NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4984825 Query DataSets for GSM4984825
Status Public on Dec 20, 2021
Title WT_rep2
Sample type RNA
 
Source name splenic Gr-1+ cells
Organism Mus musculus
Characteristics strain: C57BL/6 (B6)
tissue: splenic Gr-1+ cells
Extracted molecule total RNA
Extraction protocol Gr-1+ (Ly6G+) cells were MACS-purified from splenocytes on day 7 after allogeneic (or syngeneic) BMT. Cells were used for RNA extraction when the purity was higher than 97%. For microarray hybridization, total RNA was isolated and purified using a DNA-free RNA isolation kit (RNAqueous-4PCR kit; Ambion, Austin, TX, USA).
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Amplified cRNA (1.5 Pg) was hybridized on Mouse WG-6 v.2 Expression BeadChip arrays (Illumina, San Diego, CA, USA), containing more than 45,281 well-annotated Ref transcripts.
Scan protocol The array chips were scanned on a BeadArray reader (BeadStation 500G; Illumina)
Description replicate 2
9482914090_E
Data processing The raw microarray data were pre-processed through three steps: i) background correction was performed, and ii) the data were log-transformed to log2 scale and ჰ) normalized by the quantile normalization method implemented in Genome Studio software (Illumina).
 
Submission date Dec 22, 2020
Last update date Dec 20, 2021
Contact name Woo-Jeong Shon
E-mail(s) wjson@snu.ac.kr
Phone 82-2-880-8774
Organization name Seoul National University
Department Food and Nutrition
Street address 1, Gwanak-ro, Gwanak-gu
City Seoul
ZIP/Postal code 08826
Country South Korea
 
Platform ID GPL6887
Series (1)
GSE163730 Transcriptomic profiles of splenic Gr-1+ cells from IDO-KO hosts and WT hosts after bone marrow transplantation

Data table header descriptions
ID_REF
VALUE log2 normalization
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2417611 null 0
ILMN_2762289 3.801114153 0.4380342
ILMN_2896528 12.50909629 0
ILMN_2721178 10.89487686 0
ILMN_2458837 null 0.4316239
ILMN_3033922 10.09761211 0
ILMN_3092673 12.07423447 0
ILMN_1230777 11.42720388 0
ILMN_1246069 12.28529586 0
ILMN_1232042 0.776074502 0.8087607
ILMN_1243193 11.04412427 0
ILMN_2524361 4.729140513 0.3675214
ILMN_1242440 null 0.2371795
ILMN_1233188 null 0
ILMN_2543688 4.034653283 0
ILMN_1259789 7.317473215 0.004273504
ILMN_2816356 6.516697712 0.08974359
ILMN_1224596 6.885626829 0.006410256
ILMN_1233643 5.916339056 0.1549145
ILMN_2808939 11.06902945 0

Total number of rows: 45281

Table truncated, full table size 1338 Kbytes.




Supplementary file Size Download File type/resource
GSM4984825_9482914090_E_Grn.idat.gz 2.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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