scholarly journals Correlation between Variation of the 3′ Region of thecagAGene inHelicobacter pyloriand Disease Outcome in Japan

2002 ◽  
Vol 186 (11) ◽  
pp. 1621-1630 ◽  
Author(s):  
Takeshi Azuma ◽  
Akiyo Yamakawa ◽  
Shiho Yamazaki ◽  
Kanako Fukuta ◽  
Masahiro Ohtani ◽  
...  
Keyword(s):  
Disease Outcome

scholarly journals Impact of RNA-seq data analysis algorithms on gene expression estimation and downstream prediction

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Li Tong ◽  
◽  
Po-Yen Wu ◽  
John H. Phan ◽  
Hamid R. Hassazadeh ◽  
...  
Keyword(s):  
Gene Expression ◽  
Data Analysis ◽  
Disease Outcome ◽  
Rna Seq ◽  
Next Generation Sequencing Technology ◽  
Normalization Methods ◽  
The Us ◽  
Sequencing Quality ◽  
Improved Accuracy ◽  
The Impact

Abstract To use next-generation sequencing technology such as RNA-seq for medical and health applications, choosing proper analysis methods for biomarker identification remains a critical challenge for most users. The US Food and Drug Administration (FDA) has led the Sequencing Quality Control (SEQC) project to conduct a comprehensive investigation of 278 representative RNA-seq data analysis pipelines consisting of 13 sequence mapping, three quantification, and seven normalization methods. In this article, we focused on the impact of the joint effects of RNA-seq pipelines on gene expression estimation as well as the downstream prediction of disease outcomes. First, we developed and applied three metrics (i.e., accuracy, precision, and reliability) to quantitatively evaluate each pipeline’s performance on gene expression estimation. We then investigated the correlation between the proposed metrics and the downstream prediction performance using two real-world cancer datasets (i.e., SEQC neuroblastoma dataset and the NIH/NCI TCGA lung adenocarcinoma dataset). We found that RNA-seq pipeline components jointly and significantly impacted the accuracy of gene expression estimation, and its impact was extended to the downstream prediction of these cancer outcomes. Specifically, RNA-seq pipelines that produced more accurate, precise, and reliable gene expression estimation tended to perform better in the prediction of disease outcome. In the end, we provided scenarios as guidelines for users to use these three metrics to select sensible RNA-seq pipelines for the improved accuracy, precision, and reliability of gene expression estimation, which lead to the improved downstream gene expression-based prediction of disease outcome.

Prognostic Evaluation of Disease Outcome in Solid Tumors Investigated With 64Cu-ATSM PET/CT

2016 ◽  
Vol 41 (2) ◽  
pp. e87-e92 ◽  
Author(s):  
Egesta Lopci ◽  
Ilaria Grassi ◽  
Domenico Rubello ◽  
Patrick M. Colletti ◽  
Silvia Cambioli ◽  
...  
Keyword(s):  
Solid Tumors ◽  
Disease Outcome ◽  
Prognostic Evaluation ◽  
Pet Ct

Expression dynamics of vascular endothelial markers: endoglin and syndecan-1 in predicting dengue disease outcome

2021 ◽  
Author(s):  
Vignesh Mariappan ◽  
Shalinda Adikari ◽  
Lokesh Shanmugam ◽  
Joshy M. Easow ◽  
Agieshkumar Balakrishna Pillai
Keyword(s):  
Disease Outcome ◽  
Vascular Endothelial ◽  
Dengue Disease ◽  
Endothelial Markers
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