AIMC Topic: Neoplasms

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Protein-protein interaction network construction for cancer using a new L1/2-penalized Net-SVM model.

Genetics and molecular research : GMR
Identifying biomarker genes and characterizing interaction pathways with high-dimensional and low-sample size microarray data is a major challenge in computational biology. In this field, the construction of protein-protein interaction (PPI) networks...

Integrated gene set analysis for microRNA studies.

Bioinformatics (Oxford, England)
MOTIVATION: Functional interpretation of miRNA expression data is currently done in a three step procedure: select differentially expressed miRNAs, find their target genes, and carry out gene set overrepresentation analysis Nevertheless, major limita...

Integrative Analysis of Proteomic, Glycomic, and Metabolomic Data for Biomarker Discovery.

IEEE journal of biomedical and health informatics
Studies associating changes in the levels of multiple biomolecules including proteins, glycans, glycoproteins, and metabolites with the onset of cancer have been widely investigated to identify clinically relevant diagnostic biomarkers. Advances in l...

Automated identification of molecular effects of drugs (AIMED).

Journal of the American Medical Informatics Association : JAMIA
INTRODUCTION: Genomic profiling information is frequently available to oncologists, enabling targeted cancer therapy. Because clinically relevant information is rapidly emerging in the literature and elsewhere, there is a need for informatics technol...

Identifying Individual-Cancer-Related Genes by Rebalancing the Training Samples.

IEEE transactions on nanobioscience
The identification of individual-cancer-related genes typically is an imbalanced classification issue. The number of known cancer-related genes is far less than the number of all unknown genes, which makes it very hard to detect novel predictions fro...

Extracting genetic alteration information for personalized cancer therapy from ClinicalTrials.gov.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Clinical trials investigating drugs that target specific genetic alterations in tumors are important for promoting personalized cancer therapy. The goal of this project is to create a knowledge base of cancer treatment trials with annotati...

REGene: a literature-based knowledgebase of animal regeneration that bridge tissue regeneration and cancer.

Scientific reports
Regeneration is a common phenomenon across multiple animal phyla. Regeneration-related genes (REGs) are critical for fundamental cellular processes such as proliferation and differentiation. Identification of REGs and elucidating their functions may ...

SNRFCB: sub-network based random forest classifier for predicting chemotherapy benefit on survival for cancer treatment.

Molecular bioSystems
Adjuvant chemotherapy (CTX) should be individualized to provide potential survival benefit and avoid potential harm to cancer patients. Our goal was to establish a computational approach for making personalized estimates of the survival benefit from ...