NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1627713 Query DataSets for GSM1627713
Status Public on Mar 10, 2015
Title HOS_74_1
Sample type RNA
 
Source name Osteosarcoma commercial human cell lines
Organism Homo sapiens
Characteristics cell line: HOS
properties: Osteoblastic
passage number: Passage number 74
Treatment protocol 143B, HOS, LM5 and SaOS-2 cells were cultured in in Dulbecco’s Modified Eagle Medium (DMEM containing 4.5 g/l glucose)/Ham F12 (Invitrogen, Carlsbad, CA, USA) (1:1) supplemented with 10% fetal calf serum (FCS), 1 unit/ml penicillin G, and 1 μg/ml streptomycin. The cultures were incubated at 37 ºC in a humidified incubator with 5% CO2
Growth protocol 143B, HOS, LM5 and SaOS-2 cells were cultured at same conditions and at 75% confulence the RNAs were isolated
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using Rneasy MiniKit from Qiagen ( Valencia, CA, USA) following manufacturers instruction. RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the low input quick amplification labeling kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
 
Hybridization protocol Human SurePrint G3 8x60K microarrays were incubated 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 immediately air dried prior scanning.
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray C reader using using a scan Control software version A.8.4.1 and one color scan setting for 4x44k array slides (Scan Area 61x21.6 mm, Scan resolution 5 um, Dye channel is set to Green and Green PMT is set to 100%).
Description human osteosarcoma cell line
SAMPLE 10
Data processing The scanned images were analyzed with Feature Extraction Software 10.7.3 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities.
 
Submission date Mar 09, 2015
Last update date Mar 10, 2015
Contact name Ram Mohan Ram Kumar
E-mail(s) rkumar@research.balgrist.ch
Organization name University Hospital Balgrist, University of Zurich, Zurich, Switzerland
Department Orthopaedics
Street address Forchstrasse 340
City Zurich
ZIP/Postal code 8008
Country Switzerland
 
Platform ID GPL13607
Series (2)
GSE66673 Identification of genes regulated during passaging of human osteosarcoma cell lines
GSE66675 Identification of genes regulated during passaging of human and mouse osteosarcoma cell lines

Data table header descriptions
ID_REF
VALUE Normalized intensity

Data table
ID_REF VALUE
1 3.22E+04
2 2.61E+00
3 5.11E+00
4 2.17E+02
5 5.71E+02
6 3.55E+01
7 3.64E+03
8 6.51E+02
9 8.85E+00
10 6.50E+01
11 3.70E+00
12 7.71E+02
13 6.73E+02
14 3.32E+02
15 2.43E+04
16 2.74E+00
17 1.49E+02
18 1.13E+02
19 2.75E+00
20 1.76E+03

Total number of rows: 62976

Table truncated, full table size 911 Kbytes.




Supplementary file Size Download File type/resource
GSM1627713_HOS_74_1.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap