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https://www.readbyqxmd.com/read/29215763/breast-cancer-the-translation-of-big-genomic-data-to-cancer-precision-medicine
#1
REVIEW
Siew-Kee Low, Hitoshi Zembutsu, Yusuke Nakamura
Cancer is a complex genetic disease that consequence from the accumulation of genomic alterations, in which germline variations predispose individuals to cancer and somatic alterations initiate and trigger the progression of cancer. For the past two decades, genomic research has advanced remarkably, evolving from single-gene to whole-genome screening by using genome-wide association study (GWAS) and next generation sequencing (NGS) that contributing to big genomic data. International collaborative efforts have contributed in curating these data to identify clinically significant alterations that could be used in the clinical settings...
December 7, 2017: Cancer Science
https://www.readbyqxmd.com/read/29208398/future-cancer-research-priorities-in-the-usa-a-lancet-oncology-commission
#2
REVIEW
Elizabeth M Jaffee, Chi Van Dang, David B Agus, Brian M Alexander, Kenneth C Anderson, Alan Ashworth, Anna D Barker, Roshan Bastani, Sangeeta Bhatia, Jeffrey A Bluestone, Otis Brawley, Atul J Butte, Daniel G Coit, Nancy E Davidson, Mark Davis, Ronald A DePinho, Robert B Diasio, Giulio Draetta, A Lindsay Frazier, Andrew Futreal, Sam S Gambhir, Patricia A Ganz, Levi Garraway, Stanton Gerson, Sumit Gupta, James Heath, Ruth I Hoffman, Cliff Hudis, Chanita Hughes-Halbert, Ramy Ibrahim, Hossein Jadvar, Brian Kavanagh, Rick Kittles, Quynh-Thu Le, Scott M Lippman, David Mankoff, Elaine R Mardis, Deborah K Mayer, Kelly McMasters, Neal J Meropol, Beverly Mitchell, Peter Naredi, Dean Ornish, Timothy M Pawlik, Jeffrey Peppercorn, Martin G Pomper, Derek Raghavan, Christine Ritchie, Sally W Schwarz, Richard Sullivan, Richard Wahl, Jedd D Wolchok, Sandra L Wong, Alfred Yung
We are in the midst of a technological revolution that is providing new insights into human biology and cancer. In this era of big data, we are amassing large amounts of information that is transforming how we approach cancer treatment and prevention. Enactment of the Cancer Moonshot within the 21st Century Cures Act in the USA arrived at a propitious moment in the advancement of knowledge, providing nearly US$2 billion of funding for cancer research and precision medicine. In 2016, the Blue Ribbon Panel (BRP) set out a roadmap of recommendations designed to exploit new advances in cancer diagnosis, prevention, and treatment...
November 2017: Lancet Oncology
https://www.readbyqxmd.com/read/29207087/p-stat3-in-luminal-breast-cancer-integrated-rna-protein-pooled-analysis-and-results-from-the-big-2-98-phase-iii-trial
#3
Amir Sonnenblick, Roberto Salgado, Sylvain Brohée, Tamar Zahavi, Tamar Peretz, Gert Van den Eynden, Ghizlane Rouas, Asher Salmon, Prudence A Francis, Angelo Di Leo, John P A Crown, Giuseppe Viale, Laura Daly, Bahar Javdan, Sho Fujisawa, Evandro De Azambuja, Ameye Lieveke, Martine J Piccart, Jacqueline F Bromberg, Christos Sotiriou
In the present study, in order to investigate the role of signal transducer and activator of transcription 3 (STAT3) in estrogen receptor (ER)-positive breast cancer prognosis, we evaluated the phosphorylated STAT3 (p-STAT3) status and investigated its effect on the outcome in a pooled analysis and in a large prospective adjuvant trial. By using the TCGA repository, we developed gene signatures that reflected the level of p-STAT3. Using pooled analysis of the expression data from luminal breast cancer patients, we assessed the effects of the p-STAT3 expression signature on prognosis...
November 27, 2017: International Journal of Oncology
https://www.readbyqxmd.com/read/29206573/associations-between-health-literacy-cancer-related-knowledge-and-preventive-health-behaviors-in-community-dwelling-korean-adults
#4
Youn-Jung Son, Sun-Hee Kim, Gi Yon Kim, Heesook Son
This cross-sectional study aimed to examine the association between health literacy, cancer-related knowledge, and preventive health behaviors among community-dwelling adults in Korea. Data were collected from 542 adults aged ≥ 18 years living in five big provinces in Korea (Seoul, Gyeonggi-do, Gyeongsang-do, Chungcheong-do, and Gangwon-do). Socio-demographic and health-related characteristics were determined using structured questionnaires. Health literacy, cancer-related knowledge, and engagement in preventive health behaviors were measured using validated instruments...
