4.7 Article

Integration of gene interaction information into a reweighted Lasso-Cox model for accurate survival prediction

Related references

Note: Only part of the references are listed.
Review Biochemical Research Methods

Integrative biomarker detection on high-dimensional gene expression data sets: a survey on prior knowledge approaches

Cindy Perscheid

Summary: Gene expression data is used to detect biomarkers for prognostic or diagnostic use, with traditional gene selection methods facing challenges of robustness, redundancy, and biological relevance. Integrative analyses address these challenges by combining multiple data artifacts or utilizing curated biological processes from knowledge bases. Leveraging increasing curated biological knowledge from knowledge bases enhances the power of prior knowledge approaches, though it also presents open challenges for gene selection in this context.

BRIEFINGS IN BIOINFORMATICS (2021)

Article Multidisciplinary Sciences

A reference map of the human binary protein interactome

Katja Luck et al.

NATURE (2020)

Article Biochemistry & Molecular Biology

Topologically inferring pathway activity for precise survival outcome prediction: breast cancer as a case

Wei Liu et al.

MOLECULAR BIOSYSTEMS (2017)

Article Statistics & Probability

Regularization Paths for Cox's Proportional Hazards Model via Coordinate Descent

Noah Simon et al.

Journal of Statistical Software (2015)

Article Biochemistry & Molecular Biology

Determinants of expression variability

Elfalem Y. Alemu et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Biochemical Research Methods

Network-based Survival Analysis Reveals Subnetwork Signatures for Predicting Outcomes of Ovarian Cancer Treatment

Wei Zhang et al.

PLOS COMPUTATIONAL BIOLOGY (2013)

Article Gastroenterology & Hepatology

Complementary Strand MicroRNAs Mediate Acquisition of Metastatic Potential in Colonic Adenocarcinoma

Dung-Tsa Chen et al.

JOURNAL OF GASTROINTESTINAL SURGERY (2012)

Article Multidisciplinary Sciences

Leaders in Social Networks, the Delicious Case

Linyuan Lue et al.

PLOS ONE (2011)

Article Computer Science, Interdisciplinary Applications

Regularization Paths for Generalized Linear Models via Coordinate Descent

Jerome Friedman et al.

JOURNAL OF STATISTICAL SOFTWARE (2010)

Article Multidisciplinary Sciences

Exploiting the determinants of stochastic gene expression in Saccharomyces cerevisiae for genome-wide prediction of expression noise

Jingjing Li et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Biochemical Research Methods

Integrating Biological Knowledge with Gene Expression Profiles for Survival Prediction of Cancer

Xi Chen et al.

JOURNAL OF COMPUTATIONAL BIOLOGY (2009)

Article Biochemistry & Molecular Biology

SubpathwayMiner: a software package for flexible identification of pathways

Chunquan Li et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Statistics & Probability

Prediction by supervised principal components

E Bair et al.

JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION (2006)

Article Oncology

Gene expression profiling of gliomas strongly predicts survival

WA Freije et al.

CANCER RESEARCH (2004)

Article Biochemical Research Methods

Partial Cox regression analysis for high-dimensional microarray gene expression data

Hongzhe Li et al.

BIOINFORMATICS (2004)

Article Biochemistry & Molecular Biology

KEGG: Kyoto Encyclopedia of Genes and Genomes

M Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2000)