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Platform GPL10283 Query DataSets for GPL10283
Status Public on Jun 30, 2010
Title Nimblegen Mouse 25K MM5_HELP_Promoter array
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Mus musculus
Manufacturer NimbleGen
Manufacture protocol See Roche NimbleGen website.
 
Description 2006-10-26_MM5_HELP_Promoter (design id=4803)
Custom DNA methylation microarray for the HELP assay, designed to cover 25,720 HpaII-amplifiable fragments around promoter regions and imprinted regions of the mouse genome. Based on the May 2004 release (NCBI Build 33, UCSC mm5) of the mouse genome.
While the data probes are the same for both the 2006-10-26_MM5_HELP_Promoter array (design id=4803) and the 2005-07-20_MM5_HELP_Promoter array (design id=2371), they differ in the number of random probes included.
The sequences of the oligonucleotides are available in the .ndf file, which is linked as a supplementary file.
 
Contributor(s) Figueroa ME, Melnick AM, Greally JM
Submission date Apr 02, 2010
Last update date Jun 30, 2010
Contact name Maria Eugenia Figueroa
E-mail(s) [email protected]
Organization name University of Miiami
Department Human Genetics
Lab Maria Figueroa
Street address 1501 NW 10th Ave, BRB 709A, Locator code C227
City Miami
State/province FL
ZIP/Postal code 33136
Country USA
 
Samples (50) GSM531837, GSM531838, GSM531839, GSM531840, GSM531841, GSM531842 
Series (6)
GSE21273 DNMT3B7 disrupts embryonic development and accelerates lymphomagenesis
GSE22827 Cell of origin influences molecular and functional properties of murine induced pluripotent stem cells
GSE35815 Maternal Influence on Exonic CpG Island Methylation in the Developing Hippocampus [HELP]

Data table header descriptions
ID
BUILD Version of the mouse genome used to design the array
CHROMOSOME Chromosome number
RANGE_GB RefSeq accession.version of chromosome (mm5 genome)
RANGE_START HpaII-amplifiable fragment start point relative to RANGE_GB
RANGE_STOP HpaII-amplifiable fragment end point relative to RANGE_GB
SPOT_ID
SEQ_LENGTH Length of HpaII-amplifiable fragment
DATE_ENTERED Date of design of the oligonucleotide
SOURCE_DB source database used as a reference for array design

Data table
ID BUILD CHROMOSOME RANGE_GB RANGE_START RANGE_STOP SPOT_ID SEQ_LENGTH DATE_ENTERED SOURCE_DB
MM5MSPIS00000029 MM5 chr10 NC_000076.1 3133171 3133648 478 3/18/05 UCSC
MM5MSPIS00000030 MM5 chr10 NC_000076.1 3133649 3134207 559 3/18/05 UCSC
MM5MSPIS00000131 MM5 chr10 NC_000076.1 3517650 3518200 551 3/18/05 UCSC
MM5MSPIS00000132 MM5 chr10 NC_000076.1 3518308 3519262 955 3/18/05 UCSC
MM5MSPIS00000259 MM5 chr10 NC_000076.1 4432322 4432956 635 3/18/05 UCSC
MM5MSPIS00000260 MM5 chr10 NC_000076.1 4433305 4433556 252 3/18/05 UCSC
MM5MSPIS00000282 MM5 chr10 NC_000076.1 4531393 4531618 226 3/18/05 UCSC
MM5MSPIS00000285 MM5 chr10 NC_000076.1 4549829 4550182 354 3/18/05 UCSC
MM5MSPIS00000335 MM5 chr10 NC_000076.1 4716951 4718147 1197 3/18/05 UCSC
MM5MSPIS00000336 MM5 chr10 NC_000076.1 4718148 4719282 1135 3/18/05 UCSC
MM5MSPIS00000388 MM5 chr10 NC_000076.1 4986043 4986402 360 3/18/05 UCSC
MM5MSPIS00000438 MM5 chr10 NC_000076.1 5228937 5229460 524 3/18/05 UCSC
MM5MSPIS00000452 MM5 chr10 NC_000076.1 5284881 5285438 558 3/18/05 UCSC
MM5MSPIS00000453 MM5 chr10 NC_000076.1 5285439 5285897 459 3/18/05 UCSC
MM5MSPIS00000558 MM5 chr10 NC_000076.1 5736984 5737423 440 3/18/05 UCSC
MM5MSPIS00000622 MM5 chr10 NC_000076.1 5917342 5918610 1269 3/18/05 UCSC
MM5MSPIS00000718 MM5 chr10 NC_000076.1 6083553 6084013 461 3/18/05 UCSC
MM5MSPIS00000719 MM5 chr10 NC_000076.1 6084199 6084534 336 3/18/05 UCSC
MM5MSPIS00000826 MM5 chr10 NC_000076.1 6342846 6343545 700 3/18/05 UCSC
MM5MSPIS00000939 MM5 chr10 NC_000076.1 6771656 6772767 1112 3/18/05 UCSC

Total number of rows: 25720

Table truncated, full table size 1891 Kbytes.




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

Supplementary file Size Download File type/resource
GPL10283_2006_10_26_MM5_HELP_Promoter.ndf.gz 21.0 Mb (ftp)(http) NDF

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