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GeneChip Human Mapping 500K Array Set

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The GeneChip® Mapping 500K Array Set enables highly powered whole-genome association studies, and The GeneChip® Human Mapping 250K Nsp Array and assay enables low density copy number and cytogenetic studies.

Part # Description Unit Size
900767
GeneChip Human Mapping 250K Nsp Array
contains 5 arrays   
900768
GeneChip Human Mapping 250K Nsp Array
contains 30 arrays   
901189
GeneChip Human Mapping 250K Nsp Array
contains 100 arrays   
520331
GeneChip Human Mapping 250K Sty Array, MTO
contains 50 arrays (1 wafer)   

The 250K Sty Array and the reagent kit are now made to order (MTO) products. As a result, please allow up to 10 weeks for your reagents and up to six weeks for the array.

 

Figure 1


The GeneChip® Human Mapping 500K Array Set provides consistently high coverage across different populations. It is comprised of two arrays, each capable of genotyping on average 250,000 SNPs (approximately 262,000 for Nsp arrays and 238,000 for Sty arrays). The Mapping 500K Array Set uses the same proven assay as the GeneChip® Mapping 10K Array and Mapping 100K Set that has been validated in over 120 published studies in less than three years.

 

May 2006 — A series of updates to the Mapping 500K system is launched, including:

  • BRLMM, a new genotype calling algorithm. New and existing Mapping 500K Array Set data can now be re-analyzed to increase both call rates and accuracy.
  • 96-well plate protocol, enabling faster and more consistent ramp-up to high throughput sample processing.


Benefits of the Mapping 500K Array Set

  • Consistently high coverage across different populations
    View Genome coverage of 500K SNPs (Figure 1)
  • Reference standard for whole-genome association
    Community creating database of >10,000 control samples
    Gain consortium to release Mapping 500K Array Set data to the public domain
  • Proven approach for discovery
    See list of nearly 250 publications (pdf, 159 KB) on mapping assay
    Download updated Assay Manual (pdf, 3.4 MB) which includes protocol for 96-well plate processing
  • Broad compatibility with DNA sample collections
    250 ng of raw genomic DNA
    Compatible with whole-genome amplified DNA
  • Highest throughput on the market
    100 samples/week/instrument
    Learn more about GeneChip® Scanner 3000, with AutoLoader
  • Innovative solutions available for data analysis and management
    Learn about BRLMM, a genotype calling algorithm
    Learn about GeneChip-compatible™ third-party software for downstream analysis


Find out more about Clontech's Titanium™ DNA Amplification Kit for use with the Whole Genome Sampling Assay.

For research use only. Not for use in diagnostic procedures.

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Application Notes

Microarrays in Cancer Research (pdf, 423 KB)

Data Sheets

GeneChip Human Mapping 500K Array Set (pdf, 192 KB)

Library Files

Mapping 250K Nsp Array (zip, 43 MB)

Mapping 250K Sty Array (zip, 42 MB)

Manuals

Mapping 500K Assay Manual (pdf, 3.4 MB)

Probe Set Data in MAGE-ML Format

Package Inserts

Mapping 500K Array Set (pdf, 97 KB)

Mapping 500K Assay Kit (pdf, 83 KB)

Protocol, Long

Human Mapping 500K Array Set

Quick Reference Cards

GeneChip Mapping 500K Array Set (zip, .99 MB)

Safety Data Sheets

Mapping 500K Array Set, Nsp Array (zip, 303 KB)

Mapping 500K Array Set, Sty Array (zip, 345 KB)

Sample Data

Mapping 500K Sample Data Set

Mapping 500K HapMap Genotype Data Set

White Papers

BRLMM Algorithm for Affymetrix Mapping Arrays (pdf, 278 KB)

Other

Fluidics Scripts

Mapping 500K Nsp Reference DNA Concordance (zip, 3.5 MB)

Mapping 500K Nsp Reference Genotype Calls (zip, 671 KB)

Mapping 500K Sty Reference DNA Concordance (zip, 3.5 MB)

Mapping 500K Sty Reference Genotype Calls (zip, 612 KB)

NetAffx Alignment Files

Mapping250K_Nsp BED File (4 MB 11/28/07)

Mapping250K_Sty BED File (4 MB 11/28/07)

NetAffx Annotation Files

Mapping250K_Nsp GTC Genome Browser File, Release 32 (26 MB 06/15/11)

Mapping250K_Sty Annotations, SQLite Format, Release 32 (214 MB 06/24/11)

Mapping250K_Nsp Annotations, CSV format, Release 31 (88 MB 10/26/10)

Mapping250K_Nsp Annotations, SQLite Format, Release 31 (209 MB 08/30/10)

Mapping250K_Sty Annotations, CSV format, Release 31 (80 MB 08/30/10)

Mapping250K_Sty GTC Genome Browser File, Release 32 (26 MB 06/15/11)

Mapping250K_Sty Annotations, CSV format, Release 32 (80 MB 07/15/11)

Mapping250K_Nsp Annotations, SQLite Format, Release 32 (214 MB 06/24/11)

Mapping250K_Sty Annotations, SQLite Format, Release 31 (209 MB 08/30/10)

Mapping250K_Sty Annotations, CSV format, Release 31 (80 MB 10/26/10)

Mapping250K_Nsp Annotations, CSV format, Release 32 (88 MB 07/15/11)

Mapping250K_Nsp Annotations, GTYPE Format, Release 21 (53 MB 01/02/07)

Mapping250K_Sty Annotations, GTYPE Format, Release 21 (49 MB 01/02/07)

Mapping250K_Nsp Annotations, CSV format, Release 30 (85 MB 11/15/09)

Mapping250K_Sty Annotations, CSV format, Release 30 (77 MB 11/15/09)

Mapping250K_Nsp Annotations, SQLite Format, Release 30 (208 MB 11/15/09)

Mapping250K_Sty Annotations, SQLite Format, Release 30 (208 MB 11/15/09)

Mapping250K_Sty GTC Genome Browser File, Release 31 (24 MB 12/14/10)

Mapping250K_Nsp Annotations, CSV format, Release 31 (87 MB 08/30/10)

Mapping250K_Nsp GTC Genome Browser File, Release 31 (24 MB 12/14/10)

Sequence Files

Mapping250K_Nsp Flanking Sequences, FASTA (4 MB 08/20/08)

Mapping250K_Nsp Probe Sequences, Tabular (36 MB 08/20/08)

Mapping250K_Sty Flanking Sequences, FASTA (3 MB 08/20/08)

Mapping250K_Sty Probe Sequences, Tabular (36 MB 08/20/08)

Archived NetAffx Annotation Files

Mapping250K_Nsp GTC Genome Browser File, Release 30.2 (23 MB 05/21/10)

Mapping250K_Sty GTC Genome Browser File (23 MB 03/12/10)

Mapping250K_Sty GTC Genome Browser File, Release 29 (22 MB 08/12/09)

Mapping250K_Sty GTC Genome Browser File, Release 28 (22 MB 05/04/09)

Mapping250K_Nsp GTC Genome Browser File, Release 29 (22 MB 08/12/09)

Mapping250K_Sty GTC Genome Browser File, Release 30.2 (23 MB 05/21/10)

Mapping250K_Nsp Annotations, CSV, Release 20 (84 MB 06/15/06)

Mapping250K_Nsp Annotations, GTYPE, Release 20 (56 MB 03/09/06)

Mapping250K_Sty Annotations, CSV, Release 20 (76 MB 06/15/06)

Mapping250K_Sty Annotations, GTYPE, Release 20 (51 MB 03/09/06)

Mapping250K_Nsp Annotations, SQLite Format, Release 29 (185 MB 10/13/09)

Mapping250K_Nsp Annotations, CSV format, Release 21 (81 MB 01/29/07)

Mapping250K_Sty Annotations, CSV format, Release 21 (75 MB 01/29/07)

Mapping250K_Nsp Annotations, CSV format, Release 22 (84 MB 03/09/07)

Mapping250K_Sty Annotations, CSV format, Release 22 (77 MB 03/09/07)

Mapping250K_Nsp Annotations, CSV format, Release 23 (87 MB 07/12/07)

Mapping250K_Sty Annotations, CSV format, Release 23 (80 MB 07/12/07)

Mapping250K_Nsp Annotations, CSV format, Release 24 (78 MB 11/28/07)

Mapping250K_Sty Annotations, CSV format, Release 24 (71 MB 11/28/07)

Mapping250K_Nsp Annotations, CSV format, Release 25 (90 MB 04/07/08)

Mapping250K_Sty Annotations, CSV format, Release 25 (84 MB 04/07/08)

Mapping250K_Nsp Annotations, CSV format, Release 26 (92 MB 07/09/08)

Mapping250K_Sty Annotations, CSV format, Release 26 (85 MB 07/09/08)

Mapping250K_Nsp Annotations, CSV format, Release 27 (83 MB 11/25/08)

Mapping250K_Sty Annotations, CSV format, Release 27 (77 MB 11/25/08)

Mapping250K_Nsp Annotations, CSV format, Release 28 (84 MB 03/06/09)

Mapping250K_Sty Annotations, CSV format, Release 28 (78 MB 03/06/09)

Mapping250K_Sty Annotations, SQLite Format, Release 29 (185 MB 10/13/09)

Mapping250K_Nsp Annotations, SQLite Format, Release 24 (188 MB 10/13/09)

Mapping250K_Sty Annotations, SQLite Format, Release 24 (188 MB 10/13/09)

Mapping250K_Sty Annotations, SQLite Format, Release 28 (211 MB 10/13/09)

Mapping250K_Nsp Annotations, SQLite Format, Release 28 (211 MB 10/13/09)

Mapping250K_Sty Annotations, SQLite Format, Release 27 (210 MB 10/13/09)

Mapping250K_Nsp Annotations, SQLite Format, Release 27 (210 MB 10/13/09)

Mapping250K_Sty Annotations, SQLite Format, Release 26 (223 MB 10/13/09)

Mapping250K_Nsp Annotations, SQLite Format, Release 26 (223 MB 10/13/09)

Mapping250K_Sty Annotations, SQLite Format, Release 25 (219 MB 10/13/09)

Mapping250K_Nsp Annotations, SQLite Format, Release 25 (219 MB 10/13/09)

Mapping250K_Nsp Annotations, CSV format, Release 29 (74 MB 07/08/09)

Mapping250K_Sty Annotations, CSV format, Release 29 (68 MB 07/08/09)

Mapping250K_Sty GTC Genome Browser File (23 MB 03/12/10)

Mapping250K_Sty GTC Genome Browser File, Release 29 (22 MB 08/12/09)

Mapping250K_Sty GTC Genome Browser File, Release 28 (22 MB 05/04/09)

Mapping250K_Nsp GTC Genome Browser File, Release 28 (22 MB 05/04/09)

Mapping250K_Nsp GTC Genome Browser File (23 MB 03/12/10)

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