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Sample GSM1622661 Query DataSets for GSM1622661
Status Public on Mar 04, 2015
Title Medial habenula of nicotine self-administraion 2 (microRNA)
Sample type RNA
 
Source name Mus musculus after nicotine self-administraion experiment
Organism Mus musculus
Characteristics tissue: Medial habenula (MHb)
strain: C57BL/6
Treatment protocol Nicotine self-administration (intravenous infusion, 0.01, 0.03, 0.1, 0.25, 0.4 mg/kg/infusion), using an operant self-administration chamber, was conducted in the sound attenuating cubicle (Med Associates, Inc.) in the dark room.
Growth protocol C57BL/6 mice were individually housed for 12 hours with a reversed light-dark cycle in a laboratory breeding room.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TriZol as described by the manufacturer (Ambion). RNA quality was assessed by Agilent 2100 bioanalyser using the RNA 6000 Nano Chip (Agilent Technologies, Amstelveen, The Netherlands), and quantity was determined by ND-1000 Spectrophotometer (NanoDrop Technologies, Inc., DE, USA).
Label biotin
Label protocol Per RNA sample, 1 ug were used as input into the procedure as recommended by protocol (Genisphere FlashTagTM Biotin RNA Labeling for Affymetrix GeneChip miRNA arrays). 1 ug of total RNA was used as input into the labeling reaction.
 
Hybridization protocol Labeled miRNA was hybridized to the array for 16 hours at 48 “C and 60 rpm as described in the protocol.
Scan protocol After hybridization, the chips were stained and washed in a Genechip Fluidics Station 450(Affymetrix) and scanned by using a Genechip Array scanner 3000 7G (Affymetrix).
Description miRNA
Data processing The scan image data was extracted through Affymetrix Commnad Console software1.1. The raw .cel file generated through above procedure meant expression intensity data and was used for the next step. Expression data were generated by Affymetrix Expression Console software version1.1. For the normalization, RMA (Robust Multi-Average) algorithm implemented in Affymetrix Expression Console software was used. Affymetrix miRNA-4 Array contains multispecies. The data of Mus musculus was analysed in this study.
 
Submission date Mar 03, 2015
Last update date Mar 04, 2015
Contact name Heh-In Im
E-mail(s) hain.science@gmail.com
Organization name Korea Institute of Science and Technology
Street address 5, Hwarang-ro 14-gil
City Seongbuk-gu, Seoul
ZIP/Postal code 136-791
Country South Korea
 
Platform ID GPL19117
Series (2)
GSE66452 Expression data from the Lateral Habenula (LHb) and the Medial Habenula (MHb) of the mouse (C57BL/6) brain after nicotine self-administration (microRNA)
GSE66453 Expression data from the Lateral Habenula (LHb) and the Medial Habenula (MHb) of the mouse (C57BL/6) brain after nicotine self-administration

Data table header descriptions
ID_REF
VALUE Normalized signal intensity (RMA normalization)

Data table
ID_REF VALUE
MIMAT0000121_st 13.81297
MIMAT0004519_st 5.95535
MIMAT0000122_st 14.50547
MIMAT0004520_st 5.755967
MIMAT0016979_st 0.5938376
MIMAT0000123_st 4.424266
MIMAT0000124_st 11.93262
MIMAT0004521_st 0.6661935
MIMAT0016980_st 5.447526
MIMAT0000125_st 15.07916
MIMAT0004522_st 7.649399
MIMAT0000126_st 13.3744
MIMAT0004523_st 5.485548
MIMAT0000127_st 10.10061
MIMAT0000128_st 13.37918
MIMAT0000129_st 11.04968
MIMAT0000130_st 12.98619
MIMAT0004524_st 7.802637
MIMAT0000131_st 14.12848
MIMAT0016981_st 1.524268

Total number of rows: 3163

Table truncated, full table size 74 Kbytes.




Supplementary file Size Download File type/resource
GSM1622661_mHb-NC.CEL.gz 835.6 Kb (ftp)(http) CEL
Processed data included within Sample table

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