December 5, 2017: Journal of Health Communication
https://www.readbyqxmd.com/read/29206308/classification-of-early-stage-non-small-cell-lung-cancer-by-weighing-gene-expression-profiles-with-connectivity-information
#5
Ao Zhang, Suyan Tian
Pathway-based feature selection algorithms, which utilize biological information contained in pathways to guide which features/genes should be selected, have evolved quickly and become widespread in the field of bioinformatics. Based on how the pathway information is incorporated, we classify pathway-based feature selection algorithms into three major categories-penalty, stepwise forward, and weighting. Compared to the first two categories, the weighting methods have been underutilized even though they are usually the simplest ones...
December 5, 2017: Biometrical Journal. Biometrische Zeitschrift
https://www.readbyqxmd.com/read/29202718/google-as-a-cancer-control-tool-in-queensland
#6
Xiaodong Huang, Peter Baade, Danny R Youlden, Philippa H Youl, Wenbiao Hu, Michael G Kimlin
BACKGROUND: Recent advances in methodologies utilizing "big data" have allowed researchers to investigate the use of common internet search engines as a real time tool to track disease. Little is known about its utility with tracking cancer incidence. This study aims to investigate the potential correlates of monthly internet search volume indexes (SVIs) and observed monthly age standardised incidence rates (ASRs) for breast cancer, colorectal cancer, melanoma and prostate cancer. METHODS: The monthly ASRs for the four cancers in Queensland were calculated using data from the Queensland Cancer Registry between January 2006 and December 2012...
December 4, 2017: BMC Cancer
https://www.readbyqxmd.com/read/29202614/liquid-biopsies-in-gastrointestinal-malignancies-when-is-the-big-day
#7
Anthony Lopez, Kazuto Harada, Dilsa Mizrak Kaya, Xiaochuan Dong, Shumei Song, Jaffer A Ajani
Tumor tissue sample is currently the gold standard for diagnosing gastrointestinal cancers, but also for genomic/immune component analyses that can help in the selection of therapy. However, this approach of studying a 'representative' sample of the tumor does not address inherent heterogeneity. Liquid biopsies, mainly represented by circulating tumor cells, circulating tumor DNA, tumor exosomes, and microRNAs, have the potential to assess various biomarkers for early detection of cancer, carrying out genomic/immune profiling for not only selection of appropriate therapy but also to monitor effect of therapy...
December 4, 2017: Expert Review of Anticancer Therapy
https://www.readbyqxmd.com/read/29199461/biomarkers-delivering-on-the-expectation-of-molecularly-driven-quantitative-health
#8
Jennifer L Wilson, Russ B Altman
Biomarkers are the pillars of precision medicine and are delivering on expectations of molecular, quantitative health. These features have made clinical decisions more precise and personalized, but require a high bar for validation. Biomarkers have improved health outcomes in a few areas such as cancer, pharmacogenetics, and safety. Burgeoning big data research infrastructure, the internet of things, and increased patient participation will accelerate discovery in the many areas that have not yet realized the full potential of biomarkers for precision health...
January 1, 2017: Experimental Biology and Medicine
https://www.readbyqxmd.com/read/29197663/prediction-of-potential-drivers-connecting-different-dysfunctional-levels-in-lung-adenocarcinoma-via-a-protein-protein-interaction-network
#9
Fei Yuan, WenCong Lu
Lung cancer is a serious disease that threatens an affected individual's life. Its pathogenesis has not yet to be fully described, thereby impeding the development of effective treatments and preventive measures. "Cancer driver" theory considers that tumor initiation can be associated with a number of specific mutations in genes called cancer driver genes. Four omics levels, namely, (1) methylation, (2) microRNA, (3) mutation, and (4) mRNA levels, are utilized to cluster cancer driver genes. In this study, the known dysfunctional genes of these four levels were used to identify novel driver genes of lung adenocarcinoma, a subtype of lung cancer...
