<p><strong>When I think about what it takes to keep a high-performing MS laboratory running—especially those dealing with tight timelines, strict regulations, and ever-expanding datasets—I’m reminded that the software we rely on isn’t just a tool. It’s the backbone of our workflows, our decisions, and ultimately, our results.</strong></p><p>Whether you’re in pharma, environmental testing, or food safety, managing the complexity of targeted mass spectrometry workflows while maintaining accuracy, compliance, and efficiency requires a lot of work.</p><p>That’s where a purpose-built solution makes a difference. I’ve worked closely with labs that are navigating these challenges—and from the many conversations and experiences, I put together five main capabilities you should look for in your software when it comes to targeted MS quantitation:</p><h3><strong>1. Simplified data and workflow management</strong></h3><p>Too many labs are still relying on disconnected systems or folder-based setups that can lead to inconsistent methods and reports. When utilizing modern software solutions, everything—methods, templates, data, reports—can be centrally managed, reducing errors and training time while ensuring everyone is working from the same validated workflows.</p><p>It’s a big plus if the software also supports multi-consensus reporting, making it easy to compare results across sequences and analyses for greater confidence in the data. By packaging complete workflows and setting predefined views, labs can streamline routine operations and ensure method repeatability, so anyone can run the analysis reliably and consistently.</p><h3><strong>2. Controlled access in and out of the lab</strong></h3><p>Many labs are still tied to legacy setups that make remote work challenging. Researchers often rely on standalone workstations that store data locally, making it hard to access critical results when off-site. Transferring data via USB drives or external hard disks not only adds inefficiency, but it can also raise serious security concerns. These outdated practices slow down collaboration and increase the risk of data loss or breaches.</p><p>Hybrid work is here to stay. With the ability to control and access instruments and data, users can securely set up runs, review results, and manage workflows from anywhere. You’re no longer tied to a specific bench, workstation, or even building. Productivity doesn’t have to stop when you step out of the lab.</p><p><i>“Managing all our instruments and work with data remotely via a centralized server means we don’t need to be in the laboratory to access our data.” – Dr. Kayleigh Arthur, Owlstone Medical Ltd.</i></p><h3><strong>3. It’s built for MS workflows</strong></h3><p>Whether you’re running triple quads, high-res accurate mass, or both—life’s much easier when working with software solutions that give you native instrument control and deep integration for targeted workflows. That includes support for MSⁿ, intact mass deconvolution, spectral libraries, and high-throughput quantitation.</p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_5_Things_to_Consider_When_Selecting_Software_for_Targeted_MS_Quantitation_9e5e9dc842.jpg" alt="Thermo Fisher Scientific: 5 Things to Consider When Selecting Software for Targeted MS Quantitation." srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_5_Things_to_Consider_When_Selecting_Software_for_Targeted_MS_Quantitation_9e5e9dc842.jpg 245w," sizes="100vw" width="1536" height="411"></p><p>Just as important is what happens after data acquisition. Integrated, built-in reporting capabilities—paired with customizable reporting options—should make it easy to flag results and automate the necessary calculations, all within the software. You need a powerful combination that can streamline review and ensures consistency across analyses.</p><h3><strong>4. Scalability</strong></h3><p>From small bioanalytical teams to global enterprises, can it be scaled up or down without the need for reinstallation or manual data transfer? It should be built to handle complex, multi-site deployments with ease.</p><p>Add to that network resilience, automated data protection, and centralized updates—and you’ll get a system designed to grow with your organization.</p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_5_Things_to_Consider_When_Selecting_Software_for_Targeted_MS_Quantitation_2_8ec325678b.jpg" alt="Thermo Fisher Scientific: 5 Things to Consider When Selecting Software for Targeted MS Quantitation." srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_5_Things_to_Consider_When_Selecting_Software_for_Targeted_MS_Quantitation_2_8ec325678b.jpg 245w," sizes="100vw" width="1200" height="660"></p><article><div><h3><strong>5. Stress-free compliance</strong></h3><p>Let’s face it, if you have to do it, compliance is non-negotiable, but it can be time-consuming. The system should include built-in features that support GxP, 21 CFR Part 11, and audit readiness—like audit trails, version control, and detailed user management.