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Platform GPL3472 Query DataSets for GPL3472
Status Public on Nov 01, 2006
Title Sanger/Nimblegen Human array painting array_Case 1
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer NimbleGen
Manufacture protocol Breakpoint spanning oligonucleotide arrays were designed essentially as described previously (Selzer et al., 2005). Briefly, the regions of interest were repeat-masked. The array design contained both 50-mer fixed length probes and isothermal probes that ranged in length from 45 bp to 77 bp. Probes were generated from both strands, and replicated on the array 3 times. The arrays were constructed by maskless array synthesis technology (NimbleGen Systems Inc.), with up to 385,000 oligonucleotides being synthesized by photolithography.

Selzer, R. R. et al. Analysis of chromosome breakpoints in neuroblastoma at sub-kilobase resolution using fine-tiling oligonucleotide array CGH. Genes Chromosomes Cancer 44, 305-19 (2005).
 
 
Citation(s) 16075461
Submission date Feb 20, 2006
Last update date Nov 01, 2006
Contact name Nigel Paul Carter
E-mail(s) npc@sanger.ac.uk
Phone +44 1223 494860
Fax +44 1223 494919
Organization name Wellcome Trust Sanger Institute
Department Molecular Cytogenetics
Street address Wellcome Trust Genome Campus
City Hinxton
State/province Cambirdge
ZIP/Postal code CB10 1SA
Country United Kingdom
 
Samples (1) GSM99640
Series (1)
GSE4297 Ultra high resolution array painting

Data table header descriptions
ID
GB_RANGE Genbank_chromosome accession.version[start_coordinate_on_sequence..end_coordinate_on_sequence]. Build35 source sequence for oligo design.
CHROMOSOME Chromosome
POSITION Position of first base
LENGTH Length of oligo
SPOT_ID spot identifier

Data table
ID GB_RANGE CHROMOSOME POSITION LENGTH SPOT_ID
CHR1700P000000000_F1 NC_000017.9[35364797-35759588] 17 35364797 50
CHR1700P000000000_F2 NC_000017.9[35364797-35759588] 17 35364797 50
CHR1700P000000000_F3 NC_000017.9[35364797-35759588] 17 35364797 50
CHR1700P000000010_F1 NC_000017.9[35364797-35759588] 17 35364807 50
CHR1700P000000010_F2 NC_000017.9[35364797-35759588] 17 35364807 50
CHR1700P000000010_F3 NC_000017.9[35364797-35759588] 17 35364807 50
CHR1700P000000020_F1 NC_000017.9[35364797-35759588] 17 35364817 50
CHR1700P000000020_F2 NC_000017.9[35364797-35759588] 17 35364817 50
CHR1700P000000020_F3 NC_000017.9[35364797-35759588] 17 35364817 50
CHR1700P000000030_F1 NC_000017.9[35364797-35759588] 17 35364827 50
CHR1700P000000030_F2 NC_000017.9[35364797-35759588] 17 35364827 50
CHR1700P000000030_F3 NC_000017.9[35364797-35759588] 17 35364827 50
CHR1700P000000040_F1 NC_000017.9[35364797-35759588] 17 35364837 50
CHR1700P000000040_F2 NC_000017.9[35364797-35759588] 17 35364837 50
CHR1700P000000040_F3 NC_000017.9[35364797-35759588] 17 35364837 50
CHR1700P000000050_F1 NC_000017.9[35364797-35759588] 17 35364847 50
CHR1700P000000050_F2 NC_000017.9[35364797-35759588] 17 35364847 50
CHR1700P000000050_F3 NC_000017.9[35364797-35759588] 17 35364847 50
CHR1700P000000060_F1 NC_000017.9[35364797-35759588] 17 35364857 50
CHR1700P000000060_F2 NC_000017.9[35364797-35759588] 17 35364857 50

Total number of rows: 388102

Table truncated, full table size 26098 Kbytes.




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