WordNet

a way of doing something, especially a systematic way; implies an orderly logical arrangement (usually in steps)
the 4th letter of the Roman alphabet (同)d

PrepTutorEJDIC

〈C〉(特に秩序だった)(…の)『方法』,方式《+『of』+『名』(do『ing』)》 / 〈C〉〈U〉(思考行・行為・行動の)きちょうめんさ;秩序,筋道
deuteriumの化学記号
deoxyribonucleic acidディオキシリボ核酸

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1. 臨床腫瘍学における遺伝子発現プロファイリング、プロテオミクス、およびマイクロRNAプロファイリングの概要 overview of gene expression profiling proteomics and microrna profiling in clinical oncology
2. 遺伝学およびゲノミクスのためのツール：遺伝子発現プロファイリング tools for genetics and genomics gene expression profiling
3. 限局性初期乳癌における予後予測因子 prognostic and predictive factors in early non metastatic breast cancer
4. 骨髄増殖性腫瘍の概要 overview of the myeloproliferative neoplasms
5. 多発性骨髄腫における病期分類および予後研究 staging and prognostic studies in multiple myeloma

English Journal

Development and evaluation of SYBR Green-I based quantitative PCR assays for herpes simplex virus type 1 whole transcriptome analysis.

Garvey CE1, McGowin CL2, Foster TP3.Author information 1Department of Microbiology, Immunology, and Parasitology, New Orleans, LA 70112, USA; The Stanley S. Scott Cancer Center, School of Medicine, Louisiana State University Health Sciences Center, New Orleans, LA 70112, USA; The Louisiana Vaccine Center, New Orleans, LA 70112, USA.2Department of Microbiology, Immunology, and Parasitology, New Orleans, LA 70112, USA; The Louisiana Vaccine Center, New Orleans, LA 70112, USA.3Department of Microbiology, Immunology, and Parasitology, New Orleans, LA 70112, USA; The Stanley S. Scott Cancer Center, School of Medicine, Louisiana State University Health Sciences Center, New Orleans, LA 70112, USA; The Louisiana Vaccine Center, New Orleans, LA 70112, USA. Electronic address: tfoste@lsuhsc.edu.AbstractThere is an emerging need for viral gene specific quantitative PCR (qPCR) assays that validate and complement whole transcriptome level technologies, including microarray and next generation sequencing. Therefore, a compilation of qPCR assays that represented the breadth of the entire Herpes simplex virus type 1 (HSV-1) genome were developed and evaluated. SYBR Green-I-based quantitation of each of the 74 HSV-1 lytic genes enabled accurate and reproducible detection of viral genes using a minimal number of reaction conditions. The amplification specificity of these assays for HSV-1 target genes was confirmed by amplicon size and purity determination on agarose gels, melt temperature dissociation curve analysis, and direct DNA sequencing of amplified products. Analysis of representative target genes demonstrated that these assays accurately and reproducibly quantified target gene expression across a wide and linear range of detection. In addition, minimal intra- and inter-assay variability was observed with significant well-to-well and plate-to-plate/assay-to-assay precision. To evaluate the utility of the developed qPCR assay system, kinetic profiles of viral gene expression were determined for an array of representative genes from all HSV-1 transcriptional gene classes. Collectively, these data demonstrate that the compiled optimized qPCR assays is a scalable and cost-effective method to assess HSV-1 gene expression with broad application potential, including investigation of pathogenesis and antiviral therapies. In addition, they can be employed to validate and complement evolving technologies for genome-wide transcriptome analysis.
Journal of virological methods.J Virol Methods.2014 Jun;201:101-11. doi: 10.1016/j.jviromet.2014.02.010. Epub 2014 Mar 4.
There is an emerging need for viral gene specific quantitative PCR (qPCR) assays that validate and complement whole transcriptome level technologies, including microarray and next generation sequencing. Therefore, a compilation of qPCR assays that represented the breadth of the entire Herpes simplex
PMID 24607486

Analysis of sensitivity and rapid hybridization of a multiplexed Microbial Detection Microarray.

Thissen JB1, McLoughlin K2, Gardner S2, Gu P1, Mabery S1, Slezak T2, Jaing C3.Author information 1Physical & Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94551, United States.2Computations Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94551, United States.3Physical & Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94551, United States. Electronic address: jaing2@llnl.gov.AbstractMicroarrays have proven to be useful in rapid detection of many viruses and bacteria. Pathogen detection microarrays have been used to diagnose viral and bacterial infections in clinical samples and to evaluate the safety of biological drug materials. A multiplexed version of the Lawrence Livermore Microbial Detection Array (LLMDA) was developed and evaluated with minimum detectable concentrations for pure unamplified DNA viruses, along with mixtures of viral and bacterial DNA subjected to different whole genome amplification protocols. In addition the performance of the array was tested when hybridization time was reduced from 17h to 1h. The LLMDA was able to detect unamplified vaccinia virus DNA at a concentration of 14fM, or 100,000 genome copies in 12μL of sample. With amplification, positive identification was made with only 100 genome copies of input material. When tested against human stool samples from patients with acute gastroenteritis, the microarray detected common gastroenteritis viral and bacterial infections such as rotavirus and E. coli. Accurate detection was found but with a 4-fold drop in sensitivity for a 1h compared to a 17h hybridization. The array detected 2ng (equivalent concentration of 15.6fM) of labeled DNA from a virus with 1h hybridization without any amplification, and was able to identify the components of a mixture of viruses and bacteria at species and in some cases strain level resolution. Sensitivity improved by three orders of magnitude with random whole genome amplification prior to hybridization; for instance, the array detected a DNA virus with only 20fg or 100 genome copies as input. This multiplexed microarray is an efficient tool to analyze clinical and environmental samples for the presence of multiple viral and bacterial pathogens rapidly.
Journal of virological methods.J Virol Methods.2014 Jun;201:73-8. doi: 10.1016/j.jviromet.2014.01.024. Epub 2014 Mar 3.
Microarrays have proven to be useful in rapid detection of many viruses and bacteria. Pathogen detection microarrays have been used to diagnose viral and bacterial infections in clinical samples and to evaluate the safety of biological drug materials. A multiplexed version of the Lawrence Livermore
PMID 24602557

A PGC-1α- and muscle fibre type-related decrease in markers of mitochondrial oxidative metabolism in skeletal muscle of humans with inherited insulin resistance.

Kristensen JM1, Skov V, Petersson SJ, Ortenblad N, Wojtaszewski JF, Beck-Nielsen H, Højlund K.Author information 1Department of Endocrinology, Odense University Hospital, Kløvervænget 6, 4, 5000, Odense C, Denmark.AbstractAIMS/HYPOTHESIS: Insulin resistance in obesity and type 2 diabetes is related to abnormalities in mitochondrial oxidative phosphorylation (OxPhos) in skeletal muscle. We tested the hypothesis that mitochondrial oxidative metabolism is impaired in muscle of patients with inherited insulin resistance and defective insulin signalling.
Diabetologia.Diabetologia.2014 May;57(5):1006-15. doi: 10.1007/s00125-014-3187-y. Epub 2014 Feb 9.
AIMS/HYPOTHESIS: Insulin resistance in obesity and type 2 diabetes is related to abnormalities in mitochondrial oxidative phosphorylation (OxPhos) in skeletal muscle. We tested the hypothesis that mitochondrial oxidative metabolism is impaired in muscle of patients with inherited insulin resistance
PMID 24510228