Biometric Research Program (BRP)




This website has been developed using advanced computational and visualization tools for empowering developmental therapeutics investigators worldwide and providing them access to the genome-wide characterization of the NCI-60 cell lines and the enormous time-course databases on genome-wide response to treatment with drugs.

Principal Architect: Dr. Richard Simon
Development team: Drs. Yingdong Zhao, Eric Polley, Ming-Chung Li, Jianwen Fang, Xiaosheng Wang, Alida Palmisano, Peter Szabo; Mr. Henry Rivera
For questions or assistance, please contact the Support Team at ncitpwsupport@mail.nih.gov
Documentation: NCI Transcriptional Pharmacodynamics Workbench User Manual

When publishing results based on the NCI TP Workbench, please cite:
Monks, A, et al. "The NCI Transcriptional Pharmacodynamics Workbench: a tool to examine dynamic expression profiling of therapeutic response in the NCI-60 cell line panel." Cancer Research (2018): canres-0989.
https://www.ncbi.nlm.nih.gov/pubmed/30355619



Drugs azacytidine, bortezomib, cisplatin, dasatinib, doxorubicin, erlotinib, geldanamycin, gemcitabine, lapatinib, paclitaxel, sirolimus, sorafenib, sunitinib, topotecan, vorinostat
Concentration baseline, low concentration, high concentration
Time point 2 hr, 6 hr, 24 hr
Number of data points in Gene Expression experiments 169,817,571
Number of arrays 7623
Number of probe sets per chip 22277
Number of genes per chip 12704
Number of GI50 measurements 866
Number of genes with mutation data 1227
Number of genes with protein expression data 154
Number of pathways 65
Number of transcription factors 121
Number of groups of receptors 53









Heatmap for a cluster of genes

Expression of genes most correlated with:

Input number of genes:






















Query for a single gene's base line expression profile
Query for a single gene's expression profile treated with a specific drug

         Select drug:


      Time profiles for a single gene for multiple drugs
Static Graphs           

Dynamic Graphs       (requires Chrome or Firefox)













Select drug: ; Select drug concentration:

Top 50 genes with largest average fold change across cell lines and time points

Top 50 genes whose expressions are most correlated with GI50













Heatmap for receptor genes
Select group of receptors:

Select drug:

    Sort cell lines by drug sensitivity (Log GI50)











Query for expression profile treated with a specific drug from a user defined gene list

         Select drug:

        

    Sort cell lines by drug sensitivity (Log GI50)












Heatmap for genes in a specific pathway
Select pathway: ; Select drug:

    Sort cell lines by drug sensitivity (Log GI50)












Heatmap for target genes of a specific transcription factor
Select transcription factor: ; Select drug:


Heatmap of drug effects on expression of all transcription factors
Select drug:


Heatmap of drug effects on expression of a specific transcription factor
Select transcription factor: