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Platform GPL9219 Query DataSets for GPL9219
Status Public on Apr 22, 2010
Title NimbleGen Agrsci Bovine 6.3M v1, Design 1
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Bos taurus
Manufacturer NimbleGen
Manufacture protocol See manufacturer's web site (www.nimblegen.com).
 
Description High density, custom Nimblegen HD2 CGH tiling arrays were planned in 3 designs. Each design covers a specific set of chromosomes with 2.1M probes, which yields 420 bp of average probe spacing (301 bp median probe spacing).
Design_ID: 8023
Design_name: 080804_Btau4_design1_CGH_03
Description: HX1 CGH for Bos taurus release 4.0, chr 8,12,18,19,21,28,29,U,X; chrU is all chrUn scaffolds concatenated with 10-base run of N's as separator; selection at i200w50.
Annotation in this array is based on the bovine genome assembly, version 4.0 (Btau_4.0).
Probe sequences are available in the 'PROBE_SEQUENCE' column of the 'GPL9219_080804_Btau4_design1_CGH_HX1.ndf' supplementary file.
 
Submission date Sep 17, 2009
Last update date Apr 22, 2010
Contact name Jakob Hedegaard
E-mail(s) Jakob.Hedegaard@ki.au.dk
Phone (+45)89991363
Organization name Aarhus University, Faculty of Agricultural Sciences
Department Department of Genetics and Biotechnology
Lab Molecular Genetics and System Biology
Street address PO-box 50
City Tjele
ZIP/Postal code DK-8830
Country Denmark
 
Samples (38) GSM454308, GSM454310, GSM454311, GSM454312, GSM454322, GSM454324 
Series (1)
GSE18174 Copy number variation in the bovine genome

Data table header descriptions
ID Probe_ID
CHROMOSOME Chromosome from which probe is derived
RANGE_GB RefSeq accession.version of chromosome in Btau_4.0
SPOT_ID
RANGE_START Start coordinate of probe relative to RANGE_GB
LENGTH Length of probe

Data table
ID CHROMOSOME RANGE_GB SPOT_ID RANGE_START LENGTH
CHR08FS000024341 chr8 NC_007306.3 24341 58
CHR08FS000025371 chr8 NC_007306.3 25371 57
CHR08FS000025791 chr8 NC_007306.3 25791 50
CHR08FS000026096 chr8 NC_007306.3 26096 60
CHR08FS000026306 chr8 NC_007306.3 26306 62
CHR08FS000026656 chr8 NC_007306.3 26656 50
CHR08FS000026947 chr8 NC_007306.3 26947 56
CHR08FS000027242 chr8 NC_007306.3 27242 55
CHR08FS000027582 chr8 NC_007306.3 27582 50
CHR08FS000027822 chr8 NC_007306.3 27822 59
CHR08FS000028087 chr8 NC_007306.3 28087 57
CHR08FS000028332 chr8 NC_007306.3 28332 63
CHR08FS000028587 chr8 NC_007306.3 28587 55
CHR08FS000028808 chr8 NC_007306.3 28808 57
CHR08FS000029073 chr8 NC_007306.3 29073 58
CHR08FS000029319 chr8 NC_007306.3 29319 50
CHR08FS000029599 chr8 NC_007306.3 29599 50
CHR08FS000029849 chr8 NC_007306.3 29849 59
CHR08FS000030069 chr8 NC_007306.3 30069 58
CHR08FS000030397 chr8 NC_007306.3 30397 50

Total number of rows: 2128916

Table truncated, full table size 94975 Kbytes.




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

Supplementary file Size Download File type/resource
GPL9219_080804_Btau4_design1_CGH_HX1.ndf.gz 117.5 Mb (ftp)(http) NDF
GPL9219_080804_Btau4_design1_CGH_HX1.pos.gz 16.3 Mb (ftp)(http) POS
GPL9219_080804_Btau4_design1_CGH_HX1_probe_locations.gff.gz 14.9 Mb (ftp)(http) GFF

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