Raw gene Expression data is sourced from GEO, and the appropriate db package for mapping probes to gene symbols was sourced from the Bioconductor AnnotationData packages.
You can read more about microarray data here.
Select conditions below to toggle them from the plot:
| GROUP | CONDITION | SAMPLES |
|---|---|---|
| 2D Monolayer |
GSM4121420 GSM4121421 GSM4121422
|
|
|
GSM4121417 GSM4121418 GSM4121419
|
||
| 3D reconstituted basement membrane (rBM) |
GSM4121426 GSM4121427 GSM4121428
|
|
|
GSM4121423 GSM4121424 GSM4121425
|
Submission Date: Oct 15, 2019
Summary: The series represent gene expression profiles of HMT3522 S1 mammary epithelial cells cultured as 2D monolayers or in 3D reconstituted basement membrane (rBM) and treated with the death ligand TRAIL. Keywords: Genetic modification; response to death induction
GEO Accession ID: GSE138900
PMID: No Pubmed ID
Submission Date: Oct 15, 2019
Summary: The series represent gene expression profiles of HMT3522 S1 mammary epithelial cells cultured as 2D monolayers or in 3D reconstituted basement membrane (rBM) and treated with the death ligand TRAIL. Keywords: Genetic modification; response to death induction
GEO Accession ID: GSE138900
PMID: No Pubmed ID
Visualizations are precomputed using the Python package scanpy on the top 5000 most variable genes.
Differential expression signatures are automatically computed using the limma R package.
More options for differential expression are available to compute below.
Signatures:
Control Condition
Perturbation Condition
Only conditions with at least 1 replicate are available to select
Differential expression signatures can be computed using DESeq2 or characteristic direction.