NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Platform GPL10989 Query DataSets for GPL10989
Status Public on Sep 29, 2010
Title NimbleGen Mouse CGH 3x720K Whole-Genome Tiling Array (Build MM9) [080603_MM9_WG_CGH_HX3]
Technology type in situ oligonucleotide
Distribution commercial
Organism Mus musculus
Manufacturer Roche NimbleGen Inc.
Manufacture protocol See www.nimblegen.com
Catalog number 05542081001
 
Description Format: 3x720K
Source: UCSC
Build: NCBI37, MM9
Probe Length: 50-75mer
Median Probe Spacing: 3537

NimbleGen description files linked below:
080603_MM9_WG_CGH_HX3.ndf
080603_MM9_WG_CGH_HX3.pos
 
Submission date Sep 28, 2010
Last update date Jul 15, 2011
Contact name Markus Müschen
E-mail(s) mmuschen@chla.usc.edu
Phone + 1 323 361 5592
Fax +1 323 361 1516
URL http://www.lymphocytes.de/
Organization name University of Southern California
Department Childrens Hospital Los Angeles
Lab Müschen Lab
Street address 4650 Sunset Blvd
City Los Angeles
State/province CA
ZIP/Postal code 90027
Country USA
 
Samples (50) GSM601419, GSM601420, GSM601421, GSM601422, GSM601423, GSM601424 
Series (8)
GSE24400 Comparison of copy number variations between wildtype and BCL6 knockout BCR-ABL1-driven acute lymphoblastic leukemia
GSE30749 CGH analysis of haploid ES cells
GSE30879 Expression and CGH analysis of haploid ES cells

Data table header descriptions
ID PROBE_ID (NimbleGen probe identifier) from .pos file
SEQ_ID
CHROMOSOME Chromosome number
RANGE_GB Chromosome ACCESSION.VERSION
SPOT_ID
RANGE_START POSITION. Probe start position
PROBE_COUNT The uniqueness count of the probe in the target genome
LENGTH Probe length
GC The percent GC of the probe sequence
SEQUENCE Probe oligonucleotide sequence

Data table
ID SEQ_ID CHROMOSOME RANGE_GB SPOT_ID RANGE_START PROBE_COUNT LENGTH GC SEQUENCE
CHR01FS003002567 chr1:1-197195432 chr1 NC_000067.5 3002567 1 50 0.46 TAGAATGGAACTATGTCATGCCATCCATTCTGCGTGGTAGGACTCAGCAA
CHR01FS003003786 chr1:1-197195432 chr1 NC_000067.5 3003786 1 59 0.39 CATTATTCCCATTCAGCAGTTATTGAATGGCTAGTAACCCATTACCTATGTGTGAGTAC
CHR01FS003011391 chr1:1-197195432 chr1 NC_000067.5 3011391 1 59 0.39 ATTGAGGACAGCAAATACTTAAGATAATCAGATAGCGGTAGGCAAGCTAAGAACAGAAG
CHR01FS003014357 chr1:1-197195432 chr1 NC_000067.5 3014357 1 50 0.44 AAAGCAATCCCAATCAAATCAGGGAGTAGACAACACTGCCCTTTTTCTCC
CHR01FS003018614 chr1:1-197195432 chr1 NC_000067.5 3018614 1 50 0.44 AATCATGGCATCAATAGTGCTAAGGTGTCAAGGGCTACTAAGGTATGGAG
CHR01FS003022241 chr1:1-197195432 chr1 NC_000067.5 3022241 1 50 0.44 CTTGGCCATTCAAGTTTCATCAGTTGACAATCCTGGGTTTAGCTCTGTTC
CHR01FS003026285 chr1:1-197195432 chr1 NC_000067.5 3026285 1 50 0.44 TGGGCTAGCATTTGCGTTCTTTTAGGGTGTATATGACATTTGCGGAGGAT
CHR01FS003034358 chr1:1-197195432 chr1 NC_000067.5 3034358 1 51 0.43 GGCACATGTGACAATTTGGTATCATTCTTTATTGCCCGTGGTTGTGTCTTG
CHR01FS003037908 chr1:1-197195432 chr1 NC_000067.5 3037908 1 55 0.42 ATCAAAAGATTAATCCATCGGTTAGGTCAGTTCCTACATGACCCAGTTACTTCCC
CHR01FS003040093 chr1:1-197195432 chr1 NC_000067.5 3040093 1 50 0.44 TTTTCCTGACTACGTACTTACGGTCCATTTCTCATGGAGTCTTCTTCCAC
CHR01FS003041991 chr1:1-197195432 chr1 NC_000067.5 3041991 1 51 0.43 TTATCAAAGCAAGTCTGTTTTAGTAGGAGCGGCAGTGACCTCCTGGTTTTT
CHR01FS003047748 chr1:1-197195432 chr1 NC_000067.5 3047748 1 50 0.46 TGACAGTGGTGACGAAAAGGCTGTGCTGAGTGCACAAAAGAGGAGAAATT
CHR01FS003050305 chr1:1-197195432 chr1 NC_000067.5 3050305 1 57 0.40 GACCTAGTGCACTCATGACAAACAATCAGGTACAGTTGAGTACACTCGTTTATATAC
CHR01FS003052595 chr1:1-197195432 chr1 NC_000067.5 3052595 1 53 0.42 AGGAAGTCATACGGAGCACATGTCTTACACCCTATTCCCAGTTTATACATTCT
CHR01FS003057911 chr1:1-197195432 chr1 NC_000067.5 3057911 1 58 0.38 CAAGAACAGGAATTAGATTTTCTGTGAAAGTCTGATAGAACTCGGCATTAAACCCATC
CHR01FS003061122 chr1:1-197195432 chr1 NC_000067.5 3061122 1 56 0.41 TTCCCTACTGCCAAAGTGTCCAGTAGATAACCAAGGTAATTGGTAATAGTCTTGAG
CHR01FS003065156 chr1:1-197195432 chr1 NC_000067.5 3065156 1 50 0.46 TGCACGTGGGACGGCTCAGGATGTTGGTATGATGAATTACTAACTCAAGA
CHR01FS003068324 chr1:1-197195432 chr1 NC_000067.5 3068324 1 50 0.44 GATGCTGTACTACTGCTTAGCATACGCCAAAGGACTCAATATACAACCCA
CHR01FS003072431 chr1:1-197195432 chr1 NC_000067.5 3072431 1 58 0.40 TCGAAATAATTCTACTCGAAGACCTAGCTATGACACTCTCAACTAGAGTGGCAATTCT
CHR01FS003076180 chr1:1-197195432 chr1 NC_000067.5 3076180 1 64 0.38 AATATTGCGCTTGTTCTCGTCTTATATATGCAGCCTTTTCTAAGAGTGATAATGTCATAGCCTG

Total number of rows: 713358

Table truncated, full table size 87373 Kbytes.




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

Supplementary file Size Download File type/resource
GPL10989_080603_MM9_WG_CGH_HX3.ndf.gz 38.8 Mb (ftp)(http) NDF
GPL10989_080603_MM9_WG_CGH_HX3.pos.gz 5.4 Mb (ftp)(http) POS

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap