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Sample GSM398796 Query DataSets for GSM398796
Status Public on Dec 01, 2021
Title SCI_MP_4h_duplicate1
Sample type RNA
 
Source name spinal cord with injury, MP, 4h
Organism Rattus norvegicus
Characteristics injury: SCI
medication: MP
time: 4h
Treatment protocol In MP experiment, animals were randomly assigned into four groups: spinal cord injury with 70% ethanol (SCI + EtOH), spinal cord injury with MP (30 mg/kg) (SCI + MP), Sham + EtOH and Sham + MP. In EPO experiment, animals were randomly assigned into four groups: spinal cord injury with H2O (SCI + H2O), spinal cord injury with EPO (5000 U/kg) (SCI + EPO), Sham + H2O and Sham + EPO. Animals were sacrificed at 2, 4, 6, 8, 12, 24 and 48 hours after medication. Additional animals including Sham + EtOH, SCI + EtOH, Sham + H2O, and SCI + H2O were sacrificed immediately after control medication. For all surgeries, animals were anesthetized by a mixture of Zoletil 50 (25 mg/kg) and Rompun (xylazine, 10 mg/Kg) via intraperitoneal injections.
Growth protocol Long Evans female rats (8 or 9 week-old) were purchased from National Laboratory Animal Center, Taipei, Taiwan. All animals were housed in a 12-h light/dark cycle and had free access to water and food all the time. For animal care and surgical procedures, we followed the National Institutes of Health Guide for the Care and Use of Laboratory Animals (NIH Publications No. 80-23, revised 1978) and all surgical protocols were approved by the Animal Care and Use Committee of Taipei Medical University.
Extracted molecule total RNA
Extraction protocol Following different time after MP, EPO or control medication, SCI animals were anesthetized with a mixture of Zoletil 50 and Rompun described earlier and the 5-mm lesion spinal cord was removed, frozen immediately in liquid nitrogen and stored in liquid nitrogen prior to RNA extraction. Total RNA was extracted by the Trizol method and the integrity of RNA was examined by Agilent Bioanalyzer (Agilent Technologies, Inc. Headquarters, Palo Alto, CA, USA) before oligo microarray analysis started.
Label biotin
Label protocol According to the Affymetrix manufactor's manual.
 
Hybridization protocol According to the Affymetrix manufactor's manual.
Scan protocol According to the Affymetrix manufactor's manual.
Description Gene Expression data
Data processing The data are normalized using RMA in GeneSpring GX 10.
 
Submission date Apr 28, 2009
Last update date Dec 01, 2021
Contact name Yuan-Chii G. Lee
E-mail(s) ycgl@tmu.edu.tw
Organization name Taipei Medical University
Department Graduate Institute of Biomedical Informatics
Lab Yuan-Chii G. Lee
Street address 250, Wuxing Street
City Taipei
ZIP/Postal code 110
Country Taiwan
 
Platform ID GPL6247
Series (1)
GSE15878 Effects of Methylprednisolone (MP) to Spinal Cord Injury

Data table header descriptions
ID_REF
VALUE log2 RMA signal (baseline transformation-baseline to median of all samples)

Data table
ID_REF VALUE
10701620 -0.021812916
10701630 -0.007697582
10701632 0.09384966
10701636 0.18602848
10701643 -0.050614357
10701648 -0.041625023
10701654 0.037206173
10701663 -0.05591917
10701666 0.03257227
10701668 -0.15064526
10701671 0.027046204
10701674 -0.014764309
10701679 0.03724575
10701684 0.124390125
10701689 -0.3643899
10701691 0.36117792
10701697 0.011154175
10701699 -0.5578952
10701709 -0.1392498
10701714 0.01523447

Total number of rows: 27342

Table truncated, full table size 547 Kbytes.




Supplementary file Size Download File type/resource
GSM398796.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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