A generic Transcriptomics Reporting Framework (TRF) for 'omics data processing and analysis.

Area of Science:

• Transcriptomics
• Regulatory Science
• 'omics studies

Background:

• Omics studies, particularly transcriptomics, are increasingly used in regulatory contexts.
• Lack of standardized reporting hinders reproducibility and regulatory acceptance of omics data.
• Existing frameworks may not cover the full scope from data generation to interpretation.

Purpose of the Study:

• To present a generic Transcriptomics Reporting Framework (TRF) for omics studies in regulatory settings.
• To define essential reporting parameters for transcriptome profiling and differentially expressed gene (DEG) analysis.
• To introduce a Reference Baseline Analysis (RBA) for standardized data processing and comparison.

Main Methods:

• The TRF outlines parameters for reporting, not specific methodologies.
• The RBA provides a simple, standardized methodology for data processing and analysis.
• The framework's applicability is demonstrated through a case study using common software tools.

Main Results:

• The TRF ensures transparency in omics data processing and analysis steps.
• The RBA serves as a comparative benchmark for evaluating different data processing approaches.
• The TRF is applicable to all types of regulatory omics studies, including sequencing data.

Conclusions:

• The TRF enhances confidence in the processing and regulatory application of omics data.
• The framework's general applicability and simplicity facilitate widespread adoption.
• Standardized reporting through TRF and RBA supports robust regulatory decision-making.