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A leading biotechnology company specializing in molecular diagnostics sought to enhance their research and development processes. They aimed to integrate Benchling’s Electronic Laboratory Notebook (ELN) into their existing laboratory workflows to improve data management and collaboration among their scientific teams.
Integrating Benchling into a high-throughput lab environment presented challenges in aligning experimental complexity, system interoperability, and real-time data flow.
Semaphore Solutions collaborated closely with the client’s scientific, IT, and data analysis teams to deliver a comprehensive integration solution:
Schema Configuration: Customized Benchling schemas were developed to accurately capture the client’s experimental data and enterprise ontologies, ensuring that all relevant information was systematically organized within the platform.
API Development: Utilizing Benchling’s robust API, Semaphore engineered integrations that allowed for seamless data exchange between Benchling and the client’s existing LIMS, facilitating automated data flow and reducing manual entry.
Event-Driven Architecture: Implemented event listeners to respond to specific triggers within Benchling, enabling real-time data synchronization and updates across all connected systems.
The integration of Benchling’s ELN into the client’s laboratory ecosystem resulted in significant operational improvements. By implementing customized schemas, the client achieved better organization and retrieval of experimental data, streamlining research workflows. Seamless system interoperability and real-time data synchronization fostered improved collaboration among scientific teams, accelerating project timelines and enhancing decision-making. Additionally, automation of data workflows reduced manual data entry, minimizing errors and freeing up valuable resources for higher-value activities. These enhancements collectively increased efficiency, enabling the client to focus on innovation while ensuring data integrity across systems.
The integration of Benchling’s ELN into the client’s laboratory ecosystem resulted in significant operational improvements. By implementing customized schemas, the client achieved better organization and retrieval of experimental data, streamlining research workflows. Seamless system interoperability and real-time data synchronization fostered improved collaboration among scientific teams, accelerating project timelines and enhancing decision-making. Additionally, automation of data workflows reduced manual data entry, minimizing errors and freeing up valuable resources for higher-value activities. These enhancements collectively increased efficiency, enabling the client to focus on innovation while ensuring data integrity across systems.
Integrating Benchling into the client’s genomics R&D operations required more than API access—it demanded a nuanced understanding of scientific workflows, data structures, and enterprise architecture.
First, the client’s experiments involved complex data models that couldn’t be represented using Benchling’s default schemas. Capturing this detail required custom entity design, structured metadata, and a mapping of internal scientific concepts to Benchling’s object model. Semaphore worked closely with both scientists and IT stakeholders to tailor these schemas, ensuring that data captured in Benchling was both usable and meaningful across downstream systems.
Second, the client needed deep interoperability between Benchling and its existing infrastructure—including internal databases and legacy LIMS platforms. Semaphore developed robust integrations using Benchling’s REST API, enabling automated data flows and synchronizations. These integrations were built to ensure bidirectional data integrity and to eliminate redundant data entry, which had previously led to delays and inconsistencies.
Finally, the project demanded event-driven automation to trigger downstream processes in real time. Semaphore implemented custom listeners that responded to user activity within Benchling (e.g., experiment completion, sample registration), enabling immediate propagation of data to connected systems.
Throughout, Semaphore ensured that all configurations aligned with the client’s security and compliance requirements, particularly around user access controls, data lineage, and audit readiness. The solution enabled Benchling to function not as a standalone ELN, but as a fully integrated node within the client’s scientific informatics ecosystem.
All of this was achieved through a strategic and collaborative approach:
Understanding Client Needs: Semaphore conducted in-depth consultations to comprehend the client’s specific data structures and workflow requirements, ensuring that the integration was tailored to their unique needs.
Leveraging Benchling’s Capabilities: By fully utilizing Benchling’s API and event-driven features, Semaphore created a robust integration that not only met current requirements but also provided scalability for future needs.
Quality Assurance: Rigorous testing protocols were implemented to validate data accuracy and system performance, ensuring that the integration operated seamlessly within the client’s operational environment.
In the competitive field of biotechnology, the ability to efficiently manage and utilize data is paramount. This case exemplifies how strategic integration of advanced platforms like Benchling can transform laboratory operations. By addressing complex data management challenges and enhancing system interoperability, organizations can accelerate research outcomes, improve collaboration, and maintain a competitive edge in the industry.
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