</p><p>The ability to query and interrogate data within the system would ensure that data integrity requirements are met, delivering full traceability, and verification of data throughout its lifecycle. Your QA team will be very pleased!</p><h3><strong>Conclusion</strong></h3><p>Managing targeted MS quantitation shouldn’t feel like assembling a puzzle with missing pieces. A modern software should bring together everything you need—scalable infrastructure, powerful MS data tools, and built-in compliance features—into one cohesive solution. It must support your science, your team, and your business goals.</p><p>If you’re ready to rethink how your lab handles MS data, this is the right time to explore what’s possible.</p><blockquote><p>Join our <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5232"><strong>upcoming webinar</strong></a> to learn about networked software for MS labs.</p><p><strong>Visit us on&nbsp;</strong><a target="_blank" rel="noopener noreferrer" href="https://www.linkedin.com/showcase/72003132/admin/dashboard/"><strong>LinkedIn:</strong></a>&nbsp;#targetedquantitation #compliance #massspectrometry #control</p></blockquote></div></article><section><blockquote><h4><strong>Laercio Fernandes</strong></h4><p>Laércio Fernandes is a Product Marketing Manager for software at Thermo Fisher Scientific. With a background rooted in analytical chemistry, Laércio has over 20 years of experience in the analytical field with a focus on chromatography instrumentation, enterprise software and compliance. His background in sales and support has enabled him to have a good overview and understanding of different processes and challenges that laboratories may face, which has allowed him to better support our customers in order to improve their workflows and productivity.</p></blockquote></section>

5 Things to Consider When Selecting Software for Targeted MS Quantitation

<h4><strong>Have you explored what’s new in </strong><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1759"><strong>Thermo Scientific Compound Discoverer software</strong></a><strong>, version 3.4?</strong></h4><p>In case you missed it, earlier this year we released version 3.4 – bringing new capabilities to small molecule researchers. Get ready to elevate your compound identification and analysis experience with this new version packed with groundbreaking features and enhancements.</p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_Why_Compound_Discoverer_3_4_Software_is_Worth_Your_Attention_c08c06da12.jpg" alt="Thermo Fisher Scientific: Why Compound Discoverer 3.4 Software is Worth Your Attention!" srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_Why_Compound_Discoverer_3_4_Software_is_Worth_Your_Attention_c08c06da12.jpg 245w," sizes="100vw" width="1536" height="614"></p><article><div><h3><strong>Here’s a look at some of the key updates and why you should be excited:</strong></h3><h4><strong>1.&nbsp;LipidSearch (MKI) is now integrated</strong></h4><ul><li>The new <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1740"><strong>LipidSearch </strong></a>(MKI) node simplifies lipid identification, making it faster and more accurate. And here’s the best part: you don’t need to install separate software!</li></ul><h4><strong>2. Improved quality control for small molecule experiments</strong></h4><ul><li>A new QC node leverages internal standards to automatically detect and group in-source fragments, ensuring accurate and reliable results.</li></ul><h4><strong>3.&nbsp;Improved compound identification</strong></h4><ul><li>Connect to the latest version of the <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1764"><strong>mzCloud </strong></a>Spectral database (2.0), which includes over 16.5 million spectra, 32,000 MS<sup>n</sup> trees and extensive metadata such as compound classes and CAS numbers. Providing deeper insight and better identification confidence.</li></ul><h4><strong>4.&nbsp;Performance boost</strong></h4><ul><li>Experience up to 8x faster processing speeds for various nodes, including alignment, detecting compounds, fill gaps, and <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1762"><strong>mzLogic</strong></a>, ensuring that your data analysis is completed in record time.</li></ul><h4><strong>5. New spectral library and mass list parameters</strong></h4><ul><li>Now, you can use different sets of parameters for various spectral libraries or mass lists, allowing for precise matching and prioritization.