November 29, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29197659/network-based-method-for-mining-novel-hpv-infection-related-genes-using-random-walk-with-restart-algorithm
#10
Liucun Zhu, Fangchu Su, YaoChen Xu, Quan Zou
The human papillomavirus (HPV), a common virus that infects the reproductive tract, may lead to malignant changes within the infection area in certain cases and is directly associated with such cancers as cervical cancer, anal cancer, and vaginal cancer. Identification of novel HPV infection related genes can lead to a better understanding of the specific signal pathways and cellular processes related to HPV infection, providing information for the development of more efficient therapies. In this study, several novel HPV infection related genes were predicted by a computation method based on the known genes involved in HPV infection from HPVbase...
November 29, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29184612/efficacy-of-prucalopride-in-bowel-cleansing-before-colonoscopy-results-of-a-pilot-study
#11
Vito Domenico Corleto, Giulio Antonelli, Chiara Coluccio, Lucia D'Alba, Emilio di Giulio
Colonoscopy is a crucial diagnostic instrument for colorectal cancer screening and an adequate bowel preparation is definitely decisive for the success of the procedure. Especially in elderly patients, bowel cleansing is considered a big issue, because it is often poorly tolerated for many reasons (like inability to swallow large volume of liquids or unlikable taste); this can cause a suboptimal preparation that may lead to miss a neoplastic lesion. There is relatively little data about how to improve preparation tolerability...
November 16, 2017: World Journal of Gastrointestinal Endoscopy
https://www.readbyqxmd.com/read/29181247/interactive-visualization-of-healthcare-data-using-tableau
#12
Inseok Ko, Hyejung Chang
Objectives: Big data analysis is receiving increasing attention in many industries, including healthcare. Visualization plays an important role not only in intuitively showing the results of data analysis but also in the whole process of collecting, cleaning, analyzing, and sharing data. This paper presents a procedure for the interactive visualization and analysis of healthcare data using Tableau as a business intelligence tool. Methods: Starting with installation of the Tableau Desktop Personal version 10...
October 2017: Healthcare Informatics Research
https://www.readbyqxmd.com/read/29166852/unsupervised-gene-selection-using-biological-knowledge-application-in-sample-clustering
#13
Sudipta Acharya, Sriparna Saha, N Nikhil
BACKGROUND: Classification of biological samples of gene expression data is a basic building block in solving several problems in the field of bioinformatics like cancer and other disease diagnosis and making a proper treatment plan. One big challenge in sample classification is handling large dimensional and redundant gene expression data. To reduce the complexity of handling this high dimensional data, gene/feature selection plays a major role. RESULTS: The current paper explores the use of biological knowledge acquired from Gene Ontology database in selecting the proper subset of genes which can further participate in clustering of samples...
November 22, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/29166151/biomarkers-and-imaging-of-breast-cancer
#14
Olena Weaver, Jessica W T Leung
OBJECTIVE: The goals of this review are to provide background information on the definitions and applications of the general term "biomarker" and to highlight the specific roles of breast imaging biomarkers in research and clinical breast cancer care. A search was conducted of the main electronic biomedical databases (PubMed, Cochrane, Embase, MEDLINE [Ovid], Scopus, and Web of Science). The search was focused on review literature in general radiology and biomedical sciences and on reviews and primary research articles on biomarkers in breast imaging over the 15 years ending in June 2017...
November 22, 2017: AJR. American Journal of Roentgenology
https://www.readbyqxmd.com/read/29165139/analysis-of-the-evidence-practice-gap-to-facilitate-proper-medical-care-for-the-elderly-investigation-using-databases-of-utilization-measures-for-national-database-of-health-insurance-claims-and-specific-health-checkups-of-japan-ndb
#15
Takeo Nakayama, Yuichi Imanaka, Yasushi Okuno, Genta Kato, Tomohiro Kuroda, Rei Goto, Shiro Tanaka, Hiroshi Tamura, Shunichi Fukuhara, Shingo Fukuma, Manabu Muto, Motoko Yanagita, Yosuke Yamamoto
As Japan becomes a super-aging society, presentation of the best ways to provide medical care for the elderly, and the direction of that care, are important national issues. Elderly people have multi-morbidity with numerous medical conditions and use many medical resources for complex treatment patterns. This increases the likelihood of inappropriate medical practices and an evidence-practice gap. The present study aimed to: derive findings that are applicable to policy from an elucidation of the actual state of medical care for the elderly; establish a foundation for the utilization of National Database of Health Insurance Claims and Specific Health Checkups of Japan (NDB), and present measures for the utilization of existing databases in parallel with NDB validation...
