Dataset DOI: 10.5061/dryad.mkkwh71cx

Description of the data and file structure

Title

Basroparib, a Tankyrase-Wnt Pathway Inhibitor, Suppresses YAP-Driven Oncogenic Activity by Stabilizing Axin

Authors

Young-Ju Kwona,b†, Dong Young Kima†, Yuna Kima, Uk-Il Kimc, and Jae-Sung Kima,b*

aDivision of Radiation Biomedical Research, Korea Institute of Radiological and Medical Sciences, Seoul, Korea

bRadiological and Medico-Oncological Sciences, University of Science and Technology, Seoul, Korea

cST Pharm Co., Ltd., Seoul, Korea

†These authors contributed equally to this work.

Corresponding author: jaesung@kirams.re.kr

 Data Overview

This dataset contains processed and quantified data supporting the findings of the manuscript titled "Basroparib, a Tankyrase–Wnt Pathway Inhibitor, Suppresses YAP-Driven Oncogenic Activity by Stabilizing Axin." The data provided are essential for validating the experimental results described in the manuscript.

Contents of the Dataset

1. Gene_set_data_analysis.xlsx
- Gene set enrichment and expression analysis related to YAP pathway activity.
- Includes:
• Analysis of YAP expression patterns across colorectal cancer cell line databases
• Correlation analyses of YAP1, TNKS1, and TNKS2 expression in colorectal, breast, lung, and pancreatic cancers
- Corresponds to Figures 7E and F

2.Processed_data_mRNA_level_J_reporter_gene_assay_J_IF_quantification_J_viability_data.xlsx
- Compiled processed datasets including:
• Quantitative PCR (qPCR) data (normalized gene expression values, fold changes, statistical significance)
• Reporter gene assay (luciferase activity)
• Immunofluorescence (IF) quantification (normalized intensity values)
• Cell viability assay data (dose–response and statistical analysis)
- Corresponds to Figures 1–7

3. Western Blot (WB) Quantification
- Quantified Western blot data showing relative protein expression
- Normalized to loading controls (e.g., β-actin)
- Corresponds to Figures 1–6

Usage Notes

All data are fully processed and ready for direct analysis.

Refer to the main manuscript for detailed experimental methods and interpretations.

Citation

If you use or reference this dataset in your research, please cite both the associated manuscript and this dataset in Dryad accordingly.

Files and variables

File: Gene_set_data_analysis1.xlsx

Description: Analysis of YAP expression patterns across colorectal cancer cell line databases and correlation analyses of YAP1, TNKS1, and TNKS2 expression in colorectal, breast, lung, and pancreatic cancers.

Transcript-level YAP1 expression data (TPM, pTPM, nTPM) across colorectal cancer cell lines (Fig. 3A)

Variables

• Gene: Ensembl gene ID (e.g., ENSG00000137693)
• Gene.name: Gene symbol (e.g., YAP1)
• Cell.line: Cell line name (e.g., SW1417, OUMS-23)
• TPM: Transcripts per million
• pTPM: Protein-coding TPM
• nTPM: Normalized TPM
• Cross-cancer transcript expression analysis of YAP1, TNKS1, and TNKS2 across colorectal, breast, lung, and pancreatic cancer types.
• Variables:
  • Cancer_Type: Colorectal, Breast, Lung, Pancreatic (inferred from column grouping)
  • YAP1: Transcript expression level of YAP1
  • TNKS1: Transcript expression level of TNKS1
  • TNKS2: Transcript expression level of TNKS2

File: Processed_data_mRNA_level__reporter_gene_assay__IF_quantification__viability_data.xlsx

Description: This file contains normalized and processed experimental data from multiple assays, including mRNA expression (qPCR), reporter gene assays (e.g., luciferase), immunofluorescence (IF) quantification, and cell viability measurements under various treatment conditions (e.g., Basroparib, control, combination therapy).

Variables

• [mRNA Expression]
  • Cell_Line: Name of the cell line (e.g., SW480, DLD1)
  • Gene: Target gene measured (e.g., CTGF, CYR61, AXIN2)
  • Drug_Concentration: Basroparib or compound concentration in μM
  • Relative_Expression: Normalized gene expression level (often relative to vehicle-treated control)
    [Reporter Gene Assay]
  • Reporter_Type: Type of luciferase or reporter construct (e.g., 8xGTIIC-Luc, TEAD-activity reporter)
  • Treatment_Group: Drug or combination used (e.g., Basroparib)
  • Luciferase_Activity: Normalized luciferase output (e.g., fold-change relative to control)
  • Replicate: Biological replicate number
    [IF Quantification]
  • Target_Protein: Marker visualized by IF (e.g., YAP)
  • Fluorescence_Intensity: Quantified intensity value per cell or per image
  • Treatment_Condition: Drug treatment group
    [Cell Viability]
  • Cell_Line: Cell line name
  • Drug: Name of drug administered (e.g., Basroparib)
  • Concentration: μM
  • Viability_%: Cell viability expressed as percentage relative to control

File: Quantification_data_WB.xlsx

Description: Quantified Western blot data showing relative expression levels of key signaling proteins across various treatment conditions and cell lines.

Variables

• Protein_Name: Protein measured in each blot (e.g., YAP, AMOT, CTGF)
• Cell_Line: Name of the cell line analyzed (e.g., SW480, DLD-1)
• Drug_Concentration: Concentration of Basroparib treatment (e.g., 0, 5, 10 μM)
• Relative_Band_Intensity: Quantified signal intensity of target protein normalized to loading control (e.g., β-actin)
• Replicate: Experimental replicate number
• Treatment_Group: Experimental condition (e.g., DMSO, Basroparib, combo)
• Blot_ID: Reference to the figure panel or blot (e.g., Fig.1C, Fig.2A)

File: Raw_data_Xenograft.xlsx

Description: Raw xenograft data including tumor volume measurements and experimental conditions in xenograft mouse models.

• Variables:
  • Day: Number of days since treatment initiation or tumor implantation (e.g., 0, 4, 7, 11, …)
  • Treatment_Group: Experimental groups including Vehicle, Basroparib (Bas), Combination therapy (Combo)
  • Mouse_ID: Individual columns representing each mouse within each treatment group (implicitly labeled)
  • Tumor_Volume_mm3: Tumor size at each time point, measured in cubic millimeters (mm³)

Code/software

All data files were created and processed using Microsoft Excel. No custom code or scripts were used to generate or analyze the data in this submission. All values have been pre-processed and manually curated in Excel to ensure compatibility across spreadsheet platforms. No additional software or packages are required.

Access information

Other publicly accessible locations of the data:

• None.

Data was derived from the following sources:

1. The Human Protein Atlas
   • Website: https://www.proteinatlas.org
   • Description: RNA-seq expression data for colorectal cancer (CRC) were obtained for correlation analysis.
   • License: Open-access for academic use, as per HPA terms of use.
2. The Cancer Genome Atlas (TCGA) via cBioPortal
   • Website: https://www.cbioportal.org
   • Description: Gene expression data for colorectal, breast, lung, and pancreatic cancer patient samples were accessed through the Genomic Data Commons via cBioPortal.
   • License: Open-access under the NIH Genomic Data Sharing (GDS) policy.