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Protocol to identify novel immunotherapy biomarkers based on transcriptomic data in human cancers.
1Department of Oncology, The Affiliated Wuxi People's Hospital of Nanjing Medical University, Wuxi 214023, China; Department of Oncology, The First Affiliated Hospital of Nanjing Medical University, Nanjing 210029, China; Wuxi Clinical College of Nanjing Medical University, Wuxi 214023, China.
STAR Protocols
|April 29, 2023
Summary
Identifying new biomarkers for cancer immunotherapy response is crucial. This study outlines a protocol using public transcriptomic data to find and validate novel biomarkers, aiding treatment prediction.
Area of Science:
- Oncology
- Bioinformatics
- Immunology
Background:
- Immune checkpoint inhibitors (ICIs) have revolutionized advanced cancer treatment.
- Predictive biomarkers for ICI therapy response remain largely undiscovered.
- Identifying reliable biomarkers is essential for personalized cancer immunotherapy.
Purpose of the Study:
- To present a systematic protocol for discovering novel biomarkers of therapeutic response to cancer immunotherapies.
- To guide researchers in utilizing public transcriptomic datasets for biomarker identification.
- To accelerate the development and validation of new biomarkers for immunotherapy.
Main Methods:
- Comprehensive review and summarization of public transcriptomic datasets relevant to immunotherapy.
- Description of step-by-step procedures for biomarker identification and evaluation.
- Methodology for assessing the predictive efficacy of potential novel biomarkers.
Main Results:
- A structured approach for leveraging public transcriptomic data is detailed.
- The protocol facilitates the evaluation of novel immunotherapy biomarker candidates.
- The presented methodology aims to streamline the biomarker discovery pipeline.
Conclusions:
- This protocol offers a standardized framework for identifying and validating biomarkers for cancer immunotherapy.
- Utilizing public transcriptomic data can significantly expedite the discovery of predictive biomarkers.
- The approach has the potential to improve patient selection for immunotherapy and enhance treatment outcomes.
