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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 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.

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, 1.17 MB)

3' IVT PLUS Reagent Kit User Manual (pdf, 2 MB)

Alignment Data in PSL Format

Expression Analysis Technical Manual, with Specific Protocols for Use with the Hybridization, Wash, and Stain Kit (pdf, 1.70 MB)

HT 3' IVT Express Kit (pdf, 8.41 MB)

Array Comparisons

Canine to RAE230, All (zip, 224 KB)

Canine to RAE230, Best Match (zip, 5 KB)

Canine to RAE230, Good Match (zip, 5 KB)

Canine to RAE230, No Match (zip, 42 KB)

Rat 230 to HG-U133 Plus, Best Match (zip, 1 KB)

Rat 230 to HG-U133 Plus, Complex (zip, 225 KB)

Rat 230 to HG-U133 Plus, Good Match (zip, 1 KB)

Rat 230 to HG-U133 Plus, No Match (zip, 79 KB)

Rat 230 to MGU74v2, Best Match (zip, 70 KB)

Rat 230 to MGU74v2, Complex (zip, 41 MB)

Rat 230 to MGU74v2, Good Match (zip, 72 KB)

Rat 230 to MGU74v2, No match (zip, 1 KB)

Rat 230 to Mouse 430, Best Match (zip, 103 KB)

Rat 230 to Mouse 430, Complex (zip, 25 MB)

Rat 230 to Mouse 430, Good Match (zip, 108 KB)

Rat 230 to Mouse 430, No Match (zip, 1KB)

Rat 230 to Rat Exon 1.0 ST, Best Match (zip, 570 KB)

Rat 230 to Rat Exon 1.0 ST, Complex Match (zip, 1.6 MB)

Rat 230 to Rat Exon 1.0 ST, Good Match (zip, 606 KB)

Rat 230 to Rat Exon 1.0 ST, No Match (zip, 720 KB)

Rat 230 to Rat Gene 1.0 ST, Best Match (zip, 272 KB)

Rat 230 to Rat Gene 1.0 ST, Complex Match (zip, 525 KB)

Rat 230 to Rat Gene 1.0 ST, Good Match (zip, 317 KB)

Rat 230 to Rat Gene 1.0 ST, No Match (zip, 39 KB)

RGU34 to Rat 230, Best Match (zip, 417 KB)

RGU34 to Rat 230, Complex (zip, 16 MB)

RGU34 to Rat 230, Good Match (zip, 425 KB)

RGU34 to Rat 230, No Match (zip, 1 KB)

RNU34 to Rat 230, Best Match (zip, 21 KB)

RNU34 to Rat 230, Complex (zip, 909 KB)

RNU34 to Rat 230, Good Match (zip, 23 KB)

RNU34 to Rat 230, No Match (zip, 1 KB)

RTU34 to Rat 230, Best Match (zip, 16 KB)

RTU34 to Rat 230, Complex (zip, 583 KB)

RTU34 to Rat 230, Good Match (zip, 18 KB)

RTU34 to Rat 230, No Match (zip, 1 KB)

Library Files

Rat Genome 230 2.0 Array (zip, 17 MB)

Package Inserts

Rat Genome 230 2.0 Array (pdf, 470 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)

Rat230_2 BED File (986 KB, 1/23/14)

Current NetAffx Annotation Files

Rat230_2 Annotations, CSV format, Release 36 (13 MB, 4/13/16)

Rat230_2 Orthologs/Homologs, CSV Format, Release 36 (9.7 MB, 4/13/16)

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.

Sequence Files

Rat230-20 Consensus Sequences, FASTA (10 MB, 8/20/08)

Rat230-20 Control Sequences, FASTA (17 KB, 3/1/04)

Rat230_2 Probe Sequences, FASTA (5.7 MB, 8/20/08)

Rat230_2 Probe Sequences, Tabular (5.5 MB, 8/20/08)

Rat230-20 Target Sequences, FASTA (5.8 MB, 8/20/08)

Archived NetAffx Alignment Files

Rat230_2 Alignments to Genome, PSL (3.0 MB, 10/4/04)

Archived NetAffx Annotation Files

Rat230_2 Annotations, BLASTP, Release 20 (2.2 MB, 7/14/06)

Rat230_2 Annotations, BLASTX, Release 20 (1.2 MB, 6/23/04)

Rat230_2 Annotations, CSV format, Release 21 (8.5 MB, 5/31/07)

Rat230_2 Annotations, CSV format, Release 22 (8.9 MB, 5/31/07)

Rat230_2 Annotations, CSV format, Release 23 (8.8 MB, 7/12/07)

Rat230_2 Annotations, CSV format, Release 24 (8.5 MB, 11/6/07)

Rat230_2 Annotations, CSV format, Release 25 (8.3 MB, 3/18/08)

Rat230_2 Annotations, CSV format, Release 26 (8.7 MB, 7/8/08)

Rat230_2 Annotations, CSV format, Release 27 (8.6 MB, 11/30/08)

Rat230_2 Annotations, CSV format, Release 28 (8.6 MB, 3/12/09)

Rat230_2 Annotations, CSV format, Release 29 (8.8 MB, 7/1/09)

