Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Supervised harvesting of expression trees.

T Hastie1, R Tibshirani, D Botstein

  • 1Department of Health, Research & Policy, Stanford University, Stanford, CA 94305, USA.

Genome Biology
|February 24, 2001
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Editorial.

Molecular biology of the cell·2006
Same author

Genomic perspective and cancer.

Cold Spring Harbor symposia on quantitative biology·2004
Same author

The Gene Ontology (GO) database and informatics resource.

Nucleic acids research·2003
Same author

Arrest, adaptation, and recovery following a chromosome double-strand break in Saccharomyces cerevisiae.

Cold Spring Harbor symposia on quantitative biology·2003
Same author

Genome-wide scan of bipolar disorder in 65 pedigrees: supportive evidence for linkage at 8q24, 18q22, 4q32, 2p12, and 13q12.

Molecular psychiatry·2003
Same author

The glycine allele of a glycine/arginine polymorphism in the beta2-adrenergic receptor gene is associated with essential hypertension in a population of Chinese origin.

American journal of hypertension·2002
Same journal

UK Biobank whole-genome sequencing reveals robust contributions of rare variants to complex-trait heritability.

Genome biology·2026
Same journal

A one-week automated genome-wide optical pooled screen using OttoSeq.

Genome biology·2026
Same journal

Integrated lipidomic and transcriptomic profiling of the host response in human malaria.

Genome biology·2026
Same journal

Centromeric satellite expansion drives genome evolution in the snowy owl.

Genome biology·2026
Same journal

Mapping the landscape of allele-specific expression in porcine genomes.

Genome biology·2026
Same journal

Genomic sequence evolution underlying human neocortical interareal diversification.

Genome biology·2026
See all related articles

We introduce tree harvesting, a new supervised learning method for gene expression data. This approach identifies gene clusters and their interactions, aiding in the discovery of genes influencing outcomes like cancer class.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Gene expression data analysis presents challenges in identifying complex gene relationships.
  • Supervised learning methods are crucial for predicting outcomes from high-dimensional gene expression profiles.

Purpose of the Study:

  • To introduce a novel supervised learning method called 'tree harvesting' for analyzing gene expression data.
  • To enable the discovery of individual genes and gene interactions affecting various outcomes.

Main Methods:

  • Tree harvesting employs hierarchical clustering of genes.
  • It models outcome variables using selected gene clusters and their products.
  • The method accommodates diverse outcome measures, including survival times and categorical classifications.

Related Experiment Videos

Main Results:

  • The method was applied to lymphoma and multi-cancer datasets, identifying potentially significant gene clusters.
  • Simulation studies indicated that detecting gene interactions may necessitate substantial sample sizes.

Conclusions:

  • Tree harvesting offers a valuable approach for exploring gene expression data.
  • It facilitates the identification of gene clusters for further biological investigation.