Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Transcription profiling of mouse NMuMG cells after MTB/TRAS short-term induction, tumor, and TGFbeta treatment


ABSTRACT: To test whether SVD regression is sufficiently sensitive to detect activation of a secondary, endogenous pathway as it occurs following ectopic manipulation of a strong primary pathway by focusing on the relationship between the Ras and TGFβ signaling pathways. Experiment Overall Design: Bitransgenic MTB/TRAS mice in an FVB/N background were generated by crossing MTB and TRAS mice. To induce oncogenic v-H-Ras expression, 6-week old MTB/TRAS female mice were administered 2 mg/ml doxycycline with 5% sucrose in their drinking water. Mammary tissue was harvested at different post-induction time points and snap frozen. To generate Ras-driven tumors, MTB/TRAS mice were administered 0.012 mg/ml doxycycline in their drinking water and monitored for tumor formation. Mice were sacrificed when tumors reached ~1 cm and tissue was snap frozen. The non-transformed murine mammary epithelial cell line, NMuMG, was cultured in Dulbecco’s modified Eagle’s medium (DMEM) supplemented with 10% bovine calf serum, 1% penicillin/streptomycin, and 2 mM L-glutamine. For TGFβ treatment, cells were cultured in low serum medium (0.5%) overnight followed by treatment with 5 ng/ml TGF-β1 or TGF-β3 (Sigma). After 24 hr, RNA and protein were harvested for microarray hybridization or biochemical analysis.

ORGANISM(S): Mus musculus

SUBMITTER: Lewis Chodosh 

PROVIDER: E-GEOD-13986 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

altmetric image

Publications

Singular value decomposition-based regression identifies activation of endogenous signaling pathways in vivo.

Liu Zhandong Z   Wang Min M   Alvarez James V JV   Bonney Megan E ME   Chen Chien-chung CC   D'Cruz Celina C   Pan Tien-chi TC   Tadesse Mahlet G MG   Chodosh Lewis A LA  

Genome biology 20081218 12


The ability to detect activation of signaling pathways based solely on gene expression data represents an important goal in biological research. We tested the sensitivity of singular value decomposition-based regression by focusing on functional interactions between the Ras and transforming growth factor beta signaling pathways. Our findings demonstrate that this approach is sufficiently sensitive to detect the secondary activation of endogenous signaling pathways as it occurs through crosstalk  ...[more]

Similar Datasets

2022-09-14 | GSE202754 | GEO
2012-02-10 | GSE35076 | GEO
| PRJNA219453 | ENA
2013-12-31 | GSE43216 | GEO
2021-09-09 | PXD022860 | Pride
2012-11-29 | GSE41506 | GEO
2010-01-01 | E-MEXP-2233 | biostudies-arrayexpress
2012-09-06 | GSE40606 | GEO
2012-02-10 | E-GEOD-35076 | biostudies-arrayexpress
| PRJNA112479 | ENA