Name
Abstract | ||
|---|---|---|
This paper describes a framework for collecting, annotating, and archiving high- throughput assays from multiple experiments conducted on one or more series of samples. Specific applications include support for large-scale surveys of related transcriptional profiling studies, for investigations of the genetics of gene expression and for joint analysis of copy number variation and mRNA abundance. Our ap- proach consists of data capture and modeling processes rooted in R/Bioconductor, sample annotation and sequence constituent ontology management based in R, secure data archiving in PostgreSQL, and browser-based workspace creation and management rooted in Zope. This eort has generated a completely transparent, extensible, and customizable interface to large archives of high-throughput assays. Sources and prototype interfaces are accessible at www.sgdi.org/software. |
Year | Venue | Keywords |
|---|---|---|
2008 | Pacific Symposium on Biocomputing | gene expression profiling,database management systems,gene expression,systems biology,genetics,copy number variation,data capture,genomics,data integrity,computational biology,high throughput,phenotype |
Field | DocType | ISSN |
Data integration,Annotation,Biology,Workspace,Profiling (computer programming),Bioconductor,Genomics,Software,Automatic identification and data capture,Bioinformatics,Genetics | Conference | 2335-6936 |
Citations | PageRank | References |
1 | 0.37 | 1 |
Authors | ||
5 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Vincent J Carey | 1 | 209 | 17.35 |
| Jeff Gentry | 2 | 16 | 2.83 |
| Deepayan Sarkar | 3 | 1 | 0.37 |
| Robert Gentleman | 4 | 1 | 0.37 |
| Srini Ramaswamy | 5 | 1 | 1.05 |