Drug perturbation gene set enrichment analysis (dpGSEA): a new transcriptomic drug screening approach

Drug perturbation gene set enrichment analysis (dpGSEA): a new transcriptomic drug screening approach

Background: In this study, we demonstrate that our modified Gene Set Enrichment Analysis (GSEA) method, drug perturbation GSEA (dpGSEA), can detect phenotypically relevant drug targets through a unique transcriptomic enrichment that emphasizes biological directionality of drug-derived gene sets. Res...

Full description

Bibliographic Details
Main Authors:	Cameron, C.M (Author), Cameron, M.J (Author), Dazard, J.-E (Author), Fang, M. (Author), Richardson, B. (Author)
Format:	Article
Language:	English
Published:	BioMed Central Ltd 2021
Subjects:	Antiviral therapy biology CD4+ T lymphocyte CD4-Positive T-Lymphocytes cell cycle Cell Cycle Computational Biology Diagnosis Differentially expressed gene Drug discovery drug effect Drug Evaluation, Preclinical Drug screening Drug-targeting Gene set enrichment analysis Genes genetics human Humans metabolism Mitochondrial dysfunction Neuroendocrine tumors Perturbation techniques phenotype Phenotype preclinical study probability Probability procedures transcriptome Transcriptome Transcriptomics Tumors
Online Access:	View Fulltext in Publisher

Similar Items

Drug perturbation gene set enrichment analysis (dpGSEA): a new transcriptomic drug screening approach
by: Mike Fang, et al.
Published: (2021-01-01)

Mining Drug-Target Associations in Cancer: Analysis of Gene Expression and Drug Activity Correlations
by: Monica M. Arroyo, et al.
Published: (2020-04-01)

DRAP: a toolbox for drug response analysis and visualization tailored for preclinical drug testing on patient-derived xenograft models
by: Quanxue Li, et al.
Published: (2019-01-01)

A Model for drug therapy using integrase strand transfer inhibitor for acute and chronic infections of HIV
by: Tesfahun Berhane, et al.
Published: (2017-03-01)

A Model for drug therapy using integrase strand transfer inhibitor for acute and chronic infections of HIV
by: Tesfahun Berhane, et al.
Published: (2017-03-01)

Acute toxicity and "structure-action" dependence of 4-(R-benzylidenamino)-5-methyl-4H-1,2,4-triazoles 3-tion
by: T. V. Kravchenko, et al.
Published: (2017-08-01)

In-Vitro Approaches to Predict and Study T-Cell Mediated Hypersensitivity to Drugs
by: Sean Hammond, et al.
Published: (2021-04-01)

Connecting genetics and gene expression data for target prioritisation and drug repositioning
by: Enrico Ferrero, et al.
Published: (2018-05-01)

Fluconazole induced Stevens-Johnson Syndrome Leading to the Diagnosis of HIV Infection
by: Prafulla Kumar Sharma, et al.
Published: (2019-12-01)

Transcriptomic Signatures Predict Regulators of Drug Synergy and Clinical Regimen Efficacy against Tuberculosis
by: Shuyi Ma, et al.
Published: (2019-11-01)

Multilayer modelling of the human transcriptome and biological mechanisms of complex diseases and traits
by: Azevedo, T., et al.
Published: (2021)

A Review of Current In Silico Methods for Repositioning Drugs and Chemical Compounds
by: Binsheng He, et al.
Published: (2021-07-01)

Generation of Antibody-Drug Conjugate Resistant Models
by: Lucía Gandullo-Sánchez, et al.
Published: (2021-09-01)

Characteristics of monolayer formation in vitro by the chytrid Batrachochytrium dendrobatidis
by: Shalika Silva, et al.
Published: (2019-12-01)

New Drugs - From Necessity to Delivery
by: Kedzierska Ewa, et al.
Published: (2018-06-01)

Establishment and Characterization of a New Intrahepatic Cholangiocarcinoma Cell Line Resistant to Gemcitabine
by: Chiara Varamo, et al.
Published: (2019-04-01)

Anti-Tumour Drugs: Planning Preclinical Efficacy and Safety Studies
by: O, A. Bezborodova, et al.
Published: (2020-06-01)