</li></ul><h4><strong>6. Smarter feature detection and component assembly</strong></h4><ul><li>Separate feature detection and component assembly for greater flexibility and performance. New nodes streamline the creation of grouped feature tables and efficiently group ions and in-source fragments.</li></ul><h4><strong>7.&nbsp;New molecular networking capabilities</strong></h4><ul><li>Inject seed compounds (a compound of interest that is not present in the data set) into your molecular networks to form clusters with related compounds, helping you interpret complex networks more effectively. This feature is particularly useful for PFAS-related studies!</li></ul><h4><strong>8.</strong>&nbsp;<strong>Seamless Integration with the Thermo Scientific Ardia Platform</strong></h4><ul><li>Connect to the<strong> </strong><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1821"><strong>Ardia Platform</strong></a> for direct raw data access and result file uploads, streamlining your workflow and enabling easy sharing of result files!</li></ul><blockquote><h3><strong>Excited to learn more?</strong></h3><ul><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/4863"><strong>Take a look at our webinar</strong></a> where we dive deep into these new features and demonstrate how Compound Discoverer 3.4 Software can elevate your workflows, including pesticides. &nbsp;&nbsp;</li><li>Stay ahead with <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1759"><strong>Compound Discoverer Software</strong></a> —where innovation meets precision!</li><li><strong>Visit us on&nbsp;</strong><a target="_blank" rel="noopener noreferrer" href="https://www.linkedin.com/showcase/72003132/admin/dashboard/"><strong>LinkedIn:</strong></a><strong>&nbsp;</strong>#CompoundDiscoverer #SmallMolecules #Software</li></ul></blockquote></div></article><section><blockquote><h5><strong>Zoe Julian</strong></h5><p>Zoe Julian is a Product Marketing Manager for Chromatography and Mass Spectrometry software at Thermo Fisher Scientific. With over 12 years' experience of working with chromatography and mass spectrometry techniques with a background in GC and GC-MS(/MS) organic environmental analysis, she has helped many laboratories and industries improve their workflows through a unique understanding of their challenges. Transitioning to a focus on Chromeleon CDS she has shown customers how software solutions can improve their productivity and support their day-to-day operations.</p></blockquote></section>

Why Compound Discoverer 3.4 Software is Worth Your Attention!

<p><strong>In a recent blog post we discussed how </strong><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/article/5073"><strong>centralized data management</strong></a><strong> enhances security and control in analytical laboratories. But beyond security, networked environments offer other architectural advantages that fundamentally change how data flows through the lab.</strong></p><p>One key benefit is the separation of data acquisition from processing and review—a structural shift that brings measurable improvements in performance, uptime, and compliance.</p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_Decoupling_Acquisition_From_Data_Review_Unlocking_Flexibility_and_Efficiency_in_Chromatography_and_Mass_Spectrometry_Workflows_a982d7ba0d.jpeg" alt="Thermo Fisher Scientific Decoupling Acquisition From Data Review Unlocking Flexibility and Efficiency in Chromatography and Mass Spectrometry Workflows" srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_Decoupling_Acquisition_From_Data_Review_Unlocking_Flexibility_and_Efficiency_in_Chromatography_and_Mass_Spectrometry_Workflows_a982d7ba0d.jpeg 245w," sizes="100vw" width="1024" height="512"></p><h3><strong>Maximizing instrument uptime</strong></h3><p>In many labs, data acquisition and review occur on the same computer, which tends to be placed next to the instrument. This ties up the acquisition workstation long after a run is complete, especially when processing tasks—such as baseline correction, peak integration, or spectral deconvolution—are resource-intensive.</p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_Decoupling_Acquisition_From_Data_Review_Unlocking_Flexibility_and_Efficiency_in_Chromatography_and_Mass_Spectrometry_Workflows_304df97f03.jpg" alt="Thermo Fisher Scientific Decoupling Acquisition From Data Review Unlocking Flexibility and Efficiency in Chromatography and Mass Spectrometry Workflows" srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_Decoupling_Acquisition_From_Data_Review_Unlocking_Flexibility_and_Efficiency_in_Chromatography_and_Mass_Spectrometry_Workflows_304df97f03.jpg 245w," sizes="100vw" width="1024" height="428"></p><article><div><p>Separating these tasks means the acquisition PC can be dedicated solely to capturing raw data, while automated transfer and processing occur on a separate system. &nbsp;If processing is the biggest bottleneck in your workflow, this has clear advantages.