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LS-NMF: A modified non-negative matrix factorization algorithm utilizing uncertainty estimates
(BioMed Central, 2006)
Background
Non-negative matrix factorisation (NMF), a machine learning algorithm, has been applied to the analysis of microarray data. A key feature of NMF is the ability to identify patterns that together explain the ...
Genetic polymorphisms, their allele combinations and IFN-β treatment response in Irish multiple sclerosis patients
(Future Medicine, 2009)
IFN-β is widely used as first-line immunomodulatory treatment for multiple sclerosis. Response to treatment is variable (30–50% of patients are nonresponders) and requires a long treatment duration for accurate assessment ...
Integrative Discovery of Epigenetically Derepressed Cancer Testis Antigens in NSCLC
(Public Library of Science, 2009)
Background
Cancer/testis antigens (CTAs) were first discovered as immunogenic targets normally expressed in germline cells, but differentially expressed in a variety of human cancers. In this study, we used an integrative ...
Gene Expression Signatures and Response to Imatinib Mesylate in Gastrointestinal Stromal Tumor
(American Association for Cancer Research, 2009)
Purpose
Despite initial efficacy of imatinib mesylate (IM) in most gastrointestinal stromal tumor (GIST) patients, many experience primary/secondary drug resistance. Therefore, clinical management of GIST may benefit from ...
The insulin-like growth factor system as a potential therapeutic target in gastrointestinal stromal tumors
(Taylor & Francis, 2008)
The majority of gastrointestinal stromal tumors (GISTs) are characterized by oncogenic gain-of-function mutations in the receptor tyrosine kinase (RTK) c-KIT with a minority in PDGFRa. Therapy for GISTs has been revolutionized ...
Detection of Treatment-Induced Changes in Signaling Pathways in Gastrointestinal Stromal Tumors Using Transcriptomic Data
(American Association for Cancer Research, 2009)
Cell signaling plays a central role in the etiology of cancer. Numerous therapeutics in use or under development target signaling proteins; however, off-target effects often limit assignment of positive clinical response ...
[Complex analysis of genetic predisposition to ischemic stroke in Russians]
(Springer Verlag, 2009)
Carriage frequencies of alleles and genotypes of 10 functionally important single nucleotide polymorphisms that are located in genes FGA, FGB, APOE, LPL, ACE and CMA1 were analyzed in the ischemic stroke (IS) patients of ...
FGDP: functional genomics data pipeline for automated, multiple microarray data analyses
(Oxford University Press, 2004)
Gene expression microarrays and oligonucleotide GeneChips™ have provided biologists with a means of measuring, in a single experiment, the expression levels of entire genomes under a variety of conditions. As with any ...
Pathway-specific differences between tumor cell lines and normal and tumor tissue cells
(BioMed Central, 2006)
Background
Cell lines are used in experimental investigation of cancer but their capacity to represent tumor cells has yet to be quantified. The aim of the study was to identify significant alterations in pathway usage ...
Data Standards for Flow Cytometry
(Mary Ann Liebert, 2006)
Flow cytometry (FCM) is an analytical tool widely used for cancer and HIV/AIDS research, and treatment, stem cell manipulation and detecting microorganisms in environmental samples. Current data standards do not capture ...