article Open AccessTop 10% cited
STEM: a tool for the analysis of short time series gene expression data
BMC Bioinformatics · 2006 · Vol. 7(1) · pp. 191–191
Jason Ernst✉(Carnegie Mellon University)Ziv Bar‐Joseph(Carnegie Mellon University)
Abstract
The unique algorithms STEM implements to cluster and compare short time series gene expression data combined with its visualization capabilities and integration with the Gene Ontology should make STEM useful in the analysis of data from a significant portion of all microarray studies. STEM is available for download for free to academic and non-profit users at http://www.cs.cmu.edu/~jernst/stem.
Gene expression and cancer classificationBioinformatics and Genomic NetworksGene Regulatory Network AnalysisDNA microarrayGene expression profilingMicroarray analysis techniquesComputer scienceGene chip analysisMicroarray databasesComputational biologyGene ontologyTime seriesData mining
MeSH terms
Computer SimulationGene Expression RegulationModels, BiologicalPattern Recognition, AutomatedSoftwareTime FactorsTranscription FactorsSignal TransductionCluster AnalysisOligonucleotide Array Sequence AnalysisGene Expression Profiling
Funding
- National Science Foundation
- National Institutes of Health
Citations
1,749
FWCI
9.64
field-weighted impact
References
27
Percentile
99%
vs. same field & year
Citations per year
References
Gene Ontology: tool for the unification of biology
Nature Genetics · 2000 · 43,975 citations
Comprehensive Identification of Cell Cycle–regulated Genes of the Yeast<i>Saccharomyces cerevisiae</i>by Microarray Hybridization
Molecular Biology of the Cell · 1998 · 4,786 citations
Systematic determination of genetic network architecture
Nature Genetics · 1999 · 2,550 citations
Cluster analysis and display of genome-wide expression patterns
Proceedings of the National Academy of Sciences · 1998 · 16,353 citations
Significance analysis of microarrays applied to the ionizing radiation response
Proceedings of the National Academy of Sciences · 2001 · 10,653 citations
Related articles
Minimum information about a microarray experiment (MIAME)—toward standards for microarray data
Nature Genetics · 2001 · 4,089 citations
Citation Network
How this paper connects to the literature. Drag to explore, click any node to open that paper.