NetAffx™ Analysis Center

Get unprecedented access to array content.

The NetAffx™ Analysis Center enables researchers to correlate their GeneChip® array results with array design and annotation information.


  • NetAffx Query Search transcript clusters and probe sets for a particular term or identifier
  • Batch Query Retrieve annotations for a probe list
  • Probe Match Find probe sets that identically match a nucleotide sequence(s)
  • NetAffx Query - Search probe sets for a term or identifier
  • Batch Query - Retrieve annotations for a probe list
  • BLAST - Find probe sets that BLAST align to your sequence(s) through BLAST
  • Probe Match - Find probes that identically match your sequence(s)
  • UCSC Query - Query the UCSC Browser including a custom track for your array of interest.
  • NetAffx Query - Search probe sets for a term or identifier
  • Batch Query - Retrieve annotations for a probe list
  • LD Mapper - Evaluate GenomeWideSNP arrays coverage for your list of rsIDs, genes, or genomic regions
  • UCSC Query - Query the UCSC public genome by position
  • SNP Finder - Search for SNPs between microsatellites

The Axiom™ Design Center enables you to quickly select and configure a custom Axiom™ myDesign™ Array for your genotyping studies. You can choose from the 11 million common and rare markers in the Axiom Genomic Database and/or submit your own sequence information.

Get started

Announcements

New releases, product support, applications

For an archival listing of NetAffx Announcements click here

July 18, 2011

NetAffx Annotation Update 32 is available.

NetAffx Annotation Update 32 is available for download. Annotation Update NA32 features full online search support for the new Cytoscan HD, Axiom European and Asian Genotyping Arrays. Expression Array annotations have also been updated, incuding SusScr2 genome build support for the IVT PorcineArray. On another note, MIP Panel Arrays are retiring from the Affymetrix Product Catalog and so their content will no longer be searchable on NetAffx from this point forward.

For full documentation see the NetAffx32 documentation.

May 10, 2011

New Axiom myDesign Targeted Genotyping (TG) Arrays.

Now you can design your own Axiom Array with as few as 1,500 markers for candidate gene, replication, and fine mapping studies. Access the Axiom Genomic Database today.

Jan 22, 2011

Correction for Error in Genotyping Annotation Update 31 Available

A bug has been found in the Netaffx na31 Genotyping annotation files. In cases where the SNP strand changed in the transition from genome build NCBIv36 to GCRhv37, the annotations do not reflect the proper strand of record. This only affects a few hundred probe sets and does not affect Axiom Array Annotations. It will be corrected in the upcoming na32 release in a couple of months. A list of the 388 probe sets known to have this problem can be found here. Reference data for the proper dbSNP orientation for Affymetrix arrays can also be found at dbGap .

Sep 3, 2010

NetAffx Annotation Update 31 is available

Annotations are updated and available for all Affymetrix Catalog IVT, Gene, Exon and Mapping Arrays. Annotations for all catalog Human Mapping arrays are now updated to the new human genome build GRCh37 (ucsc hg19) and dbSNP build 131. For All catalog products the latest builds of NCBI databases (GenBank, Refseq, Unigene) have been captured. Ensembl data for human arrays are still based on build #55 (GRCh37). Updates to SGD (Jan 2010), Flybase (r5,25), JGI (Poplar v2 Jan 2010), miRBase (v15, May 2010) have also been captured in this release. For full documentation see the NetAffx31 documentation.

Resources and Help

Selected resources and documentation for getting the most out of the NetAffx™ Analysis Center

NetAffx Help Center
The complete index of documentation available for NetAffx users. Including:

Sources for NetAffx Annotation Updates See documentation for sources and versions of data that went into the annotation updates.

NetAffx FAQ

Glossaries of Annotation Terms (3'IVT Expression, WT Expression, Genotyping)

Whitepapers