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Continuous improvements on Next-Generation Sequencing approaches are providing a wealth of data for life sciences, and massive application of ICT (Information and Communication Technologies) to molecular research has become essential for the progress of medical research. While several software tools have been developed to assist in analysis, there is still a lack of a focused and integrated solution...
The influence of DNA cis-regulatory elements on a gene's expression has been intensively studied. However, little is known about expressions driven by trans-acting DNA hotspots. DNA hotspots harboring copy number aberrations are recognized to be important in cancer as they influence multiple genes on a global scale. The challenge in detecting trans-effects is mainly due to the computational difficulty...
One of today's most important scientific research topics is discovering the genetic links between cancers. This paper contains the results of a comparison of three different cancers (breast, colon, and lung) based on the results of feature selection techniques on a data set created from DNA micro array data consisting of samples from all three cancers. The data was run through a set of eighteen feature...
A specialized G-quadruplex DNA aptamer with nucleolin targeting ability, AS1411, has been studied for cancer therapy. In this study, we report a novel delivery strategy for chemo-photodynamic combined treatment using AS1411 aptamer conjugated with tetra-(N-methyl-4-pyridyl)-porphine by intercalation and outside binding. Our results show that the apt-TMP complex exhibited higher TMPyP4 accumulation...
The cancer classification is a major and important study field in the medical research, and DNA microarrays have been proved to provide useful and great information for cancer classification at molecular level, compared with traditional clinical or histopathological information. Bio-markers from microarray gene expression analysis have developed to a new approach for cancer classification but still...
The concept of deriving a gene signature in breast cancer has been addressed by different research groups, each one proposing a different solution with minor overlap among them. There is still an open issue of unifying results among different research groups. In this study we evaluate two published signatures, namely the 70 gene signature of Netherlands group and a 57 gene signature published in our...
The dNTP supply system genes RRM1, DCTD, TYMS, TK1 and DCK balance dNTP pools to avoid incorrect insertions of bases (i.e. DNA mismatches) and the DNA mismatch repair system genes MLH1 and MSH2 are involved in removing such mismatches. The objective of this study is to explore the possibility of interactions between these two systems, since greater mismatch production rates are expected to be more...
We are developing a new framework for discovery of genes involved in the breast carcinogenesis process. Among families that have a predisposition to breast cancer, approximately 25% have inherited mutations in either breast cancer associated (ldquoBRCArdquo) genes BRCA1 or BRCA2, but the predisposing mutated genes in the majority of the families are unknown. BRCA1 and BRCA2 gene products both regulate...
The tissue-specific translation elongation factor eEF1A2 was recently shown to be a potential oncoprotein that is over expressed in human ovarian and breast cancer. eEF1A2 encoded on chromosome 20 shares similar features to the near-ubiquitously expressed eEF1A1, a closely-related isoform encoded on chromosome 6. It is still unknown why the tissue-specific eEF1A2 should have oncogenic properties in...
Osteolytic bone metastasis is a devastating complication of breast cancer that causes severe reduction in quality of life and is frequently the cause of death in breast cancer patients. Biomimetic model systems are invaluable tools for studying how microenvironmental conditions control tumorigenesis and metastasis in vivo. Biomaterial design principles and tissue engineering strategies were employed...
This paper reports the design of an innovative CMOS active pixel sensor (CAPS) using Silicon-on-Insulator (SOI) technology. The CAPS designs approach provides the flexibility and high density features of hybrid pixel sensors with photon integration architecture. This sensor is the key component for the optimized biomarker scanner. A proof-of-principle test chip, paying particular attention to the...
The potential of cancer multilevel modeling has been particularly emphasized over the past years. Integration of multiscale experimental and clinical information pertaining to cancer via advanced computer models seems to considerably accelerate optimization of cancer treatment in the patient individualized context. However, a sine qua non prerequisite for such models to reach clinical practice is...
The problem of marker selection in DNA microarray analysis has been mostly addressed by linear methods. RFE-SVM is such a representative method where a linear kernel is used as the basic tool to address the problem. On the other hand a single neuron is known to be a linear estimator. In this study we explore such a single neuron to address the problem of marker selection.
Breast cancer is a serious problem, especially the young women in Taiwan. Until now, in the most medical researches, the reasons for suffering from breast tumor are unclear. However, most medical researches proved that DNA viruses are the high-risk factors closely related to human cancers. In recent years, hospitals and health organizations have been furnished with modern computerized medical equipment...
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