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GeneChip^® Rat Genome 230 2.0 Array

The GeneChip® Rat Genome 230 2.0 Array is a powerful tool for toxicology, neurobiology, and other applications using rat as a model organism.

Provides comprehensive coverage of the transcribed rat genome on a single array
Comprised of more than 31,000 probe sets, analyzing over 30,000 transcripts and variants from over 28,000 well-substantiated rat genes
Sophisticated bioinformatics tools available through the NetAffx™ Analysis Center to rapidly obtain biologically meaningful results
Publicly available drafts of the rat genome and leading public rat databases were used to refine sequences and provide a higher quality of data output

Array Profile

All probe sets represented on the GeneChip® Rat Expression Set 230 are included on the GeneChip Rat Genome 230 2.0 Array. Sequences used in the design of the GeneChip Rat Genome 230 2.0 Array were selected from GenBank®, dbEST, and RefSeq. The sequence clusters were created from the UniGene database (Build 99, June 2002) and then refined by analysis and comparison with the publicly available draft assembly of the rat genome from the Baylor College of Medicine Human Genome Sequencing Center (June 2002).

The GeneChip Rat Genome 230 2.0 Array includes representation of the RefSeq database sequences and probe sets related to sequences and refined EST clusters previously represented on the GeneChip® Rat Genome U34 Set.

Oligonucleotide probes complementary to each corresponding sequence are synthesized in situ on the arrays. Eleven pairs of oligonucleotide probes are used to measure the level of transcription of each sequence represented on the GeneChip Rat Genome 230 2.0 Array.

Instrument and Software Requirements

GeneChip® Scanner 3000 7G, enabled for High-Resolution Scanning*
GeneChip® Operating Software (GCOS) v1.1.1 or higher, which includes the GeneChip Scanner 3000 High-Resolution Scanning Patch

*GeneChip Scanner 3000 High-Resolution Update is standard on all instruments shipped starting in September 2003 with serial number series 502. Previous versions (serial number series 501) will require the 00-0110 GeneChip Scanner 3000 High-Resolution Update to be installed.

Data Sheets

Technical Notes

GeneChip® Expression Platform: Comparison, Evolution, and Performance (pdf, 269 KB)

Part #	Description	Details
900505	GeneChip® Rat Genome 230 2.0 Array	Contains 2 arrays
900506	GeneChip® Rat Genome 230 2.0 Array	Contains 6 arrays
900507	GeneChip® Rat Genome 230 2.0 Array	Contains 30 arrays

Array & Reagent Bundles

Part #	Description	Details
901232	GeneChip® Rat 230 2.0 Array and 3' IVT Express Kit Bundle	Sufficient for 10 reactions
901233	GeneChip® Rat 230 2.0 Array and 3' IVT Express Kit Bundle	Sufficient for 30 reactions

Required Products

Part #	Description	Details
00-0211	GeneChip® Scanner 3000 7G	Enabled for High-Resolution Scanning

Related Products

Part #	Description	Details
	Assays and Reagents	See Product Page

FAQs

Gene Expression Arrays

Rat Genome 230 2.0 Array

Manuals

3' IVT Express Kit User Manual (pdf, 3.47 MB)

Alignment Data in PSL Format

Expression Analysis Technical Manual, with Specific Protocols for Use with the Hybridization, Wash, and Stain Kit (pdf, 2.1 MB)

Probe Set Data in MAGE-ML Format

Library Files

Rat Genome 230 2.0 Array (zip, 17 MB)

Package Inserts

Rat Genome 230 2.0 Array (pdf, 243 KB)

Alignment, Annotation, and Sequence Files

Information about using Alignment, Annotation, and Sequence files

NetAffx Alignment Files

Rat230_2 Alignments To Genome, PSL Format (3.0 MB, 11/17/06)

Current NetAffx Annotation Files

Rat230_2 Annotations, CSV format (8.6 MB, 11/30/08)

Rat230_2 Annotations, MAGE-ML XML Format (42 MB, 11/24/08)

Rat230_2 BLASTP annotations, CSV Format (80 KB, 11/24/08)

Rat230_2 Orthologs/Homologs, CSV Format (6.6 MB, 11/24/08)

Note: NetAffx annotation files are intended for use in automated analysis. Some are not compatible with all spreadsheet applications. Please use the NetAffx Analysis Center to limit download data to your probe sets of interest. Annotation CSV files for the exon arrays are split into a probe set-level annotation file and a transcript cluster-level annotation file; exon array CSV files are compatible with ExACT.