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Platform GPL5677 Query DataSets for GPL5677
Status Public on Jul 31, 2007
Title HumanHap300-2 v2.0 Genotyping BeadChip
Technology type oligonucleotide beads
Distribution commercial
Organism Homo sapiens
Manufacturer Illumina, Inc.
Manufacture protocol other
Catalog number WG-31-311
Support see manufacturer's website (http://www.illumina.com)
Coating unknown
 
Description HumanHap300-2 v2.0 Genotyping BeadChip provides genome-wide coverage using >318,000 tag SNPs chosen from the International HapMap Project.

The HumanHap300-Duo BeadChip is a two-sample format and contains:
• >318,000 tag SNPs derived from the Phase I and II HapMap data, >42,000 of these from Phase II HapMap data.
• A higher density of tag SNPs in regions of the genome within 10kb of a gene or in evolutionarily conserved regions.
• Approximately 7,300 nsSNPs (non-synonymous amino-acid changing SNPs).
• A higher density of SNPs across Major Histocompatibility Complex (MHC) regions.
• Higher genomic coverage with fewer SNPs compared to wholegenome genotyping strategies that use randomly selected SNPs.
• Approximate 5kb median SNP spacing, providing unprecedented resolution for detecting chromosomal aberrations.
• The ability to analyze matched (paired) samples for LOH and DNA copy number analysis applications.
• Over 52,000 SNPs in reported copy number variant (CNV) regions1.
 
Web link http://www.illumina.com/downloads/HUMANHAP300_Duo.pdf
Contributor(s) Pevsner J
Submission date Jul 27, 2007
Last update date Feb 10, 2009
Contact name GEO admin
E-mail(s) geo@ncbi.nlm.nih.gov
Organization name NCBI/NLM/NIH
Street address 9000 Rockville Pike
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Samples (10) GSM213516, GSM213526, GSM213528, GSM213529, GSM517994, GSM517998 
Series (3)
GSE8627 Genomic integrity of P493 cells
GSE20623 SNP genotyping of cryptic complexity in structural chromosome abnormalities previously detected by cytogenetic analysis
GSE21097 Acquired chromosome abnormalities in the lungs of patients with Pulmonary Arterial Hypertension (Illumina)
Relations
Alternative to GPL6980 (official)

Data table header descriptions
ID
SPOT_ID SNP_id; NCBI rs accession number for each SNP; Entrez SNP ID
Address Position on the Illumina chip
Chromosome Chromosomal assignment of each SNP
Position Physical map position of each SNP

Data table
ID SPOT_ID Address Chromosome Position
175921 rs3934834 504250114 1 1045729
142066 rs3737728 404200286 1 1061338
84234 rs6687776 200520152 1 1070488
252381 rs9651273 700070392 1 1071463
22860 rs4970405 1190239 1 1088878
98390 rs12726255 302370259 1 1089873
138233 rs2298217 404280070 1 1104902
81607 rs4970357 200540014 1 1116987
146488 rs4970362 403780730 1 1134661
156630 rs9660710 401990142 1 1139265
6178 rs4970420 1740438 1 1146396
260311 rs1320565 805270243 1 1159781
128978 rs11260549 403520482 1 1161717
156724 rs9729550 402350332 1 1175165
1283 rs11721 450039 1 1192554
44671 rs2887286 105340750 1 1196054
240130 rs3813199 701780333 1 1198200
239834 rs3766186 705270300 1 1202358
248222 rs7515488 705890653 1 1203727
278305 rs715643 805690086 1 1212830

Total number of rows: 317503

Table truncated, full table size 11813 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided

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