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Exploiting Inter-Sample Information and Exploring Visualization in Data Mining: from Bioinformatics to Anthropology and Aesthetics Disciplines [chapter]

Kuan-Ming Lin, Jung-Hua Liu
2011 Knowledge-Oriented Applications in Data Mining  
a collection of k microarray datasets to be integrated, where each microarray experiment X m is a table of n × s m entries storing the expression values of the n genes in g over the s m samples  ...  A Wi-Fi network is both a shared property among house members and a resource for members to access the Internet.  ...  Publisher InTech Published online 21, January, 2011 Published in print edition January, 2011 The progress of data mining technology and large public popularity establish a need for a comprehensive text  ... 
doi:10.5772/13476 fatcat:migbbebgszdcxozc3cignlgmlm

COSMIC, curating the cancer variome

Simon A. Forbes, Gurpreet W. Tang, Jon W. Teague, P. Andrew Futreal, Michael R. Stratton
2008 European Conference on Computational Biology  
A relational database holds the captured information, which is warehoused for each release.  ...  COSMIC ( is a system designed to curate the world's literature on somatic mutations in known cancer genes.  ...  Describing over 360 genes, this resource has led the curation efforts of the COSMIC project.  ... 
dblp:conf/eccb/ForbesTTFS08 fatcat:l7kftokymnbqjfbmjdjomyxiim

Proceedings of Symposium on Data Mining Applications 2014 [article]

Basit Qureshi, Yasir Javed
2020 arXiv   pre-print
The Symposium on Data Mining and Applications (SDMA 2014) is aimed to gather researchers and application developers from a wide range of data mining related areas such as statistics, computational intelligence  ...  The symposium will provide opportunities for technical collaboration among data mining and machine learning researchers around the Saudi Arabia, GCC countries and Middle-East region.  ...  correlated (over a threshold 0.5) with each particular gene.  ... 
arXiv:2001.11324v1 fatcat:ezplxohltvbvrggurw3hdkdhz4

Mining based Optimization for Breast Cancer Analysis: A Review

Murari Kumar, Shivkumar Singh Tomar, Bhupesh Gaur
2015 International Journal of Computer Applications  
For this we have studied several methodologies presented till now and based on the study presented earlier suggesting some future insights which may be a better framework for diagnosis.  ...  World is regular to eyewitness a change in deaths apropos because of different cancer diseases. Ancient age ascertaining may count the ruin due to the cancer.  ...  So in future a framework with optimized mining can be a better way in breast cancer detection.  ... 
doi:10.5120/21124-3402 fatcat:el64aytvzbgbnandpjzlb7q2lu

Towards bioinformatics assisted infectious disease control

Vitali Sintchenko, Blanca Gallego, Grace Chung, Enrico Coiera
2009 BMC Bioinformatics  
This paper proposes a novel framework for bioinformatics assisted biosurveillance and early warning to address the inefficiencies in traditional surveillance as well as the need for more timely and comprehensive  ...  Results: This framework combines the genetic and geographic data of a pathogen to reconstruct its history and to identify the migration routes through which the strains spread regionally and internationally  ...  Acknowledgements The authors thank Drs Q Wang, JR Iredell, L Hiley and GL Gilbert for their expert advice and providing genotyping data.  ... 
doi:10.1186/1471-2105-10-s2-s10 pmid:19208185 pmcid:PMC2646247 fatcat:x4jds5naerdhdenvsnltgi3chi

Knowledge and Theme Discovery across Very Large Biological Data Sets Using Distributed Queries: A Prototype Combining Unstructured and Structured Data