</p><h3><strong>Enabling remote review and flexible access</strong></h3><p>When data is stored centrally and accessed over the network, analysts can log in from remote locations or satellite labs to perform review and approval workflows.</p><p>Central data storage also moves away from flat file sharing into a secure, user-controlled, archived storage location, which offers enhanced security and controlled access to archived data</p><p>Decoupling supports hybrid work environments and multi-user labs while supporting traceability through system audit trails and role-based access control.</p><h3><strong>Scaling processing power independently</strong></h3><p>Mass spectrometry data analysis—especially when using techniques like data-independent acquisition (DIA), MSⁿ workflows, or top-down proteomics—demands significant computational resources. These tasks benefit from multithreading, GPU acceleration, or distributed computing environments.</p><p>By shifting processing to centralized servers or virtual machines, labs can scale compute resources as needed without overloading acquisition systems, risking&nbsp;data loss or even sample loss from crashes during data collection.</p><h3><strong>Supporting collaborative review and shared methods</strong></h3><p>Decoupled environments allow multiple users to access and process the same dataset simultaneously, without file duplication or manual data transfer. Analysts can apply shared processing templates, compare runs side-by-side, and annotate results in a common workspace.</p><p>This is especially valuable for QA/QC teams performing multi-batch comparisons, method validation, or deviation investigations.</p><p>Enhancing compliance and traceability.</p><p>From a compliance standpoint, separating acquisition and processing improves data governance. Centralized environments can enforce version control, restrict unauthorized edits, and capture complete audit trails for every action taken—critical for GxP labs and 21 CFR Part 11 compliance. Review workflows can also be digitally signed and locked, ensuring that once approved, the data and metadata are still immutable</p><h3><strong>Conclusion</strong></h3><p>Decoupling acquisition from processing is a foundational change in how modern analytical labs operate. It reduces bottlenecks, increases system uptime, availability and enables advanced processing workflows to run on purpose-built infrastructure—without compromising compliance or productivity.</p><blockquote><p>You can see how Thermo Fisher Scientific is solving these challenges in <a target="_blank" rel="noopener noreferrer" href="https://www.thermofisher.com/content/lifetech/global/en/home/digital-solutions/ardia-platform/proteomics.html"><strong>Proteomics software solution</strong></a>.</p></blockquote><blockquote><p><strong>Visit us on&nbsp;</strong><a target="_blank" rel="noopener noreferrer" href="https://www.linkedin.com/showcase/72003132/admin/dashboard/"><strong>LinkedIn:</strong></a><strong>&nbsp;</strong>#Ardia #ChromatographyDataSystemSoftware, #DataManagement</p></blockquote></div></article><section><blockquote><h4><strong>Chris Knowles</strong></h4><p>Chris Knowles began his career with a PhD in mammalian cell line engineering and over a decade as a Principal Scientist and applications specialist in biopharma and bioprocessing. With deep expertise in software solutions for LC-MS, MS/MS, and advanced mass spectrometry techniques, he focuses on biologics production and analytics, including emerging areas like gene therapy, oligonucleotide therapeutics, and viral vectors. Now, as a Product Marketing Manager for BioPharma Software at Thermo Fisher Scientific, Chris is dedicated to helping customers overcome analytical challenges by delivering powerful, compliant, and user-friendly software solutions.</p></blockquote></section>

Decoupling Acquisition From Data Review: Unlocking Flexibility and Efficiency in Chromatography and Mass Spectrometry Workflows

<p><strong>Modern proteomics research produces vast quantities of complex data — and managing it all manually slows you down. Imagine transforming your work with a seamless, automated solution that not only accelerates data acquisition but also automates analysis and provides secure data management. Thermo Fisher Scientific are supporting researchers with a Proteomics Software Solution that delivers the future of proteomics, with innovation meeting automation to elevate your research to new heights. By leveraging the solution, featuring </strong><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1782"><strong>Thermo Scientific Proteome Discoverer software</strong></a><strong> and </strong><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1821"><strong>Thermo Scientific Ardia Platform</strong></a><strong>, you get a secure, connected environment that automates repetitive tasks, streamlines workflows, and accelerates analysis — whether you’re in the lab or working remotely.</strong></p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_Accelerate_Proteomics_Research_with_Smart_Automation_ef4e885127.jpg" alt="Thermo Fisher Scientific: Accelerate Proteomics Research with Smart Automation" srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_Accelerate_Proteomics_Research_with_Smart_Automation_ef4e885127.jpg 245w," sizes="100vw" width="1536" height="576"></p><h4><strong>What is the Proteomics software solution?</strong></h4><p>At its core, the solution combines powerful mass spectrometry data analysis with centralized data management and processing. This integrated setup means your data flows directly from the instrument to the secure, central storage where automated processes immediately launch data processing and securely store the results — no manual steps needed.</p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_Ardia_proteomics_process_a62402dd81.jpg" alt="Thermo Fisher Scientific: Ardia proteomics process" srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_Ardia_proteomics_process_a62402dd81.jpg 245w," sizes="100vw" width="1200" height="363"></p><p>Because data storage and compute resources are co-located within the <strong>Ardia Platform</strong>, you <strong>eliminate time-consuming transfers</strong>, <strong>reduce risk of data loss</strong>, and <strong>keep high-throughput workflows moving</strong>. Remote access means researchers no longer need to be physically present at the system; they can connect remotely and monitor the acquisition and processing of their data in real time and quickly address any potential issues.</p><p>Designed as an <strong>open platform</strong>, the solution can <strong>support multiple instruments simultaneously</strong>, making it ideal for complex proteomics workflows and large-scale studies. It also makes it easy to work with a growing list of software tools and third-party applications, for data processing.</p><p>The <strong>Ardia Platform</strong> <strong>data</strong>-sync allows automated, bi-directional data transfer to other software packages — helping eliminate silos, avoiding manual data handling, and keeping your workflows flexible – meaning you can harness the power of an integrated environment while still working with your preferred applications.</p><h4><strong>What are the benefits?</strong></h4><h5><strong>Streamlined data management</strong></h5><ul><li>Automated data transfer. Store data and results in one secure, centralized environment with robust backup and archiving — minimizing the risk of data loss or manual error.</li></ul><h5><strong>Faster processing, fewer bottlenecks</strong></h5><ul><li>Co-localization of data storage and processing capabilities means each injection’s processing can begin immediately after acquisition. This is essential for high-throughput proteomics or labs running large-cohort or multiplexed studies where data volumes can be huge.</li></ul><h5><strong>Remote access &amp; real-time monitoring</strong></h5><ul><li>Researchers can monitor runs, check processing status, and collaborate from anywhere — ideal for collaborative research environments where multiple researchers need access to the same data. Plus, user access controls enable secure collaboration without moving files outside your organization.</li></ul><h5><strong>Powerful, automated analysis tools</strong></h5><ul><li>The Proteomics Software Solution offers advanced workflows including Thermo Scientific TMT (Tandem Mass Tag) quantification, cross-linking analysis for protein–protein interactions, and deep learning-powered algorithms like CHIMERYS and INFERYS to increase the number of identified peptides and proteins. The comprehensive suite of analytical tools supports various quantification methods, including label-free and SILAC, providing researchers with the flexibility to automate their analyses to specific experimental needs.</li></ul><h5><strong>Cost efficiency &amp; CHIMERYS on-premise</strong></h5><ul><li>CHIMERYS is delivered locally, saving on manual upload/download time, recurring license fees and improving performance compared to cloud service</li></ul><h5><strong>Flexible integration</strong></h5><ul><li>Export your results easily to other analytical tools for further interpretation, quantification, or visualization. This flexibility supports open science, collaboration, and customized data analysis that fit your lab’s needs.