GeneChip™ Rat Gene 1.0 ST Array
GeneChip™ Rat Gene 1.0 ST Array
Applied Biosystems™

GeneChip™ Rat Gene 1.0 ST Array

Comprehensive designWe understand that rats are an important model organism commonly used for studying human disease. In order to keepRead more
Have Questions?
Change viewbuttonViewtableView
Catalog NumberNumber of Arrays
90117530 arrays
9011722 arrays
9011736 arrays
Catalog number 901175
Price (CNY)
-
Number of Arrays:
30 arrays
Comprehensive design
We understand that rats are an important model organism commonly used for studying human disease. In order to keep your experiments relevant to the understanding of the transcriptome, we have designed an array based on the most recent genome content for generating genome-wide expression profiles.

The GeneChip™ Rat Gene 1.0 ST Array offers a unique feature not available in other microarrays. Unlike traditional array designs that rely on a probe(s) designed to the first exon of the gene's 3' end, the hundreds of thousands of probes in this array are designed to every exon of every transcript represented on the array.

The high transcript coverage (median of 22 probes per gene) yields accurate detection for genome-wide transcript expression changes. These arrays provide higher resolution and accuracy than many of the classical 3'-biased microarray solutions available. The whole-transcript analysis approach enables researchers to detect multiple transcript isoforms from a given gene, including those that could be missed using a 3'-biased expression design, such as splice variants, non-polyadenylated transcripts, transcripts with alternative polyadenylation sites, and truncated transcripts.

Key benefits
• Whole-transcript analysis enables the capture of transcript isoforms you may miss with 3'-biased expression designs
• Comprehensive transcriptome coverage provides the best opportunity to discover interesting biology:
   - >27,000 protein coding transcripts
   - >24,000 Entrez genes
• Measure alternative splicing events/transcript variants with probes designed to maximize coverage of exons
• Reproducible: Signal correlation coefficient ≥ 0.99

Content profile
Since the design of the GeneChip Rat Gene 1.0 ST Array, there has been a substantial increase in the structural and functional understanding of the rat genome. In order to provide the research community with a tool that can measure the differential expression of this exciting class of RNA transcripts, we designed the GeneChip Rat Gene 2.0 ST Array (sold separately).
For Research Use Only. Not for use in diagnostic procedures.
Specifications
Product LineGeneChip™
Quantity30 arrays
TypeRat Gene 1.0 ST Array
ArrayTranscriptome Profiling
FormatArray Cartridge
Number of Arrays30 arrays
SpeciesRat
Unit SizeEach

Frequently asked questions (FAQs)

What is contained in the tab-delimited format of the GeneChip probe sequence download file?

The tab-delimited probe sequence file contains the following information:
-Probe Set Name
-Probe X: The X coordinate of the probe sequence on the GeneChip probe array.
-Probe Y: The Y coordinate of the probe sequence on the GeneChip probe array.
-Probe Interrogation Position: The base position on the consensus/exemplar sequence where the central base of the probe aligns, which is the 13th base of a 25mer probe.
-Probe Sequence: The 25-base perfect match sequence.
-Target Strandedness: The sense/antisense orientation of the target sequence that can hybridize with the probe sequence.

Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.

What is the NetAffx Analysis Center?

The NetAffx Analysis Center used to contain information and files regarding array content, probe sets, and functional annotations. However, the NetAffx Analysis Center has been retired. Much of the content provided by the NetAffx Analysis Center can now be accessed on the arrays’ thermofisher.com product pages or by contacting Technical Support (techsupport@thermofisher.com).

Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.

Are pseudogene databases included in the design of expression arrays?

Pseudogene databases were not included in the design of expression arrays.

How long can I store labeled cDNA when working with expression microarrays?

Labeled material can be stored for 2 weeks at -20 degrees C.

Is the protocol same for Exon 1.0 St and Gene 1.0 St arrays?

The protocols for the Gene 1.0 ST and Exon 1.0 ST arrays are the same until the fragmentation and labeling steps.
Depending on the input amount, please refer to the GeneChip WT Pico Reagent Kit or the GeneChip WT PLUS Reagent Kit for the protocol:
- WT Pico: 50 - 500ng of total RNA
- WT PLUS: ≥ 100pg of total RNA (approx. 10 cells)
From the hybridization step onwards, the differences in protocol are due to the format of the arrays. The Exon array is a 49 format array, whereas the Gene 1.0 ST array is a 169 format array.
For the fluidics step the following scripts should be used depending upon which array you are using:
- Gene 1.0 St array: FS450_0001
- Exon 1.0 St array: FS450_0007

Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.