Chip type: MoEx-1_0-st-v1

Mouse Exon 1.0 ST Array

Affymetrix press release: First quarter of 2006.

MoEx-1_0-st-v1

> cdf <- AffymetrixCdfFile$byChipType("MoEx-1_0-st-v1")
> print(cdf)

AffymetrixCdfFile:
Path: annotationData/chipTypes/MoEx-1_0-st-v1
Filename: MoEx-1_0-st-v1.cdf
Filesize: 274.30MB
Chip type: MoEx-1_0-st-v1
RAM: 0.00MB
File format: v4 (binary; XDA)
Dimension: 2560x2560
Number of cells: 6553600
Number of units: 1257006
Cells per unit: 5.21
Number of QC units: 0

The above displays the default CDF for this chip type. There exist several custom CDFs, among some are listed below, that are likely to be more appropriate for your analysis.

Resources

By aroma-project.org:

• MoEx-1_0-st-v1,HB20100926.acs.gz - Aroma Cell Sequence (ACS) annotation file mapping cell indices to 25-mer sequences and target strandedness. Sources: Affymetrix probe_tab file. The latter provides only 4,779,314 (72.9%) out of 6,553,600 sequences; please help us find the sequences for the remaining probes. Created by: Henrik Bengtsson, 2010-09-26.

As with Human Exon 1.0 ST array, we have created versions of CDFs based on Affymetrix's annotation 'level' as given in the NetAffx probesets csv file (see http://www.affymetrix.com/analysis/downloads/current_exon/). Consult the Affymetrix documentation for how these levels of annotation were designed.

NetAffx (R1) 18 Jul 2008, created by Mark Robinson (WEHI/Garvan)

• MoEx-1_0-st-v1.cdf.gz Binary version of the unsupported CDF file (shown above) from Affymetrix. 1,257,006 units each representing a probeset, no grouping.
• MoEx-1_0-st-v1,coreR1,A20080718,MR.cdf.gz Core probesets only. 17,831 units/transcript clusters, 224,053 groups/probesets.
• MoEx-1_0-st-v1,extendedR1,A20080718,MR.cdf.gz Extended + Core probesets: 112,205 units/transcript clusters, 626,470 groups/probesets.
• MoEx-1_0-st-v1,fullR1,A20080718,MR.cdf.gz Full+Extended+Core probesets: 265,508 units/transcript clusters.

Ensembl-centric CDFs

• MoEx-1_0-st-v1,U-Ensembl50,G-Affy,EP.cdf.gz 21,837 units/transcript clusters with Ensembl identifiers, 279,424 groups/probesets.

By Affymetrix:

• Technical Support Documentation
• Datasheet
• Public data sets: Tissue / Mixture / Colon Cancer datasets