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Sample GSM1639790 Query DataSets for GSM1639790
Status Public on Jan 01, 2016
Title SNP cells
Sample type RNA
Source name Canine mammary gland tumor
Organism Canis lupus familiaris
Characteristics gender: female
age: 10-year-old
tissue: tumor cells in the pleural effusion
Treatment protocol Establishment of the cell line.The tumor cells were prepared under aseptic conditions for cell culture. The cells were cultured in 35-mm diameter petri dishes (Nunc, Ltd., Roskilde, Denmark) in RPMI 1640 medium (Invitrogen, Carlsbad, CA) supplemented with 10% heat-inactivated fetal bovine serum (Nichirei Biosciences Inc., Tokyo, Japan) and PSN (5 mg/ml penicillin, 5 mg/ml streptomycin, and 10 mg/ml neomycin) solution (Invitrogen), then incubated in 5% CO2 at 37 °C. The cells were subcultured by washing with phosphate-buffered saline. Then, the cells were harvested from near-confluent cultures by brief exposure to a solution containing 0.25% trypsin and 1 mmol/l tetrasodium ethylenediaminetetraacetic acid solution with phenol red (Invitrogen). Trypsinization was stopped using RPMI 1640 containing 10% fetal bovine serum. Trypsinized cells were transferred to a new petri dish.
Growth protocol For clonal experiments, we serially diluted cell suspensions and plated them onto 96-well plates. We marked wells containing one single cell after microscopic confirmation. A colony was then sub-cultured from each marked well into a 12-well plate. Cloning was repeated two times. Cell lines were maintained in continuous culture over 60 passages, and we designated the established cell line as SNP cells.
Extracted molecule total RNA
Extraction protocol miRNeasy® Mini Kit was used.
Label biotin
Label protocol We followed protocol of manual that is FlashTagTM Biotin HSR RNA Labeling Kit User Manual.
Hybridization protocol We followed protocol of manual that is FlashTagTM Biotin HSR RNA Labeling Kit User Manual.
Scan protocol We followed manufacturer's protocol, and used GeneChip® Scanner 3000 7G.
Data processing Data acquisition and normalization (RMA) were used Affymetrix® Expression Console™ Software.
Submission date Mar 20, 2015
Last update date Jan 01, 2016
Contact name Tomohiro Osaki
Organization name Tottori University
Department Faculty of Agriculture
Street address 4-101 Koyamachominami
City Tottori
State/province Tottori
ZIP/Postal code 680-8553
Country Japan
Platform ID GPL19117
Series (1)
GSE67129 Establishment and miRNA expression characterization of a canine mammary gland tumor cell line

Data table header descriptions
VALUE Normalized intensity

Data table
MIMAT0000001_st 15979.43 P
MIMAT0015091_st 1.786215 A
MIMAT0000002_st 1.419771 A
MIMAT0015092_st 2.12413 A
MIMAT0020301_st 1.515229 A
MIMAT0000003_st 2.971401 P
MIMAT0020302_st 1.655059 A
MIMAT0000004_st 1.792998 A
MIMAT0000005_st 1.57008 A
MIMAT0015093_st 8.672174 P
MIMAT0020303_st 1.364688 A
MIMAT0000006_st 2.222437 A
MIMAT0020304_st 1.273882 A
MIMAT0000007_st 2.12413 A
MIMAT0015094_st 1.418555 A
MIMAT0000008_st 1.786215 A
MIMAT0020305_st 1.695565 A
MIMAT0000009_st 1.785381 A
MIMAT0020306_st 1.335714 A
MIMAT0000010_st 1.540865 A

Total number of rows: 36249

Table truncated, full table size 944 Kbytes.

Supplementary file Size Download File type/resource
GSM1639790_test_miRNA-4_0_.CEL.gz 701.8 Kb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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