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Sample GSM768903 Query DataSets for GSM768903
Status Public on Jan 11, 2013
Title In vitro-differentiated human Th2 cells
Sample type RNA
 
Source name Human Th2 polarized cells
Organism Homo sapiens
Characteristics cell type: in vitro Th2 cells (derived from blood CD4 T-cells)
Treatment protocol Blood derived primary CD4+ T-cells were differentiated in vitro into a TH2 phenotype (Sandig et al. 2007. Human th2 cells selectively express the orexigenic peptide, pro-melanin-concentrating hormone. Proc Natl Acad Sci U S A 104: 12440-12444)
Extracted molecule total RNA
Extraction protocol The total RNA extraction was performed using the miRNeasy kit from Qiagen (including theoptional on column-DNAseI treatment). RNA quantity was measure by OD spectrophotometry (Nanodrop).
Label Cy3
Label protocol Total RNA was labeled with Cy3-CTP using the miRCURY LNA microRNA power labeling kit (Exiqon, Inc, Woburn, MA), according to manufacturers protocol
 
Hybridization protocol Cy3-labelled RNA was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent UCSF custom 8x15K miRNA arrays for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.
Scan protocol Slides were scanned on the Agilent scanner immediately after washing.
Description Raw data file:
252372310006_S01_miRNA-v1_95_May07_2_2.txt
Data processing The scanned images were analyzed with Feature Extraction Software 10.6 (Agilent) using default parameters)
All replicates of human miR probes have been collapsed and median signal intensity extracted.
 
Submission date Jul 29, 2011
Last update date Jan 11, 2013
Contact name Andrea J Barczak
Organization name UCSF Sandler Center Functional Genomics Core Facility
Street address 1550 4th St Rock Hall 545
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platform ID GPL13992
Series (1)
GSE31030 Targeting microRNAs for asthma treatment

Data table header descriptions
ID_REF
VALUE Log2 Normalized signal intensity

Data table
ID_REF VALUE
UCSF034_001594 4.596671037
UCSF034_001542 4.458911027
UCSF034_000931 4.554318926
UCSF034_002012 5.284927804
UCSF034_001635 4.444248987
UCSF034_001091 4.444248987
UCSF034_001412 4.582227533
UCSF034_000432 4.541893494
UCSF034_001148 4.526410318
UCSF034_001874 4.609096469
UCSF034_001211 4.569802101
UCSF034_000785 5.692219211
UCSF034_001651 4.554318926
UCSF034_002052 4.414546844
UCSF034_002025 4.444248987
UCSF034_000779 4.569802101
UCSF034_001995 4.420151631
UCSF034_002573 4.554318926
UCSF034_002028 11.25061848
UCSF034_001853 4.390449487

Total number of rows: 875

Table truncated, full table size 23 Kbytes.




Supplementary file Size Download File type/resource
GSM768903.txt.gz 818.6 Kb (ftp)(http) TXT
Processed data included within Sample table

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