|
| Status |
Public on Feb 17, 2022 |
| Title |
E. coli + anti-LIF 2 |
| Sample type |
RNA |
| |
|
| Source name |
lung epithelial cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
infection: E. coli
antibody: anti-LIF
|
| Treatment protocol |
Mice received intratracheal instillations of vehicle (PBS) or Escherichia coli (10^6 CFU). Control IgG or anti-LIF specific IgG was included in the instillate.
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions (Life Technologies). RNA was further purified using the the Qiagen RNEasy kit with the optional DNAse treatment.
|
| Label |
biotin
|
| Label protocol |
Biotin labeling was performed using the WT Plus reagent kit (Affymetrix, Santa Clara, CA) according to the manufacturer's protocol.
|
| |
|
| Hybridization protocol |
The labeled, fragmented DNA was hybridized to the Affymetrix Mouse Gene 1.0 ST for 18 hours in a GeneChip Hybridization oven 640 at 45oC with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.
|
| Scan protocol |
After staining, microarrays were immediately scanned using an Affymetrix GeneArray Scanner 3000 7G Plus.
|
| Description |
Gene expression data from lung epithelial cells of animal treated for 24h with intratracheal instillate of E. coli and anti-LIF antibody.
|
| Data processing |
Raw Affymetrix CEL files were normalized to produce Entrez-Gene-identifier-specific expression values using the implementation of the Robust Multiarray Average (RMA) in the affy Bioconductor package (version 1.36.1), using R version 2.15.1 and the Brainarray mogene10stmmentrezgcdf R package (version 17.0.0).
|
| |
|
| Submission date |
Jul 04, 2021 |
| Last update date |
Feb 17, 2022 |
| Contact name |
Boston University Microarray and Sequencing Resource |
| E-mail(s) |
[email protected]
|
| Organization name |
Boston University
|
| Department |
Microarray and Sequencing Resource
|
| Street address |
72 East Concord Street, E631
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platform ID |
GPL21783 |
| Series (2) |
| GSE179418 |
Expression data from mouse lung epithelial cells during E. coli pneumonia in the presence or absence of LIF neutralization (24 h) |
| GSE179764 |
Epithelial LIF signaling limits apoptosis and lung injury during bacterial pneumonia |
|