June 6, 2017: Environmental Health and Preventive Medicine
https://www.readbyqxmd.com/read/29164177/a-systems-medicine-approach-translating-emerging-science-into-individualized-wellness
#16
REVIEW
J S Bland, D M Minich, B M Eck
In today's aging society, more people are living with lifestyle-related noncommunicable diseases (NCDs) such as cardiovascular disease, type 2 diabetes, obesity, and cancer. Numerous opinion-leader organizations recommend lifestyle medicine as the first-line approach in NCD prevention and treatment. However, there is a strong need for a personalized approach as "one-size-fits-all" public health recommendations have been insufficient in addressing the interindividual differences in the diverse populations. Advancement in systems biology and the "omics" technologies has allowed comprehensive analysis of how complex biological systems are impacted upon external perturbations (e...
2017: Advances in Medicine
https://www.readbyqxmd.com/read/29156828/the-%C3%AE-glucan-from-lentinus-edodes-suppresses-cell-proliferation-and-promotes-apoptosis-in-estrogen-receptor-positive-breast-cancers
#17
Hui Xu, Siwei Zou, Xiaojuan Xu
Breast cancer is now the most common cancer in worldwide women, and novel interventions are needed to overcome the resistance occurring in the estrogen-targeted endocrine therapy. Herein, we demonstrate that the β-glucan from Lentinus edodes (LNT) exhibited a profound inhibition ratio of ∼53% against estrogen receptor positive (ER+) MCF-7 tumor growth in nude mice similar to the positive control of cisplatin. Immunohistochemistry images showed that LNT evidently suppressed cell proliferation and promoted apoptosis in MCF-7 tumor tissues...
October 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29135771/detecting-lung-and-colorectal-cancer-recurrence-using-structured-clinical-administrative-data-to-enable-outcomes-research-and-population-health-management
#18
Michael J Hassett, Hajime Uno, Angel M Cronin, Nikki M Carroll, Mark C Hornbrook, Debra Ritzwoller
INTRODUCTION: Recurrent cancer is common, costly, and lethal, yet we know little about it in community-based populations. Electronic health records and tumor registries contain vast amounts of data regarding community-based patients, but usually lack recurrence status. Existing algorithms that use structured data to detect recurrence have limitations. METHODS: We developed algorithms to detect the presence and timing of recurrence after definitive therapy for stages I-III lung and colorectal cancer using 2 data sources that contain a widely available type of structured data (claims or electronic health record encounters) linked to gold-standard recurrence status: Medicare claims linked to the Cancer Care Outcomes Research and Surveillance study, and the Cancer Research Network Virtual Data Warehouse linked to registry data...
December 2017: Medical Care
https://www.readbyqxmd.com/read/29115964/the-matex-cohort-a-finnish-population-register-birth-cohort-to-study-health-effects-of-prenatal-exposures
#19
Isabell K Rumrich, Kirsi Vähäkangas, Matti Viluksela, Mika Gissler, Heljä-Marja Surcel, Hanna de Ruyter, Jukka Jokinen, Otto Hänninen
BACKGROUND: The prevalence of chronic diseases, such as immune, neurobehavioral, and metabolic disorders has increased in recent decades. According to the concept of Developmental Origin of Health and Disease (DOHaD), developmental factors associated with environmental exposures and maternal lifestyle choices may partly explain the observed increase. Register-based epidemiology is a prime tool to investigate the effects of prenatal exposures over the whole life course. Our aim is to establish a Finnish register-based birth cohort, which can be used to investigate various (prenatal) exposures and their effects during the whole life course with first analyses focusing on maternal smoking and air pollution...
November 7, 2017: BMC Public Health
https://www.readbyqxmd.com/read/29114619/incorporating-big-data-into-treatment-plan-evaluation-development-of-statistical-dvh-metrics-and-visualization-dashboards
#20
Charles S Mayo, John Yao, Avraham Eisbruch, James M Balter, Dale W Litzenberg, Martha M Matuszak, Marc L Kessler, Grant Weyburn, Carlos J Anderson, Dawn Owen, William C Jackson, Randall Ten Haken
Purpose: To develop statistical dose-volume histogram (DVH)-based metrics and a visualization method to quantify the comparison of treatment plans with historical experience and among different institutions. Methods and materials: The descriptive statistical summary (ie, median, first and third quartiles, and 95% confidence intervals) of volume-normalized DVH curve sets of past experiences was visualized through the creation of statistical DVH plots. Detailed distribution parameters were calculated and stored in JavaScript Object Notation files to facilitate management, including transfer and potential multi-institutional comparisons...
July 2017: Advances in Radiation Oncology
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