Differentiation of mammary epithelial cells with/without exposure to RANKL.

UID: 10818

Description: Summary from the GEO: "In order to investigate the mechanisms underlying defective alveologenesis caused by RANK over-expression in mice, global gene expression profiles from primary acinar cultures of mammary epithelial cells were analyzed."

Overall design from the GEO: " Mammary epithelial cells from gestation day 16.5 WT and MMTV-RANK females were obtained. Cultures were established in the presence of prolactin, which induces differentiation into milk secreting acini, and with or without RANKL (Receptor Activator of NFkB Ligand) to precisely determine the role of RANK signaling at midgestation. Global gene expression profiling at 8 hours (h), 24 h and 72 h from WT, and MMTV-RANK 3D acinar cultures was obtained.

Please note that experiments were performed technically as dual channel (e.g., Cy3 and Cy5-labeled samples hybridized to the same array; total 72 hybridizations) but the results were processed as though they were single channel. Rosetta Resolver ratio split algorithm was used to parse individual Cy3 (Ch1) or Cy5 (Ch2) intensity values and then to combine 4 replicate values for each sample into a single intensity value. Therefore, the normalized_combined_data.txt (available on the Series records) contains 36 data columns [i.e. (72array X 2 channel)/4 replicates; 2 genotype (WT or TG) X 3 replicates X 3 timepoints (8 ,24 ,72hr) X 2 treatments (w/&w/o RANKL)]"

Subject of Study

Subject(s)

OncoTree Cancer Type(s)

Breast

Access via GEO
Plain text files of expression profiling by array
Accession #: GSE66174

Access via BioProject
Additional information about the overall initiative.
Accession #: PRJNA276015
Access Restrictions: Free to All
Access Instructions: he NCBI Gene Expression Omnibus and BioProject databases provide open access to these files.
Associated Publications: Gómez-Aleza C, Nguyen B, Yoldi G, et al. Inhibition of RANK signaling in breast cancer induces an anti-tumor immune response orchestrated by CD8+ T cells. Nature Communications. 2020; 11:6335.

Sigl V, Owusu-Boaitey K, Joshi PA, et al. RANKL/RANK control Brca1 mutation- . Cell Res. 2016;26(7):761-774.
Data Type: Genomic
Equipment Used: Agilent-012694 Whole Mouse Genome G4122A
The oligo microarray is comprised of 41,534 60-mer oligonucleotide probes representing over 41,000 mouse genes and transcripts.
Dataset Format(s): Plain Text, TAR
Data Tool(s): WGS
Dataset Size: 743.6 Mb (TAR of TXT), 4.2 Mb (TXT)

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