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Sample GSM419070 Query DataSets for GSM419070
Status Public on Nov 17, 2009
Title Cerebellum left animal 5
Sample type other
 
Channel 1
Source name Cerebellum left hand side
Organism Rattus norvegicus
Characteristics strain: Sprague-Dawley
gender: male
developmental stage: Adult
tissue: cerebellum
hemisphere: Left
molecule: microRNA
Growth protocol Animals were kept under normal day/night and dairy conditions with unlimited access to food and water.
Extracted molecule other
Extraction protocol RNeasy Lipid Tissue Mini Kit (Qiagen) following manufacturer's instructions
Label Alexa Fluor® 5 fluorophor
Label protocol 600 ng microRNA sample were poly-A tailed and tagged with the sequence tag for the Alexa Fluor® 5 fluorophor using the NCode™ miRNA Labeling System (Invitrogen). Universal reference were labeled with Alexa Fluor® 3.
 
Channel 2
Source name universal brain reference
Organism Rattus norvegicus
Characteristics sample type: Invitrogen universal brain reference small RNA (>200 nt in length)
Extracted molecule other
Extraction protocol RNeasy Lipid Tissue Mini Kit (Qiagen) following manufacturer's instructions
Label Alexa Fluor® 5 fluorophor
Label protocol 600 ng microRNA sample were poly-A tailed and tagged with the sequence tag for the Alexa Fluor® 5 fluorophor using the NCode™ miRNA Labeling System (Invitrogen). Universal reference were labeled with Alexa Fluor® 3.
 
 
Hybridization protocol Samples were hybridized against the reference overnight to NCode™ Multi-Species miRNA Microarrays (Invitrogen, Carlsbad, CA, USA) using the NCode™ Multi-Species miRNA Microarrays Kit (Invitrogen, Carlsbad, CA, USA) following the instructions given by the manufacturer. Arrays were then hybridized on a MAUI hybridization station (BioMicro Systems, Inc, Salt Lake City, UT, USA) with Alexa Fluor® 3 and Alexa Fluor® 5 capture reagents and washed.
Scan protocol Scanned using an Agilent DNA microarray scanner.
Images were processed using GenePix Pro software (Molecular Devices, Sunnyvale, CA, USA).
Description Biological replicate 4 of 4.
Data processing Background adjusted using “normexp” with an offset of 50. Print-tip-loess normalization was used to adjust data within each array and subsequent Gquantile normalization to allow comparisons between arrays. Thelimma package from BioConductor was used in R.
 
Submission date Jun 19, 2009
Last update date Nov 17, 2009
Contact name Thomas Werge
Phone +45 4633 4968
Organization name Psychiatric Center, Sct. Hans Hospital
Department Institute of biological Psychiatry
Street address Boserupvej 2
City Roskilde
ZIP/Postal code Dk-4000
Country Denmark
 
Platform ID GPL8745
Series (1)
GSE16725 Regional brain expression maps for microRNAs in rats

Data table header descriptions
ID_REF
VALUE gquantile normalized log 2 ratio (test sample/universal reference)

Data table
ID_REF VALUE
1030 -1.257101611
1231 0.141877247
1431 -0.981199753
1268 -0.219657915
1085 0.10078858
1421 -0.504232576
1033 -0.827800315
1064 -2.240047308
1297 1.733374177
1164 -0.438161877
1163 -0.858530455
1072 -0.101074117
1213 -0.065462049
1377 0.986416476
1384 -1.949405472
1106 0.711862311
1253 -0.124435632
1225 0.317809368
1272 -0.031432325
1031 -2.159495387

Total number of rows: 236

Table truncated, full table size 4 Kbytes.




Supplementary file Size Download File type/resource
GSM419070.gpr.gz 372.0 Kb (ftp)(http) GPR
Processed data included within Sample table

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