Uma S. Mudunuri, Mohamad Khouja, Stephen Repetski, Girish Venkataraman, Anney Che, Brian T. Luke, F. Pascal Girard, Robert M. Stephens, Jan Aerts
2013 PLoS ONE  
For our study, we investigated a likely biomedical query using the Hadoop framework. We ran queries using native MapReduce tools we developed as well as other open source and proprietary tools.  ...  The methodologies and technologies discussed in this paper set the stage for a more detailed evaluation that investigates how various data structures and data models are best mapped to the proper computational  ...  OSWatcher performance analysis, Peter Colson for standing up the BDA-lite, and the combined Solution Center team of Vince Pulice/Sundar Raghavan for debugging the minor BDA problems we encountered at  ... 
doi:10.1371/journal.pone.0080503 pmid:24312478 pmcid:PMC3846626 fatcat:2or3whazpjc2lpg6wgz7qhp3ie

Analyzing Behavior of Cancer Patients using Machine Learning Techniques

The online discussion forums and blogs are very vibrant platforms for cancer patients to express their views in the form of stories.  ...  These stories sometimes become a source of inspiration for some patients who are anxious in searching the similar cases.  ...  (Luo, Riedlinger, & Szolovits, 2014) proposed the methodology for cancer gene and its pathway prioritization using text mining and suggested the importance of the pathway prioritization over the gene prioritization  ... 
doi:10.35940/ijitee.i8414.078919 fatcat:jh7n55kokvhlhjjyi3cujxe6aa

Big Data and Causality

Hossein Hassani, Xu Huang, Mansi Ghodsi
2017 Annals of Data Science  
Causality analysis continues to remain one of the fundamental research questions and the ultimate objective for a tremendous amount of scientific studies.  ...  Data Mining, the process of uncovering hidden information from Big Data is now an important tool for causality analysis, and has been extensively exploited by scholars around the world.  ...  regulatory network [157] [158] [159] [160] , gene-gene and gene-environment interaction [166] ,cancer diagnosis in breast cancer study [180, 181] , cancer subgroup mining with heterogeneous treatment  ... 
doi:10.1007/s40745-017-0122-3 fatcat:y5fixid4ujgsjlgrcfceq5nosu

Cancer Informatics in 2018: The Mysteries of the Cancer Genome Continue to Unravel, Deep Learning Approaches the Clinic, and Passive Data Collection Demonstrates Utility

Jeremy L. Warner, Debra Patt, Section Editors for the IMIA Yearbook Section on Cancer Informatics
2019 IMIA Yearbook of Medical Informatics  
Conclusion: Cancer informatics is a broad and vigorous subfield of biomedical informatics.  ...  Results: The four selected best papers present studies addressing many facets of cancer informatics, with immediate applicability in the translational and clinical domains.  ...  Acknowledgement We would like to thank Brigitte Seroussi for her support and the reviewers for their participation in the selection process of the IMIA Yearbook.  ... 
doi:10.1055/s-0039-1677931 pmid:31419838 pmcid:PMC6697504 fatcat:kjr6ves3ibeargwgguq64kaghm

Text Mining Genotype-Phenotype Relationships from Biomedical Literature for Database Curation and Precision Medicine

Ayush Singhal, Michael Simmons, Zhiyong Lu, Andrey Rzhetsky
2016 PLoS Computational Biology  
We extract disease-gene-variant triplets from all abstracts in PubMed related to a set of ten important diseases (breast cancer, prostate cancer, pancreatic cancer, lung cancer, acute myeloid leukemia,  ...  Our approach is unique because we identify the genes and protein products associated with each mutation from not just the local text content, but from a global context as well (from the Internet and from  ...  Maricel Kann for providing us with the EMU training sets. Author Contributions Conceived and designed the experiments: ZL. Performed the experiments: AS MS. Analyzed the data: AS MS.  ... 
doi:10.1371/journal.pcbi.1005017 pmid:27902695 pmcid:PMC5130168 fatcat:mr2xqlb6kbgjxg6wyy7e7skxfu