Rat230_2 Annotations, CSV format, Release 30 (9.1 MB, 11/15/09)

Rat230_2 Annotations, CSV format, Release 31 (9.4 MB, 8/11/10)

Rat230_2 Annotations, CSV format, Release 32 (9.3 MB, 6/9/11)

Rat230_2 Annotations, CSV format, Release 33 (10 MB, 10/30/12)

Rat230_2 Annotations, CSV format, Release 34 (10 MB, 1/23/14)

Rat230_2 Annotations, CSV format, Release 35 (11 MB, 10/7/14)

Rat230_2 Annotations, CSV, Release 20 (8.1 MB, 5/31/07)

Rat230_2 Annotations, MAGE-ML XML format, Release 21 (43 MB, 6/15/07)

Rat230_2 Annotations, MAGE-ML XML Format, Release 22 (41 MB, 6/15/07)

Rat230_2 Annotations, MAGE-ML XML Format, Release 23 (39 MB, 7/12/07)

Rat230_2 Annotations, MAGE-ML XML Format, Release 24 (37 MB, 11/6/07)

Rat230_2 Annotations, MAGE-ML XML Format, Release 25 (37 MB, 3/18/08)

Rat230_2 Annotations, MAGE-ML XML Format, Release 26 (39 MB, 7/8/08)

Rat230_2 Annotations, MAGE-ML XML Format, Release 27 (42 MB, 11/24/08)

Rat230_2 Annotations, MAGE-ML XML Format, Release 28 (40 MB, 3/12/09)

Rat230_2 Annotations, MAGE-ML XML Format, Release 29 (41 MB, 7/1/09)

Rat230_2 Annotations, MAGE-ML XML Format, Release 30 (42 MB, 11/15/09)

Rat230_2 Annotations, MAGE-ML XML Format, Release 31 (43 MB, 8/11/10)

Rat230_2 Annotations, MAGE-ML XML Format, Release 32 (42 MB, 6/9/11)

Rat230_2 Annotations, MAGE-ML XML, Release 20 (41 MB, 6/15/07)

Rat230_2 Annotations, Orthologs, Release 20 (5.4 MB, 8/21/06)

Rat230_2 BLASTP annotations, CSV format, Release 21 (2.6 MB, 11/15/06)

Rat230_2 BLASTP annotations, CSV Format, Release 22 (84 KB, 3/9/07)

Rat230_2 BLASTP annotations, CSV Format, Release 23 (132 KB, 7/12/07)

Rat230_2 BLASTP annotations, CSV Format, Release 24 (2.0 KB, 11/6/07)

Rat230_2 BLASTP annotations, CSV Format, Release 25 (977 B, 3/18/08)

Rat230_2 BLASTP annotations, CSV Format, Release 26 (5.0 KB, 7/8/08)

Rat230_2 BLASTP annotations, CSV Format, Release 27 (80 KB, 11/24/08)

Rat230_2 BLASTP annotations, CSV Format, Release 28 (1.6 KB, 3/4/09)

Rat230_2 BLASTP annotations, CSV Format, Release 29 (54 KB, 7/1/09)

Rat230_2 BLASTP annotations, CSV Format, Release 30 (54 KB, 11/16/09)

Rat230_2 BLASTP annotations, CSV Format, Release 31 (59 KB, 8/11/10)

Rat230_2 Orthologs/Homologs, CSV format, Release 21 (6.1 MB, 11/30/06)

Rat230_2 Orthologs/Homologs, CSV Format, Release 22 (6.6 MB, 3/9/07)

Rat230_2 Orthologs/Homologs, CSV Format, Release 23 (5.9 MB, 7/12/07)

Rat230_2 Orthologs/Homologs, CSV Format, Release 24 (5.0 MB, 11/6/07)

Rat230_2 Orthologs/Homologs, CSV Format, Release 25 (5.1 MB, 3/18/08)

Rat230_2 Orthologs/Homologs, CSV Format, Release 26 (5.7 MB, 7/8/08)

Rat230_2 Orthologs/Homologs, CSV Format, Release 27 (6.6 MB, 11/24/08)

Rat230_2 Orthologs/Homologs, CSV Format, Release 28 (6.3 MB, 3/12/09)

Rat230_2 Orthologs/Homologs, CSV Format, Release 29 (6.2 MB, 7/1/09)

Rat230_2 Orthologs/Homologs, CSV Format, Release 30 (6.4 MB, 11/15/09)

Rat230_2 Orthologs/Homologs, CSV Format, Release 31 (6.4 MB, 8/11/10)

Rat230_2 Orthologs/Homologs, CSV Format, Release 32 (6.2 MB, 6/9/11)

Rat230_2 Orthologs/Homologs, CSV Format, Release 33 (7.7 MB, 10/30/12)

Rat230_2 Orthologs/Homologs, CSV Format, Release 34 (8.0 MB, 1/23/14)

Rat230_2 Orthologs/Homologs, CSV Format, Release 35 (9.0 MB, 4/16/15)

Additional Support

Fluidics Scripts

Probe Set Data in MAGE-ML Format

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