</li></ul><h4><strong>The future of proteomics is connected and automated</strong></h4><p>As proteomics research continues to evolve, you need proteomics software that stands at the forefront of innovation. The Proteomics Software Solution provides an integrated, automated environment, replacing fragmented, manual workflows with a secure solution designed to handle today’s high-throughput demands. The result? Faster insights, easier collaboration, streamlined data management, and the confidence to push your research further.</p><p><strong>See what’s possible </strong>– Explore the <a target="_blank" rel="noopener noreferrer" href="https://www.thermofisher.com/cz/en/home/digital-solutions/ardia-platform/proteomics.html"><strong>Proteomics Software Solution</strong></a> or watch our recent webinar: <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5684"><strong>Facilitating High-Throughput, Large Cohort Proteomic Analyses Using an Integrated Software Solution</strong></a>, to learn more</p><blockquote><p><strong>Visit us on LinkedIn:</strong> #Proteomics #ProteomicsSoftwareSolution #ArdiaPlatform #Automation</p><p><strong>Zoe Julian</strong></p><p>Zoe Julian is a Product Marketing Manager for Chromatography and Mass Spectrometry software at Thermo Fisher Scientific. With over 12 years' experience of working with chromatography and mass spectrometry techniques with a background in GC and GC-MS(/MS) organic environmental analysis, she has helped many laboratories and industries improve their workflows through a unique understanding of their challenges. Transitioning to a focus on Chromeleon CDS she has shown customers how software solutions can improve their productivity and support their day-to-day operations.</p></blockquote>

Accelerate Proteomics Research with Smart Automation

<p><strong>High-resolution LC-MS workflows generate massive files that can quickly bottleneck traditional transfer methods. The primary challenge is not just the sheer volume of data, or the storage and processing power required, but also how it is collected, formatted, structured and annotated.</strong></p><p><img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Thermo_Fisher_Scientific_Modern_Technologies_for_High_Performance_LC_MS_Data_Transfers_8c1a7bafa5.jpg" alt="Thermo Fisher Scientific: Modern Technologies for High-Performance LC-MS Data Transfers" srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Thermo_Fisher_Scientific_Modern_Technologies_for_High_Performance_LC_MS_Data_Transfers_8c1a7bafa5.jpg 245w," sizes="100vw" width="1024" height="576"></p><p>To address this challenge, advanced protocols and orchestration platforms must enable secure, global, multi-gigabit transfers without manual intervention.</p><p>This blog explores the technologies that facilitate efficient and reliable data transfers in LC-MS environments, focusing on WAN accelerators, on-premises transfer appliances, cloud-native streaming, and why the <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1821"><strong>Thermo Scientific Ardia Platform </strong></a>might be the perfect choice for the challenges faced in today’s labs.</p><h3><strong>WAN accelerators</strong></h3><p>WAN accelerators improve data transfer performance over high-latency, high-loss networks by replacing or optimizing traditional transport protocols.</p><p><a target="_blank" rel="noopener noreferrer" href="https://www.ibm.com/docs/en/connect-direct/6.2.0?topic=v62-using-fasp"><strong>IBM Aspera FASP</strong></a> uses a UDP-based protocol to sustain high throughput, automatically recover from packet loss, and encrypt all data in motion.</p><p>While not a WAN accelerator in the strictest sense, <a target="_blank" rel="noopener noreferrer" href="https://www.globus.org/data-transfer"><strong>Globus GridFTP</strong></a> extends standard FTP with features like parallel data streams, third-party transfers, and strong authentication, making it highly effective for moving large scientific datasets across global networks.</p><p><strong>Check out this post from Globus:</strong> <a target="_blank" rel="noopener noreferrer" href="https://www.globus.org/blog/gridftp-a-brief-history-of-fast-file-transfer">GridFTP: A Brief History of Fast File Transfer</a></p><h3><strong>On-premises transfer</strong></h3><p>The purpose of an on-premises data transfer solution is to detect new files and initiate validated transfers to central storage without manual oversight.