Modern laboratory equipped with advanced automated systems and analytical instruments used for cell line development

Overcoming Key Challenges in Cell Line Development: Setting the Stage for Success

Explore innovative solutions to navigate CLD bottlenecks and enhance productivity

Written byLauren Everett andSarah Kirsh, MSc
Updated | 3 min read

Cell line development (CLD) is a crucial aspect of biopharmaceutical research and production, playing a significant role in the development of biologics, vaccines, and gene therapies. However, the process of generating a stable, high-yielding cell line that meets rigorous quality standards involves navigating several bottlenecks, including:

As therapeutic approaches evolve, including advancements in bi- and tri-specific antibodies, these challenges become increasingly complex, making the need to identify solutions even more urgent.

Lab manager academy logo

Get training in Lab Quality and earn CEUs.

One of over 25 IACET-accredited courses in the Academy.

Certification logo

Lab Quality course

Each section below will delve into these critical challenges while subsequent articles in this series will explore innovative solutions to improve efficiency and outcomes in CLD.

Standardization and scalability

CLD workflows are complex, requiring a series of repetitive and time-sensitive tasks. Traditionally, these tasks have been performed manually, which introduces variability, increases the risk of error, and threatens reproducibility. This variability can disrupt downstream processes, affect product quality, and extend project timelines. Moreover, the absence of standardized processes complicates both knowledge and technology transfer, posing additional challenges to reproducibility.

These issues become even more pronounced when transitioning from lab-scale to industrial-scale production. Precise control becomes more difficult to maintain, and any existing variability can be amplified. The reliance on manual workflows also makes it challenging to uphold quality standards and manage costs effectively, adding strain to already resource-intensive processes.  

Automation in CLD offers transformative benefits, especially when it comes to improving the reproducibility of a process. By automating repetitive, time-consuming tasks—such as transfections, clone selection, monoclonality verification, and cell line expansion—labs can greatly reduce the risks associated with manual handling. Automation also establishes a solid foundation for labs to scale operations smoothly and accelerates development timelines, supporting labs in achieving both quality and efficiency.

Enhanced analytics for better decision-making and data integrity

CLD workflows generate vast amounts of diverse data, ranging from cell viability metrics to critical quality attributes essential for successful process development and scaling. Managing this quantity of data presents a unique challenge, as labs must ensure that data is not only stored securely but also traceable, accessible, and organized in a way that enables effective analysis. This task is further complicated by existing data silos, which can lead to rework, bottlenecks, and data integrity issues. By consolidating these silos into an integrated platform supported by automation, labs can optimize workflows, protect data integrity, and eliminate duplications of effort, enhancing reproducibility and freeing up scientists to focus on innovation.

Interested in life sciences?

Subscribe to our free Life Sciences Newsletter.

Is the form not loading? If you use an ad blocker or browser privacy features, try turning them off and refresh the page.

Many data-generating experiments in CLD are resource-intensive, requiring expensive equipment and specialized expertise. Traditionally, labs have outsourced these assays to bridge gaps in analytics capacity. However, this approach can delay access to crucial data, complicating informed and timely decision-making. While many labs strive to bring analytical capabilities in-house, more accessible, standard equipment is often less precise, selective, and sensitive. Newer, more modular instruments and software are filling this gap, enabling in-house data generation along with improved data integration and analysis. These innovations streamline complex assays, reduce time to data, enhance consistency, and support adherence to regulatory requirements, ultimately empowering labs to operate more efficiently and confidently.

Balancing throughput, consistency, and quality in CLD

Balancing the demands for throughput without compromising consistency, quality, and data integrity is no small feat. Labs must ensure efficient workflows to keep up with production goals while maintaining precision and protecting proprietary CLD processes, data, and IP. However, each of these goals can create trade-offs; for instance, increasing throughput may strain reproducibility.

Partnering with an experienced provider can help labs tailor and integrate solutions that address their specific needs, from automating repetitive processes to streamlining data management and analytics. With the right guidance, labs can build robust, future-ready workflows that can overcome today’s bottlenecks and set the stage for ongoing success.

Continue exploring this series to discover proven solutions that tackle your lab’s most pressing CLD challenges, with insights on how to implement modern solutions that improve your workflows strategically.

Top Image Credit:

About the Authors

  • Lauren Everett headshot

    Lauren Everett is the managing editor for Lab Manager. She holds a bachelor's degree in journalism from SUNY New Paltz and has more than a decade of experience in news reporting, feature writing, and editing. She oversees the production of Lab Manager’s editorial print and online content, collaborates with industry experts for speaking engagements, and works with internal and freelance writers to deliver high-quality content. She has also led the editorial team to win Tabbie Awards in 2022, 2023, and 2024. This awards program recognizes exceptional B2B journalism and publications. 

    Lauren enjoys spending her spare time hiking, snowboarding, and keeping up with her two young children. She can be reached at leverett@labmanager.com.

    View Full Profile
  • sarah kirsch

    Sarah Kirsh, MSc, is a creative services writer for Lab Manager. Sarah holds a BSc in biochemistry and an MSc in molecular and cellular biology from the University of Guelph. Her thesis examined how inhibiting the neuropeptide Y1 and Y5 receptors impacts breast cancer cell proliferation, migration, and invasion in both hypoxia and normoxia. With a passion for science, Sarah enjoys exploring new topics and distilling scientific concepts into accessible and engaging stories. She can be reached at skirsh@labmanager.com.

    View Full Profile

Related Topics