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Sample GSM973577 Query DataSets for GSM973577
Status Public on Jul 26, 2012
Title sALS mRNA subject-5
Sample type RNA
 
Source name CD14+CD16- monocytes
Organism Homo sapiens
Characteristics cell type: CD14+CD16- monocytes
age: 56 years
Sex: Male
disease state: Sporadic amyotrophic lateral sclerosis (SALS)
ethnicity: Non-hispanic
onset site: limb
fvc: 79
alsfrs: 26
Extracted molecule total RNA
Extraction protocol Blood monocytes were sorted and total RNA was extracted using mirVana RNA isolation kit (Ambion) according to the manufacturer’s protocol
Label NA
Label protocol 100 ng of total RNA was used in 5 µl with specific mRNA tag probes from Nanostring using the Nanostring GX Human Immunology and Nanostring Human Inflammation assays
 
Hybridization protocol Hybrdization reactions were performed according to the manufacturer's instructions (NanoString.com) with 5 µl of the sample preparation reaction. All hybridization reactions were incubated at 65°C for a minimum of 18 h
Scan protocol Hybridized probes were purified and counted on the nCounter Prep Station and Digital Analyzer (NanoString) following the manufacturer’s instructions. For each assay, a high-density scan (600 fields of view) was performed
Description Nanostring GX Human Immunology and Nanostring Human Inflammation assays detected RNAs in sorted CD14+/CD16- blood-derived monocytes (RNA transcriptom per 100 ng total RNA)
Data processing The data were normalized for lane-to-lane variation with a dilution series of six spike-in positive controls using vsn normalization
 
Submission date Jul 25, 2012
Last update date Jul 26, 2012
Contact name Oleg Butovsky
E-mail(s) obutovsky@rics.bwh.harvard.edu
Phone 1-617-525-5313
Organization name Brigham and Women's Hospital, Harvard Medical School
Department Center of Neurologic Diseases
Lab Dr. Oleg Butovsky
Street address 77 Avenue Louis Pasteur, Office 614
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL15846
Series (2)
GSE39642 NanoString nCounter immune-related gene expression in blood sorted CD14+CD16- monocytes from sALS, fALS and HC subjects
GSE39644 Amyotrophic lateral sclerosis

Data table header descriptions
ID_REF
VALUE vsn normalized RNA transcriptoms per 100ng of total RNA

Data table
ID_REF VALUE
ABL1 174
ADA 69
AHR 2713
ARHGDIB 3994
ATG16L1 215
ATM 41
B2M 94777
BATF 74
BCAP31 1049
BCL2 62
BCL3 1051
BCL6 1693
BID 117
BST1 2809
BST2 2136
BTK 1426
C1QBP 613
C1R 26
C2 74
C4A 48

Total number of rows: 372

Table truncated, full table size 3 Kbytes.




Supplementary file Size Download File type/resource
GSM973577_20111022_hc_vs_sALS-1_hc_vs_sALS-1_05.txt.gz 5.7 Kb (ftp)(http) TXT
Processed data included within Sample table

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