sequencing of the collective 16S rRNA genes obtained from two sets of samples collected from Lake Obersee, Antarctica, we compared and contrasted two bioinformatics tools, PICRUSt and Tax4Fun. We then developed an R script to assess the taxonomic and predictive functional profiles of the microbial communities within the samples. Taxa such as Pseudoxanthomonas, Planctomycetaceae, Cyanobacteria Subsection III, Nitrosomonadaceae, Leptothrix, and Rhodobacter were exclusively identified by Tax4Fun that uses SILVA database; whereas PICRUSt that uses Greengenes database uniquely identified Pirellulaceae, Gemmatimonadetes A1-B1, Pseudanabaena, Salinibacterium and Sinobacteraceae...
September 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28617221/identification-of-cancer-specific-motifs-in-mimotope-profiles-of-serum-antibody-repertoire
#20
Ekaterina Gerasimov, Alex Zelikovsky, Ion Măndoiu, Yurij Ionov
BACKGROUND: For fighting cancer, earlier detection is crucial. Circulating auto-antibodies produced by the patient's own immune system after exposure to cancer proteins are promising bio-markers for the early detection of cancer. Since an antibody recognizes not the whole antigen but 4-7 critical amino acids within the antigenic determinant (epitope), the whole proteome can be represented by a random peptide phage display library. This opens the possibility to develop an early cancer detection test based on a set of peptide sequences identified by comparing cancer patients' and healthy donors' global peptide profiles of antibody specificities...
June 7, 2017: BMC Bioinformatics
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