Related Experiment Video
Updated: Jun 25, 2026
07:41
Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
Published on: May 17, 2019
Mass data exploration in oncology: an information synthesis approach
Julie Bourbeillon1, Catherine Garbay, Françoise Giroud
1CNRS - Grenoble Universités, UMR 5525, Laboratoire TIMC-IMAG (Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications de Grenoble). F38710 La Tronche, France.
Journal of Biomedical Informatics
|March 5, 2009
Summary
Scientists face challenges in understanding large scientific datasets. This paper introduces a novel synthesis model, inspired by Information Retrieval, to help researchers grasp complex data for better analysis and task-oriented research.
Area of Science:
- Bioinformatics
- Data Science
- Information Retrieval
Background:
- Increasingly large datasets from new technologies pose data exploitation challenges for researchers.
- Current software tools inadequately support the preliminary understanding of information spaces needed for data mining and experimental approaches.
Purpose of the Study:
- To introduce a solution for the scientific data grasp problem.
- To propose a task-oriented Information Retrieval system based on a synthesis model.
Main Methods:
- Developed a synthesis model inspired by Information Retrieval paradigms.
- Focused on the researcher's study through a 'task' notion.
- Implemented a task-oriented Information Retrieval prototype system, validated through case and user studies.
Main Results:
- Demonstrated the effectiveness of the synthesis model in the Tissue MicroArrays domain.
- Validated the prototype system through case and user studies, confirming its utility.
Conclusions:
- The proposed task-oriented Information Retrieval system effectively addresses the scientific data grasp problem.
- The model shows potential for extension to other application domains and further development.
Related Concept Videos
01:21Cancer Survival Analysis
Cancer survival analysis focuses on quantifying and interpreting the time from a key starting point, such as diagnosis or the initiation of treatment, to a specific endpoint, such as remission or death. This analysis provides critical insights into treatment effectiveness and factors that influence patient outcomes, helping to shape clinical decisions and guide prognostic evaluations. A cornerstone of oncology research, survival analysis tackles the challenges of skewed, non-normally...
01:24Kaplan-Meier Approach
The Kaplan-Meier estimator is a non-parametric method used to estimate the survival function from time-to-event data. In medical research, it is frequently employed to measure the proportion of patients surviving for a certain period after treatment. This estimator is fundamental in analyzing time-to-event data, making it indispensable in clinical trials, epidemiological studies, and reliability engineering. By estimating survival probabilities, researchers can evaluate treatment effectiveness,...
02:50Combination Therapies and Personalized Medicine
Combining two or more treatment methods increases the life span of cancer patients while reducing damage to vital organs or tissue from the overuse of a single treatment. Combination therapy also targets different cancer-inducing pathways, thus reducing the chances of developing resistance to treatment.
The combination of the drug acetazolamide and sulforaphane is a good example of combination therapy to treat cancer. The cells in the interior of a large tumor often die due to the hypoxic and...
The combination of the drug acetazolamide and sulforaphane is a good example of combination therapy to treat cancer. The cells in the interior of a large tumor often die due to the hypoxic and...
03:03mTOR Signaling and Cancer Progression
The mammalian target of rapamycin or mTOR protein was discovered in 1994 due to its direct interaction with rapamycin. The protein gets its name from a yeast homolog called TOR. The mTOR protein complex in mammalian cells plays a major role in balancing anabolic processes such as the synthesis of proteins, lipids, and nucleotides and catabolic processes, such as autophagy in response to environmental cues, such as availability of nutrients and growth factors.
The mTOR pathway or the...
The mTOR pathway or the...
02:43Mouse Models of Cancer Study
Mice have long served as models for studying human biology and pathology because of their phylogenetic and physiological similarity with humans. They are also easy to maintain and breed in the laboratory, and hence, many inbred strains are now available for research. Studies on mice have contributed immeasurably to our understanding of cancer biology.
The development of transgenic, knockout, and knock-in mice has led to an exponential increase in their use as model organisms in research,...
The development of transgenic, knockout, and knock-in mice has led to an exponential increase in their use as model organisms in research,...
02:02Genomics
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...