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Sample GSM5956752 Query DataSets for GSM5956752
Status Public on Apr 03, 2022
Title CybbKO RPM F4/80high 2
Sample type RNA
Source name Mouse resident peritoneal macrophage (B220-CD115+ F4/80high MHCII-)
Organism Mus musculus
Characteristics genotype: CGD
tissue: Peritoneal lavage
gender: Male
age: 9wks
Extracted molecule total RNA
Extraction protocol Qiagen RNAeasy micro plus
Label Cy5
Label protocol RNA samples were amplified using SIGMA WTA2 RNA amplification system. Amplified cDNAs were chemically labeled with Kreatech ULS RNA labeling kit (Kreatech Diagnostics). Per reaction, 3ug of each RNA (+water=16ul) was mixed with Kreatech 10x labeling buffer (2ul) and Kreatech cy5/DY-ULS (2ul). The reactions were incubated at 85C for 15 minutes in the dark and placed on ice for 3 minutes. Labeled cDNA was purified with Qiagen PCR purification columns according to manufacturer’s protocol. cDNAs were quantitated on a Nanodrop spectrophotometer. Detailed protocol can be found at
Hybridization protocol The balanced aRNAs were suspended in Agilent 2X Gene Expression buffer (55ul), Agilent 10X Blocking agent (11ul), and Kreablock (6ul). The hybridization solutions were applied to Agilent Mouse v2 4x44K microarrays (G4846A-026655). Hybridization was carried out at 65C for 20 hours. Washing procedures were carried out according to Agilent gene expression protocols.
Scan protocol Slides were scanned on an Agilent C-class Microarray scanner to detect Cy5 fluorescence, according to manufacturer's specifications.
Description No treatment
Data processing Gridding and analysis of images was performed using Feature Extraction (v11.5.1.1, Agilent Technologies). The extracted signal was quantile-normalizated using Partek.
Submission date Mar 16, 2022
Last update date Apr 03, 2022
Contact name Mary C Dinauer
Organization name Washington University In St Louis
Department Pathology & Immunology
Street address 660 South Euclid Ave
City St Louis
State/province Missouri
ZIP/Postal code 63110
Country USA
Platform ID GPL11202
Series (2)
GSE198771 Analysis of resident peritoneal macrophage's transcriptome in WT and CGD mice
GSE198778 The leukocyte NADPH oxidase 2 (NOX2) plays a key role in pathogen killing and immunoregulation

Data table header descriptions
VALUE Normalized signal intensity

Data table
A_51_P366061 17391.5633
A_55_P2173827 961.7979227
A_55_P2146590 1083.061912
A_55_P2030790 1626.550613
A_55_P2059352 1735.938353
A_55_P2073024 2893.700712
A_55_P2007389 22.25118092
A_55_P2016842 1464.203132
A_55_P2174203 1112.58512
A_55_P2173825 9367.835325
A_55_P1969650 23.75155395
A_52_P574668 1089.235354
A_55_P2086825 2537.865681
A_55_P1992617 308.8815738
A_55_P1988183 1878.675267
A_55_P2124751 681.6418011
A_55_P1970910 1447.050946
A_55_P2193512 21.73005619
A_51_P269792 2215.013843
A_51_P246066 3520.342299

Total number of rows: 31176

Table truncated, full table size 776 Kbytes.

Supplementary file Size Download File type/resource
GSM5956752_252665510856_S01_GE1_107_Sep09_red_only_1_3.txt.gz 9.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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