Computational prediction of cancer-gene function
Most cancer genes remain functionally uncharacterized in the physiological context of
disease development. High-throughput molecular profiling and interaction studies are …
disease development. High-throughput molecular profiling and interaction studies are …
Characterization of protein-interaction networks in tumors
A Platzer, P Perco, A Lukas, B Mayer - BMC bioinformatics, 2007 - Springer
Background Analyzing differential-gene-expression data in the context of protein-interaction
networks (PINs) yields information on the functional cellular status. PINs can be formally …
networks (PINs) yields information on the functional cellular status. PINs can be formally …
A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data
KD MacIsaac, DB Gordon, L Nekludova… - …, 2006 - academic.oup.com
Motivation: Genome-wide chromatin-immunoprecipitation (ChIP-chip) detects binding of
transcriptional regulators to DNA in vivo at low resolution. Motif discovery algorithms can be …
transcriptional regulators to DNA in vivo at low resolution. Motif discovery algorithms can be …
Gene selection and classification for cancer microarray data based on machine learning and similarity measures
Background Microarray data have a high dimension of variables and a small sample size. In
microarray data analyses, two important issues are how to choose genes, which provide …
microarray data analyses, two important issues are how to choose genes, which provide …
Prostate apoptosis response protein 4 sensitizes human colon cancer cells to chemotherapeutic 5-FU through mediation of an NFκB and microRNA network
Background Diminished expression or activity of prostate apoptosis response protein 4 (Par-
4) has been demonstrated in a number of cancers, although reports on Par-4 expression …
4) has been demonstrated in a number of cancers, although reports on Par-4 expression …
A novel method for cross-species gene expression analysis
Background Analysis of gene expression from different species is a powerful way to identify
evolutionarily conserved transcriptional responses. However, due to evolutionary events …
evolutionarily conserved transcriptional responses. However, due to evolutionary events …
A statistical normalization method and differential expression analysis for RNA-seq data between different species
Background High-throughput techniques bring novel tools and also statistical challenges to
genomic research. Identifying genes with differential expression between different species is …
genomic research. Identifying genes with differential expression between different species is …
Mining low-support discriminative patterns from dense and high-dimensional data
Discriminative patterns can provide valuable insights into data sets with class labels, that
may not be available from the individual features or the predictive models built using them …
may not be available from the individual features or the predictive models built using them …
A Projection Pursuit framework for supervised dimension reduction of high dimensional small sample datasets
The analysis and interpretation of datasets with large number of features and few examples
has remained as a challenging problem in the scientific community, owing to the difficulties …
has remained as a challenging problem in the scientific community, owing to the difficulties …
A transcriptional network signature characterizes lung cancer subtypes
HH Chang, JM Dreyfuss, MF Ramoni - Cancer, 2011 - Wiley Online Library
BACKGROUND: Transcriptional networks play a central role in cancer development. The
authors described a systems biology approach to cancer classification based on the reverse …
authors described a systems biology approach to cancer classification based on the reverse …