Analysis and Detection of Health-related Misinformation on Chinese Social Media

Yue Liu, Ke Yu, Xiaofei Wu, Linbo Qing, Yonghong Peng
2019 IEEE Access  
Lastly, we propose a Health-related Misinformation Detection framework (HMD) that includes a feature-based method and a text-based method for detecting unreliable health-related information.  ...  However, health information on Internet is severely corrupted by misinformation, especially for the aged.  ...  As an example, for the word ''cancer'', reliable articles contains 1.6 of this word averagely in each article while unreliable articles over 3.  ... 
doi:10.1109/access.2019.2946624 fatcat:jvfos2rmx5aivkfoprg3fsk2ry

Data Mining in Biomedicine: Current Applications and Further Directions for Research

2009 Journal of Software Engineering and Applications  
Although extracting useful information from raw biomedical data is a challenging task, data mining is still a good area of scientific study and remains a promising and rich field for research.  ...  Establishing a methodology for knowledge discovery and management of the large amounts of heterogeneous data has become a major priority of research.  ...  The authors would like to express their sincere thanks to the Research Committee of The Hong Kong Polytechnic University for financial support of the research work presented in this paper.  ... 
doi:10.4236/jsea.2009.23022 fatcat:24qp2zpq2nbdhl22fzgtg7apwy

The IS-BioBank project

Michelangelo Ceci, Pietro Hiram Guzzi, Elio Masciari, Mauro Coluccia, Federica Mandreoli, Massimo Mecella, Fabio Fumarola, Riccardo Martoglia, Wilma Penzo
2012 ACM SIGHIT Record  
In this framework, a key role has been played by the Connectivity Map, a databank which relates diseases, physiological processes, and the action of drugs.  ...  It consists of the realization of a framework for enabling the interoperability among different biological data sources and for ultimately supporting expert users in the complex process of extraction,  ...  He is associate professor at University of Bari where he leads the Experimental Chemioterapy Laboratory. His research interests are the development of drugs for the treatment of cancer.  ... 
doi:10.1145/2384556.2384558 fatcat:cf6xqnfo35d6dfs5y45wyfh5ya

MyGeneFriends: A Social Network Linking Genes, Genetic Diseases, and Researchers

Alexis Allot, Kirsley Chennen, Yannis Nevers, Laetitia Poidevin, Arnaud Kress, Raymond Ripp, Julie Dawn Thompson, Olivier Poch, Odile Lecompte
2017 Journal of Medical Internet Research  
Allot et al JOURNAL OF MEDICAL INTERNET RESEARCH XSL • FO RenderX add new information, via micro-blogging for example; (2) spread information through the network via sharing [2]; (3) evaluate information  ...  Objective: MyGeneFriends is a Web platform inspired by social networks, devoted to genetic disease analysis, and organized around three types of proactive agents: genes, humans, and genetic diseases.  ...  The authors are thankful to Alexia Rohmer for her help with the interactive schematic view of the human body, and are also grateful to Dr. Ioannis Xenarios (Swiss Institute of Bioinformatics), Dr.  ... 
doi:10.2196/jmir.6676 pmid:28623182 pmcid:PMC5493784 fatcat:456chxeijfbcrmq36fyai5oc44

PolySearch2: a significantly improved text-mining system for discovering associations between human diseases, genes, drugs, metabolites, toxins and more

Yifeng Liu, Yongjie Liang, David Wishart
2015 Nucleic Acids Research  
PolySearch2 supports a generalized 'Given X, find all associated Ys' query, where X and Y can be selected from the aforementioned biomedical entities.  ...  PolySearch2 ( is an online textmining system for identifying relationships between biomedical entities such as human diseases, genes, SNPs, proteins, drugs, metabolites, toxins, metabolic  ...  could be 'Bisphenol A may play a role in gene regulation pathways that are potentially related to the onset and development of breast cancer'.  ... 
doi:10.1093/nar/gkv383 pmid:25925572 pmcid:PMC4489268 fatcat:sbl3ac4cxzfzfeucjpel5kwqo4
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