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Sample GSM5216943 Query DataSets for GSM5216943
Status Public on Apr 17, 2021
Title Joint_PTOA_untreated_rep3
Sample type RNA
 
Source name No Treatment PTOA
Organism Mus musculus
Characteristics disease state: post-traumatic osteoarthritis (PTOA)
tissue: Knee joint
age: 3 months
gender: Male
strain: C57BL/6
treatment: untreated
Treatment protocol N/A
Growth protocol N/A
Extracted molecule total RNA
Extraction protocol Equal mass of (1) synovial tissue and (2) articular cartilage and subchondral bone were stored in RNAlater Stabilization Solution (AM7020, Invitrogen) at -80°C until further processing. Samples were homogenized with the Tissuelyser 2 from Qiagen (Redwood City, CA) before total RNA from the was extracted using Qiagen RNeasy Kit for purification of total RNA according to the manufacturer's instructions. mRNA expression analysis with the NanoString nCounter® Mouse Inflammation v2 Panel was performed according to the manufacturer's protocol (NanoString Technologies Inc., Seattle, WA).
Label N/A
Label protocol N/A
 
Hybridization protocol standard NanoString protocol
Scan protocol standard NanoString protocol
Data processing The raw Nanostring nCounter genes were normalized using nSolver 4.0 (NanoString Technologies Inc., Seattle, WA), adjusting for positive controls, housekeeping genes and background level.
 
Submission date Mar 29, 2021
Last update date Apr 19, 2021
Contact name Sean K Bedingfield
Organization name Vanderbilt University
Department Biomedical Engineering
Street address 2301 Vanderbilt Place PMB 351826
City Nashville
State/province TN
ZIP/Postal code 37235-1826
Country USA
 
Platform ID GPL27566
Series (1)
GSE171031 Matrix-anchored Nanoparticles for MMP13 RNA Interference Block Post-Traumatic Osteoarthritis

Data table header descriptions
ID_REF
VALUE RNA counts

Data table
ID_REF VALUE
Ager 40
Alox12 209
Alox15 186
Alox5 286
Areg 7
Arg1 125
Atf2 724
Bcl2l1 575
Bcl6 152
Birc2 299
C1qa 2085
C1qb 3640
C1ra 103
C1s 851
C2 267
C3 2596
C3ar1 2464
C4a 1161
C6 38
C7 36

Total number of rows: 268

Table truncated, full table size 2 Kbytes.




Supplementary file Size Download File type/resource
GSM5216943_20180712_1801-SB-Cart4_39_03.RCC.gz 3.2 Kb (ftp)(http) RCC
Processed data included within Sample table

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