&nbsp;</p><p>The key benefit is helping to integrate extensive historical datasets with current databases, making legacy data usable with modern tools, including AI. This integration is crucial for leveraging older data, ensuring it can be analyzed alongside new data to uncover valuable insights and improve reproducibility</p><h3><strong>Cloud-native streaming</strong></h3><p>Cloud-native streaming directly into object storage, like <a target="_blank" rel="noopener noreferrer" href="https://docs.aws.amazon.com/s3"><strong>Amazon S3</strong></a> (Simple Storage Service) or <a target="_blank" rel="noopener noreferrer" href="https://learn.microsoft.com/en-us/azure/storage/blobs/storage-blobs-introduction"><strong>Microsoft Azure Blob Service</strong></a> enables compute services to start processing immediately upon file arrival. Serverless event triggers and lifecycle policies further automate tiered storage and archival.</p><p>This approach not only accelerates data processing but also facilitates the integration of diverse datasets, ensuring that both new and legacy data can be efficiently managed and analyzed. By leveraging cloud-native streaming, laboratories can enhance data accessibility and scalability, supporting advanced analytics and AI/ML applications.</p><p>However, it is important to consider the associated costs and data security risks. Cloud storage and processing can incur significant expenses, and robust security measures must be implemented to protect sensitive data from breaches and unauthorized access.</p><p>Would you trust cloud services to securely store and manage your clinical data?</p><p>Is your lab ready to move all your data to the cloud and pay a subscription for the benefits?</p><h3><strong>Thermo Scientific Ardia platform</strong></h3><p>The <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/1821"><strong>Thermo Scientific Ardia Platform</strong></a> offers a robust data management and orchestration engine. It routes RAW files from instruments to processing nodes and archives, logs every action for audit readiness, and scales across hybrid environments.</p><p>The Ardia platform has dedicated tools specific to LC-MS as a physical server with cloud-based technologies for scaling end to end processing and connecting labs around the world.</p><p>Proteomics users are finding significant success with this platform as an end-to-end solution that leverages the latest technologies, including AI for advanced data analysis and robust security measures to protect sensitive data.</p><h4><strong>More information</strong></h4><ul><li><a target="_blank" rel="noopener noreferrer" href="https://www.thermofisher.com/content/lifetech/global/en/home/digital-solutions/ardia-platform/proteomics.html"><strong>Thermo Scientific Ardia platform for proteomics</strong></a><strong>.</strong></li><li>Don’t miss our on-demand webcast:<strong> </strong><a target="_blank" rel="noopener noreferrer" href="https://emailscience7.wpengine.com/emails_v2/CMD_XX_E2787000_WI_2502_AB_JB_E-25CMD-CD103-28789-01_WW_FY25-CD-SCW-Webcast-V1/"><strong>“Cloud computing in the analytical lab: The strategic risks, challenges and opportunities to consider.”</strong></a> Register now to access the webcast and learn how to future-proof your lab with cloud technology.</li><li>Check out this recent white paper <a target="_blank" rel="noopener noreferrer" href="https://www.scientific-computing.com/white-paper/centralising-analytical-data-mass-spectrometry-drug-discovery-development"><strong>Centralising analytical data from mass spectrometry in drug discovery and development | Scientific Computing World</strong></a></li><li><strong>Visit us on&nbsp;</strong><a target="_blank" rel="noopener noreferrer" href="https://www.linkedin.com/showcase/72003132/admin/dashboard/"><strong><u>LinkedIn:</u></strong></a><strong>&nbsp;</strong>#ArdiaPlatform #DataManagement #Informatics</li></ul><section><blockquote><h5><strong>Chris Knowles</strong></h5><p>Chris Knowles began his career with a PhD in mammalian cell line engineering and over a decade as a Principal Scientist and applications specialist in biopharma and bioprocessing. With deep expertise in software solutions for LC-MS, MS/MS, and advanced mass spectrometry techniques, he focuses on biologics production and analytics, including emerging areas like gene therapy, oligonucleotide therapeutics, and viral vectors. Now, as a Product Marketing Manager for BioPharma Software at Thermo Fisher Scientific, Chris is dedicated to helping customers overcome analytical challenges by delivering powerful, compliant, and user-friendly software solutions.</p></blockquote></section>

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Modern Technologies for High-Performance LC-MS Data Transfers

Accelerate Proteomics Research with Smart Automation

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