Accelerating Pathway Validation: Confirming SHP-2’s Impact on TAM Function
Validate immune-pathway hypotheses at lightning speed. With one click, Aimed Analytics confirms how SHP-2 reshapes tumor-associated macrophages, transforming raw RNA-seq into publication-ready pathway maps—zero coding required.
Leveraging the aimed analytics platform, researchers rapidly confirmed findings from Christofides et al. in Nature Immunology (SHP-2 and PD-1-SHP-2 signaling regulate myeloid cell differentiation and antitumor responses | Nature Immunology) by validating the impact of SHP-2 deficiency in tumor-associated macrophages (TAMs). Within minutes, our RNA-seq analysis workflow—including comprehensive pathway enrichment analysis—revealed key deregulated pathways that mirror the immune activation and myeloid differentiation processes described in the original study.
KEY CHALLENGES IN THE BIOLOGICAL AREA
Complex Data Integration: Mapping vast RNA-seq datasets to specific biological pathways is inherently complex and requires precise computational methods.
Time-Intensive Workflows: Traditional approaches often involve multiple manual steps and coding efforts, delaying critical validation tasks.
ADVANTAGES
Automated Workflow: Our platform seamlessly integrates RNA-seq preprocessing with pathway enrichment analyses, eliminating manual intervention and reducing turnaround times.
Clear Visual Outputs: The automated generation of pathway figures enables researchers to directly compare enriched pathways—such as those linked to immune response, myeloid cell differentiation, and antitumor responses—with established literature.
Ease of Use: A fully code-free interface ensures that users can perform complex analyses regardless of their programming expertise.
USE CASE
a. Context
In a study validating the role of SHP-2 in TAM function, the platform was applied to RNA-seq data from SHP-2-deficient macrophages. The aim was to confirm the enriched pathways that drive immune activation and myeloid differentiation as observed in the findings of Christofides et al.
b. Analytical Steps
Data Upload: Researchers uploaded raw RNA-seq datasets to the Aimed Analytics platform.
Phrase Question: We asked in the chat area, which pathways were deregulated.
RNA-seq Analysis: The system automatically processed the data—normalizing and identifying differentially expressed genes.
Pathway Enrichment: An integrated pathway enrichment module assessed deregulated pathways.
Visualization: The platform produced clear figures that visualized these enriched pathways in direct comparison to the reference study.
c. Outcome
The accelerated workflow quickly validated that SHP-2 deficiency reprograms TAM function by altering key immune and differentiation pathways. This confirmation underscores the platform’s capability to turn complex, raw RNA-seq data into actionable insights that align closely with established scientific findings.
PRACTICAL BENEFITS FOR ORGANIZATIONS AND RESEARCHERS
Accelerated Discovery: Rapidly validate critical molecular findings and enhance experimental throughput.
Improved Research Confidence: Clear, reproducible visualizations support data-driven decision-making and hypothesis validation.
Streamlined Workflows: Integration of multiple analysis steps reduces manual errors and saves valuable research time.
Broad Accessibility: Code-free and user-friendly, making advanced pathway analysis accessible to researchers with diverse expertise.
TIME TO GET STARTED
Discover how quickly and accurately you can validate key biological pathways with our integrated workflow.
Upload your RNA-seq data, pharase your question in the chat, initiate the analysis, and view comprehensive pathway reports—all without writing a single line of code.
CONCLUSION
The aimed analytics platform empowers researchers to validate the molecular mechanisms governing immune modulation in tumor-associated macrophages rapidly. By streamlining complex RNA-seq and pathway enrichment analyses, the system provides clear, actionable insights that accelerate the confirmation of critical findings such as SHP-2’s role in TAM function.
WANT TO LEARN MORE?
Explore the potential of our platform to transform your research workflows:
Schedule a Demo: Witness the seamless, code-free analysis in action.
Contact Us: Get tailored advice on integrating pathway analysis into your projects.