Characterizing an HSF1-dependent transcriptional program in metastatic lung adenocarcinoma

UID: 10813

Author(s): Hoj, Jacob P., Pendergast, Ann M.

Description: Summary from the GEO: "The purpose of this study was to identify gene targets differentially regulated by shRNA-mediated knockdown of the HSF1 transcription factor in the brain-metastatic lung adenocarcinoma cell line PC9-BrM3."

Overall design from the GEO: "Samples were analyzed for differential gene expression in PC9-BrM3 cells transduced with shRNAs against NTC (non-target control) versus HSF1. Additionally, differential expression analysis was performed on another set of samples comparing PC9 parental versus PC9-BrM3 cells to identify genes differentially expressed relevant to brain metastasis."

Subject of Study

Subject(s)

OncoTree Cancer Type(s)

CNS/Brain
Lung Adenocarcinoma

Access via GEO
Plain text files of expression profiling by high throughput sequencing
Accession #: GSE149246

Access via SRA
RNA sequencing of 8 samples.
Accession #: SRP258163

Access via BioProject
Additional information about the overall inititative.
Accession #: PRJNA627725
Access Restrictions: Free to All
Access Instructions: The NCBI Gene Expression Omnibus, SRA, and BioProject databases provide open access to these files. The SRA Run Selector link at the bottom of the page is a processing tool for raw data.
Associated Publications: Hoj JP, Mayro B, Pendergast AM. The ABL2 kinase regulates an HSF1-dependent transcriptional program required for lung adenocarcinoma brain metastasis. Proc Natl Acad Sci U S A. 2020;117(52):33486-33495.
Data Type: Genomic
Equipment Used: Illumina HiSeq 2000
High throughput gene sequencing system
Software Used: SRA Toolkit
The NCBI SRA Toolkit enables reading ("dumping") of sequencing files from the SRA database and writing ("loading") files into the .sra format.
Dataset Format(s): Plain Text
Data Tool(s): RNA Seq
Dataset Size: 37.5 MB

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