NetAffx™ Analysis Center

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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

Oct 26th, 2009

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

Oct 15th, 2009

Axiom Genotyping Array and GTC 4.0 Support Axiom Genotpying array support is now online on NetAffx. Search through the Axiom content live on NetAffx.

GTC 4 support on Netaffx is also live today. GTC 4 updates and streamlines analysis for 500k, SNP5, SNP6 and Axiom arrays. Check it out here. Includes SQLite versions of the Annotation CSV files for the above Genotyping arrays, available on their respective product pages and the NetAffx SDK.

Sept 28th, 2009

Mouse Diversity Array Support Annotation Updates Mouse Diversity genotyping array support is now online on NetAffx.

Human Genome NCBIv38 Supported in Annotation Update NA30 With the next Annotation Update in mid November, human IVT and WT expression Array annotations will be updated to the latest genome build, NCBIv37. Genotyping array annotations will remain in NCBIv36 to harmonize with current dbSNP builds.

NA29 Header correction The GenomeWideSNP 6 Annotation CSV file from na29 has been updated to correct a typo in the header where the genome build was recorded as NCBIv36 and should have been NCBIv36.1. No annotation content was changed.

July 24th, 2009

NetAffx Annotation Update 29 Available Annotations for all catalog arrays are updated and available for all Affymetrix Catalog IVT, Gene, Exon and Mapping Arrays.
One exception for the update is the Cytogenetics Array - the na29 update will be published in the near future.
New data sources used for this update include genome builds and transcript annotations from TAIR8 for Arabidopsis, and from JGI's Glyma1 release for soybean. Documentation of this update's contributing data sources can be found here.

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