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

Announcements

New releases, product support, applications

For an archival listing of NetAffx Announcements click here

Jan 22, 2010

HuGene Annotation file update

Probe set CSV annotation files in NetAffx update 30 for the HuGene arrays (v1.0 and v1.1) contained a small number of extra probe sets that were either not present in or had different probe count with respect to the library files. A new version of the probe set CSV files ("na30.1") for these arrays corrects these issues. Other annotation contents in these and all other files are unaffected.

Dec 11, 2009

MoGene and RaGene Annotation file update

CSV annotation files in NetAffx update 30 for the MoGene and RaGene arrays (v1.0 and v1.1) contained a single control probe set that had been removed from the library files in June 2009. The new version of the CSV files ("na30.1") corrects this and removes the control probe set in question from the files. Annotations for all other probe sets and transcript clusters are unaffected.

Nov 23rd, 2009

NetAffx Annotation Update 30 Available Annotations for all catalog arrays are updated and available for all Affymetrix Catalog IVT, Gene, Exon and Mapping Arrays.
An update for the Cytogenetics Array should be published soon.
New data sources used for this update include the latest human genome assembly GRCh37 (a.k.a. hg19), genome build and transcript annotations from TAIR9 for Arabidopsis, and pseudomolecules v6.1 from the Rice Genome Annotation Project. Human genotyping arrays are still annotated based on the NCBIv36 (hg18) genome assembly pending additional support for hg19 by dbSNP.
Documentation of this update's contributing data sources can be found here.

Oct 26th, 2009

U219 IVT Array Plate Support The New Human U219 expression Array Plate support is now online on NetAffx.

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