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https://www.readbyqxmd.com/read/29435930/quantum-language-of-microrna-application-for-new-cancer-therapeutic-targets
#1
Yoichi Robertus Fujii
MicroRNA (miRNA) is the noncoding gene: therefore, the miRNA gene inheritably controls protein gene expression through transcriptional and post-transcriptional levels. Aberrant expression of miRNA genes causes various human diseases, especially cancers. Although cancer is a complex disease, cancer/miRNA implication has yet been grasped from the perspective of miRNA profile in bed side. Since miRNA is the mobile genetic element, the clinical verification of miRNA in microvesicle of blood is too much straggle to predict potential cancer/miRNA associations without bioinformatical computing...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29435448/toward-a-tiered-model-to-share-clinical-trial-data-and-samples-in-precision-oncology
#2
Stefanie Broes, Denis Lacombe, Michiel Verlinden, Isabelle Huys
The recent revolution in science and technology applied to medical research has left in its wake a trial of biomedical data and human samples; however, its opportunities remain largely unfulfilled due to a number of legal, ethical, financial, strategic, and technical barriers. Precision oncology has been at the vanguard to leverage this potential of "Big data" and samples into meaningful solutions for patients, considering the need for new drug development approaches in this area (due to high costs, late-stage failures, and the molecular diversity of cancer)...
2018: Frontiers in Medicine
https://www.readbyqxmd.com/read/29425180/comment-from-the-editor-to-the-special-issue-big-data-and-precision-medicine-series-i-lung-cancer-early-diagnosis
#3
EDITORIAL
Roberto Gasparri, Giulia Sedda, Lorenzo Spaggiari
With this Editorial we want to present the Special Issue "Big Data and Precision Medicine Series I: Lung Cancer Early Diagnosis" to the scientific community, which aims to gather experts on the early detection of lung cancer in order to implement common efforts in the fight against cancer.
February 9, 2018: Journal of Clinical Medicine
https://www.readbyqxmd.com/read/29422764/integrated-theory-and-data-driven-feature-selection-in-gene-expression-data-analysis
#4
Vineet K Raghu, Xiaoyu Ge, Panos K Chrysanthis, Panayiotis V Benos
The exponential growth of high dimensional biological data has led to a rapid increase in demand for automated approaches for knowledge production. Existing methods rely on two general approaches to address this challenge: 1) the Theory-driven approach, which utilizes prior accumulated knowledge, and 2) the Data-driven approach, which solely utilizes the data to deduce scientific knowledge. Both of these approaches alone suffer from bias toward past/present knowledge, as they fail to incorporate all of the current knowledge that is available to make new discoveries...
April 2017: Proceedings
https://www.readbyqxmd.com/read/29416616/microrna-761-promotes-the-sensitivity-of-colorectal-cancer-cells-to-5-fluorouracil-through-targeting-foxm1
#5
Shuguang Cao, Limiao Lin, Xuanping Xia, Hao Wu
Resistance to chemotherapy is a big challenge for treatment of patients with colorectal cancer; however; the mechanism underlying chemoresistance in colorectal cancer cell has not been elucidated. MicroRNAs (miRNAs) are new players in the development of drug chemoresistance. In our study, we indicated that overexpression of miR-761 promoted the sensitivity of colorectal cancer cells to 5-Fluorouracil (5-FU). miR-761 expression was downregulated in colorectal cancer cell lines and tissues. miR-761 expression was lower in patients with low grade than in patients with high grade...
January 2, 2018: Oncotarget
https://www.readbyqxmd.com/read/29416205/upper-urinary-tract-urothelial-cancer-in-croatian-and-bosnian-endemic-nephropathy-regions
#6
Josip Samardzic, Sefik Hasukic
Objectives: Endemic nephropathy (EN) is a chronic tubulointerstitial renal disease associated with increased incidence of upper urinary tract urothelial cancer (UTUC) occurring predominantly in geographically limited areas in villages along big Danube river. Based on results obtained by the research it is confirmed that aristolochic acid is causative agent of endemic nephropathy (EN). Aim: The aim of this study was to determine characteristics of UTUC in two endemic areas and analyze trends in 5-year period...
December 2017: Medical Archives
https://www.readbyqxmd.com/read/29415581/a-new-approach-to-assess-drug-sensitivity-in-cells-for-novel-drug-discovery
#7
Luca Mazzarella, Giuseppe Curigliano
There is a pressing need to improve strategies to select candidate drugs early on in the drug development pipeline, especially in oncology, as the efficiency of new drug approval has steadily declined these past years. Traditional methods of drug screening have relied on low-cost assays on cancer cell lines growing on plastic dishes. Recent massive-scale screens have generated big data amenable for sophisticated computational modeling and integration with clinical data. However, 2D culturing has several intrinsic limitations and novel methodologies have been devised for culturing in three dimensions, to include cells from the tumor immune microenvironment...
February 7, 2018: Expert Opinion on Drug Discovery
https://www.readbyqxmd.com/read/29374886/-some-reflections-on-evidenced-based-medicine-precision-medicine-and-big-data-based-research
#8
J L Tang, L M Li
Evidence-based medicine remains the best paradigm for medical practice. However, evidence alone is not decisions; decisions must also consider resources available and the values of people. Evidence shows that most of those treated with blood pressure-lowering, cholesterol-lowering, glucose-lowering and anti-cancer drugs do not benefit from preventing severe complications such as cardiovascular events and deaths. This implies that diagnosis and treatment in modern medicine in many circumstances is imprecise...
January 10, 2018: Zhonghua Liu Xing Bing Xue za Zhi, Zhonghua Liuxingbingxue Zazhi
https://www.readbyqxmd.com/read/29367653/investigation-of-radiomic-signatures-for-local-recurrence-using-primary-tumor-texture-analysis-in-oropharyngeal-head-and-neck-cancer-patients
#9
(no author information available yet)
Radiomics is one such "big data" approach that applies advanced image refining/data characterization algorithms to generate imaging features that can quantitatively classify tumor phenotypes in a non-invasive manner. We hypothesize that certain textural features of oropharyngeal cancer (OPC) primary tumors will have statistically significant correlations to patient outcomes such as local control. Patients from an IRB-approved database dispositioned to (chemo)radiotherapy for locally advanced OPC were included in this retrospective series...
January 24, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29363432/a-bioinformatics-potpourri
#10
EDITORIAL
Christian Sch├Ânbach, Jinyan Li, Lan Ma, Paul Horton, Muhammad Farhan Sjaugi, Shoba Ranganathan
The 16th International Conference on Bioinformatics (InCoB) was held at Tsinghua University, Shenzhen from September 20 to 22, 2017. The annual conference of the Asia-Pacific Bioinformatics Network featured six keynotes, two invited talks, a panel discussion on big data driven bioinformatics and precision medicine, and 66 oral presentations of accepted research articles or posters. Fifty-seven articles comprising a topic assortment of algorithms, biomolecular networks, cancer and disease informatics, drug-target interactions and drug efficacy, gene regulation and expression, imaging, immunoinformatics, metagenomics, next generation sequencing for genomics and transcriptomics, ontologies, post-translational modification, and structural bioinformatics are the subject of this editorial for the InCoB2017 supplement issues in BMC Genomics, BMC Bioinformatics, BMC Systems Biology and BMC Medical Genomics...
January 19, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29354892/-2017-hotspots-review-and-outlook-on-gastric-cancer-surgery-in-china
#11
Zhenggang Zhu
The 12th International Gastric Cancer Congress (12th IGCC ) was successfully held in Beijing, China on 20th-23rd April, 2017, which gave Chinese surgeons a great opportunity to share clinical progress and experience in the surgical treatment of gastric cancer with colleagues from different countries. At the end of 2017, this article hereby reviews briefly the achievements of surgical work of gastric cancer, which was done by our Chinese surgeons in this year. Some aspects will be reviewed, aiming at summarizing experience, affirming achievement, finding out the gap and promoting improvement in the future...
January 25, 2018: Zhonghua Wei Chang Wai Ke za Zhi, Chinese Journal of Gastrointestinal Surgery
https://www.readbyqxmd.com/read/29351341/labeling-for-big-data-in-radiation-oncology-the-radiation-oncology-structures-ontology
#12
Jean-Emmanuel Bibault, Eric Zapletal, Bastien Rance, Philippe Giraud, Anita Burgun
PURPOSE: Leveraging Electronic Health Records (EHR) and Oncology Information Systems (OIS) has great potential to generate hypotheses for cancer treatment, since they directly provide medical data on a large scale. In order to gather a significant amount of patients with a high level of clinical details, multicenter studies are necessary. A challenge in creating high quality Big Data studies involving several treatment centers is the lack of semantic interoperability between data sources...
2018: PloS One
https://www.readbyqxmd.com/read/29340066/clinicopathological-and-prognostic-significance-of-sdc1-overexpression-in-breast-cancer
#13
Xiangrong Cui, Xuan Jing, Qin Yi, Chunlan Long, Jie Tian, Jing Zhu
Background: Breast cancer is the leading cause of cancer death among global women, and its early diagnosis and treatment are very urgent. Syndecan-1 (SDC1) is a heparin sulfate proteoglycan, which has been linked with the prognosis and treatment response in a various tumor type. To investigate whether SDC1 can serve as a prognostic indictor in breast cancer, bioinformatic analyses were performed in the present study. Methods: SDC1 expression was assessed using Oncomine analysis...
December 19, 2017: Oncotarget
https://www.readbyqxmd.com/read/29317304/lncrna-and-mrna-integration-network-reconstruction-reveals-novel-key-regulators-in-esophageal-squamous-cell-carcinoma
#14
Shervin Alaei, Balal Sadeghi, Ali Najafi, Ali Masoudi-Nejad
Many experimental and computational studies have identified key protein coding genes in initiation and progression of esophageal squamous cell carcinoma (ESCC). However, the number of researches that tried to reveal the role of long non-coding RNAs (lncRNAs) in ESCC has been limited. LncRNAs are one of the important regulators of cancers which are transcribed dominantly in the genome and in various conditions. The main goal of this study was to use a systems biology approach to predict novel lncRNAs as well as protein coding genes associated with ESCC and assess their prognostic values...
January 6, 2018: Genomics
https://www.readbyqxmd.com/read/29301991/cancer-institute-head-touts-big-data-and-basic-research
#15
Jocelyn Kaiser
No abstract text is available yet for this article.
January 5, 2018: Science
https://www.readbyqxmd.com/read/29300814/body-mass-index-and-20-specific-cancers-re-analyses-of-dose-response-meta-analyses-of-observational-studies
#16
E K Choi, H B Park, K H Lee, J H Park, M Eisenhut, H J van der Vliet, G Kim, J I Shin
Background: Objectives were to provide an overview and understand the strength of evidence and extent of potential biases and validity of claimed associations between Body Mass Index (BMI) and risk of developing cancer. Methods: We performed an umbrella review and comprehensively re-analysed the data of dose-response meta-analyses on associations between BMI and risk of 20-specific cancers (bladder, brain, breast, colonic, rectal, endometrial, gallbladder, gastric, leukemia, liver, lung, melanoma, multiple myeloma, non-Hodgkins lymphoma, oesophagus, ovarian, pancreatic, prostate, renal, thyroid) by adding big data or missed individual studies...
December 28, 2017: Annals of Oncology: Official Journal of the European Society for Medical Oncology
https://www.readbyqxmd.com/read/29298978/a-machine-learning-approach-to-integrate-big-data-for-precision-medicine-in-acute-myeloid-leukemia
#17
Su-In Lee, Safiye Celik, Benjamin A Logsdon, Scott M Lundberg, Timothy J Martins, Vivian G Oehler, Elihu H Estey, Chris P Miller, Sylvia Chien, Jin Dai, Akanksha Saxena, C Anthony Blau, Pamela S Becker
Cancers that appear pathologically similar often respond differently to the same drug regimens. Methods to better match patients to drugs are in high demand. We demonstrate a promising approach to identify robust molecular markers for targeted treatment of acute myeloid leukemia (AML) by introducing: data from 30 AML patients including genome-wide gene expression profiles and in vitro sensitivity to 160 chemotherapy drugs, a computational method to identify reliable gene expression markers for drug sensitivity by incorporating multi-omic prior information relevant to each gene's potential to drive cancer...
January 3, 2018: Nature Communications
https://www.readbyqxmd.com/read/29277326/identification-of-the-functional-alteration-signatures-across-different-cancer-types-with-support-vector-machine-and-feature-analysis
#18
ShaoPeng Wang, YuDong Cai
Cancers are regarded as malignant proliferations of tumor cells present in many tissues and organs, which can severely curtail the quality of human life. The potential of using plasma DNA for cancer detection has been widely recognized, leading to the need of mapping the tissue-of-origin through the identification of somatic mutations. With cutting-edge technologies, such as next-generation sequencing, numerous somatic mutations have been identified, and the mutation signatures have been uncovered across different cancer types...
December 19, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29247836/coexpression-network-analysis-identifies-transcriptional-modules-associated-with-genomic-alterations-in-neuroblastoma
#19
Liulin Yang, Yun Li, Zhi Wei, Xiao Chang
Neuroblastoma is a highly complex and heterogeneous cancer in children. Acquired genomic alterations including MYCN amplification, 1p deletion and 11q deletion are important risk factors and biomarkers in neuroblastoma. Here, we performed a co-expression-based gene network analysis to study the intrinsic association between specific genomic changes and transcriptome organization. We identified multiple gene coexpression modules which are recurrent in two independent datasets and associated with functional pathways including nervous system development, cell cycle, immune system process and extracellular matrix/space...
December 13, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29246519/hybrid-method-based-on-information-gain-and-support-vector-machine-for-gene-selection-in-cancer-classification
#20
Lingyun Gao, Mingquan Ye, Xiaojie Lu, Daobin Huang
It remains a great challenge to achieve sufficient cancer classification accuracy with the entire set of informative genes, due to the high dimensions, small sample size, and big noise of gene expression data. We thus proposed a hybrid gene selection method, Information Gain-Support Vector Machine (IG-SVM) in this study. IG was initially employed to filter irrelevant and redundant genes. Then, further removal of redundant genes was performed using SVM to eliminate the noise in the datasets more effectively...
December 12, 2017: Genomics, Proteomics & Bioinformatics
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