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GeneChip® Human Gene ST Arrays

The whole-transcript coverage of these arrays provides the most accurate, sensitive, and comprehensive measurement of protein coding and long intergenic non-coding RNA transcripts.

Part # Description Unit Size Your Price (USD)
Qty
902112
GeneChip® Human Gene 2.0 ST Array
contains 6 arrays    Please Inquire
902113
GeneChip® Human Gene 2.0 ST Array
contains 30 arrays    Please Inquire
901085
GeneChip® Human Gene 1.0 ST Array
contains 2 arrays    Please Inquire
901086
GeneChip® Human Gene 1.0 ST Array
contains 6 arrays    Please Inquire
901087
GeneChip® Human Gene 1.0 ST Array
contains 30 arrays    Please Inquire
     

Comprehensive design

Keeping pace with the research community's understanding of the transcriptome, Affymetrix has designed whole-transcript arrays that include probes to measure both messenger (mRNA) and long intergenic non-coding RNA transcripts (lincRNA). These whole-transcript array designs provide a complete expression profile of mRNA as well as the intermediary lincRNA transcripts that impact the mRNA expression profile.

Research over the past 20 years has predominantly focused on protein coding messenger RNA transcripts and their role in cellular processes, such as disease and development. Recently researchers have identified more that 10,000 transcripts (>200 bases) with little or no protein coding potential. Only a small fraction of these non-coding RNAs has functional annotations to date. However, there is ample evidence that differential expression of lincRNAs plays an important role in the genesis and progression of disease and that aberrant expression of these molecules have also been linked to cancer. Recent advancements in transcriptome profiling provided evidence of the association of lincRNAs in a diverse range of cellular functions:

  • Regulation of mRNA transcription
  • Regulation of mRNA post-transcriptional modifications
  • Occlusion/recruitment of transcription factor binding
  • Activation and transportation of transcription factors
  • Interaction with accessory proteins
  • Guide protein complexes to locations in the genome

Key benefits

  • Comprehensive coverage provides the best opportunity to discover interesting biology
    • >30,000 coding transcripts
    • >11,000 long intergenic non-coding transcripts
  • Measure alternative splicing events/transcript variants with probes designed to maximize exon coverage
  • Reproducible: Intra-lot correlation coefficient =0.99

Content profile

Since the design of the Human Gene 1.0 ST Array, there have been a massive number of new lincRNA that have been identified by the research community. In order to provide the research community with a tool that can measure the differential expression of this exciting class of RNA transcripts, Affymetrix designed the Human Gene 2.0 ST Array. To supplement the lincRNA data contained in RefSeq, Affymetrix used sequences and transcripts from lncRNA db (www.lincRNAdb.com) and Broad Institute, Human Body Map lincRNAs and TUCP (transcripts of uncertain coding potential) catalog (http://www.broadinstitute.org/genome_bio/human_lincrnas/).

Transcript coverage of the array1 Human Gene 1.0 ST Array Human Gene 2.0 ST Array

Total RefSeq transcripts covered

36,079

40,716

NM ? RefSeq coding transcript,
well-established annotation

32,020

30,654

NR ? RefSeq non-coding transcript,
well established annotation

2,967

5,638

XM ? RefSeq coding transcript,
provisional annotation

579

996

XR ? RefSeq non- coding transcript, provisional annotation

513

3,428

lincRNA transcripts

466

11,086

RefSeq (Entrez) gene count

21,014

24,838

1 Transcript coverage and gene count derived from RefSeq download as of February 2012.

Data sources used to design the array Human Gene 1.0 ST Array Human Gene 2.0 ST Array

RefSeq

36

51

Ensembl

41

65

lncRNA db

-

2011

Broad Institute, Human Body Map lincRNAs and TUCP (transcripts of uncertain coding potential) catalog

-

2011

GenBank?

2006

-

UCSC ( http://hgdownload.cse.ucsc.edu/downloads.html#human

HG18

-

"For Research Use Only. Not for use in diagnostic procedures."

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