Three-dimensional aspects of formulation excipients in drug discovery: a critical assessment on orphan excipients, matrix effects and drug interactions
by: Vijayabhaskar Veeravalli, et al.
Published: (2020-12-01)

High-Throughput Transcriptome Profiling in Drug and Biomarker Discovery
by: Xiaonan Yang, et al.
Published: (2020-02-01)

Facilitating Drug Discovery in Breast Cancer by Virtually Screening Patients Using In Vitro Drug Response Modeling
by: Robert F. Gruener, et al.
Published: (2021-02-01)

The Influence of Pharmacogenetics on the Clinical Relevance of Pharmacokinetic Drug–Drug Interactions: Drug–Gene, Drug–Gene–Gene and Drug–Drug–Gene Interactions
by: Martina Hahn, et al.
Published: (2021-05-01)

Effects of p53 gene on drug resistance in human lung cancer cell lines
by: Wentao YUE, et al.
Published: (2008-04-01)

A de novo evolved gene in the house mouse regulates female pregnancy cycles
by: Chen Xie, et al.
Published: (2019-08-01)

Primary cutaneous CD4‐positive small/medium T‐cell lymphoproliferative disorder: The first‐reported Latin‐American case with response to doxycycline
by: Claudio Escanilla, et al.
Published: (2019-12-01)

Longitudinal expression profiling of CD4+ and CD8+ cells in patients with active to quiescent giant cell arteritis
by: Elisabeth De Smit, et al.
Published: (2018-07-01)

Differential Regulation of Interferon Signaling Pathways in CD4<sup>+</sup> T Cells of the Low Type-2 Obesity-Associated Asthma Phenotype
by: Fahd Alhamdan, et al.
Published: (2021-09-01)

Comparison of Target Features for Predicting Drug-Target Interactions by Deep Neural Network Based on Large-Scale Drug-Induced Transcriptome Data
by: Hanbi Lee, et al.
Published: (2019-08-01)

Impact of Drug-Gene-Interaction, Drug-Drug-Interaction, and Drug-Drug-Gene-Interaction on (es)Citalopram Therapy: The PharmLines Initiative
by: Muh. Akbar Bahar, et al.
Published: (2020-11-01)

ANALYTICAL REVIEW OF THE NORMATIVE BASE TO PROVIDE THE GOOD QUALITY OF PRECLINICAL STUDIES IN RUSSIA
by: A. I. Selezneva, et al.
Published: (2019-01-01)

Dependence of АRT efficiency from the infection route in HIV infected patients
by: D. H. Zhyvytsia, et al.
Published: (2017-06-01)

Integrative computational approach identifies drug targets in CD4+ T-cell-mediated immune disorders
by: Amin, R., et al.
Published: (2021)

Effects of a new thyrotropic drug isolated from Potentilla alba on the male reproductive system of rats and offspring development
by: Lubov V. Krepkova, et al.
Published: (2021-01-01)

Gene expression responses to anti-tuberculous drugs in a whole blood model
by: Philip Kam Weng Kwan, et al.
Published: (2020-04-01)

Novel deep learning-based transcriptome data analysis for drug-drug interaction prediction with an application in diabetes
by: Gu, Y., et al.
Published: (2021)

New Drugs from Marine Organisms in Alzheimer’s Disease
by: Patrizia Russo, et al.
Published: (2015-12-01)

The identification of cell-cycle related genes in response to antiretroviral drug treatment (ART) in lung cancer
by: Marima, Rahaba Makgotso
Published: (2018)

A Proteotranscriptomic-Based Computational Drug-Repositioning Method for Alzheimer’s Disease
by: Soo Youn Lee, et al.
Published: (2020-01-01)

Computational Analysis of Transcriptional Regulation after Single and Multiple Drug Administration
by: Rapakoulia, Trisevgeni
Published: (2019)

Signaling pathway cloud regulation for in silico screening and ranking of the potential geroprotective drugs
by: Alex eZhavoronkov, et al.
Published: (2014-03-01)

Multi-omics analysis defines 5-fluorouracil drug resistance in 3D HeLa carcinoma cell model
by: Wang, G., et al.
Published: (2021)