Join us for a fascinating conversation with Dr. Subhoja Chakraborty from the University of Central Florida, whose cutting-edge research targets the global challenge of malaria drug resistance. Dr. Chakraborty shares her journey from structure-based drug design during her PhD to her recent collaborative work repurposing human kinase inhibitors as rapid, selective antimalarials against drug-resistant Plasmodium falciparum strains.<h4>In this episode, you'll learn:</h4><ul><li>How structure-guided approaches reveal potential drug targets, including cysteine proteases like falcipain-2, and kinases implicated in malaria's complex life cycle.</li><li>The power of repurposing kinase inhibitors originally developed for cancer and other diseases, focusing on compound 12, which blocks hemozoin formation and protein kinase 6—key steps in parasite survival.</li><li>Lab techniques such as affinity, gel filtration, and size exclusion chromatography for recombinant protein purification—and how troubleshooting is crucial for high-yield, stable complexes.</li><li>Advances in mass spectrometry for characterizing protein interactions, validating drug targets, and mapping molecular pathways pivotal to malaria therapeutics.</li><li>Tips and lessons for new researchers facing the challenges of sample preparation, complex protocols, and working as part of a collaborative team.</li></ul>Dr. Chakraborty’s insights bridge the gap between basic science and translational drug discovery, offering hope for more effective, targeted malaria treatments in a world where resistance to frontline therapies threatens millions.<h4>Referenced Papers:</h4><ul><li>"Plasmodium falciparum protein kinase 6 and hemozoin formation are inhibited by a type II human kinase inhibitor exhibiting antimalarial activity" (Cell Chemical Biology, 2025)</li><li>"New insights of falcipain 2 structure from Plasmodium falciparum 3D7 strain" (BBRC, 2022)</li><li>"Structure-Based Optimization of Protease−Inhibitor Interactions to Enhance Specificity of Human Stefin‑A against Falcipain‑2 from the Plasmodium falciparum 3D7 Strain" (Biochemistry, 2023)</li></ul>If you’re a student, scientist, or simply passionate about advances in infectious disease research, this episode offers actionable insights, inspiring advice, and a front-row seat to innovation in combating malaria.<h3>Video Transcription</h3><h4>From Structural Biology to Drug Discovery: Chromatography and Mass Spectrometry in Malaria Research</h4><h5>Introduction</h5>In this discussion, Subhoja shares insights into her research journey, focusing on malaria drug discovery and the role of modern analytical techniques in biological and biomedical research. The conversation is aimed primarily at undergraduate students and early-career researchers interested in chemistry, biotechnology, and life sciences.<h5>Research Focus: Malaria Drug Discovery and Kinase Targets</h5>Subhoja is currently involved in malaria drug discovery research at the University of Central Florida, where she has been working since beginning her postdoctoral position two years ago. Her earlier PhD research focused on structure-based drug design in malaria, using a combination of in silico approaches, recombinant protein expression, and X-ray crystallography to determine precise three-dimensional structures of target proteins and their inhibitors.This structural perspective provided a foundation for her current work, which centers on drug discovery through compound screening and repurposing. A recent publication from her laboratory explores the use of repurposed mammalian CDK-like kinase inhibitors as potential antimalarial agents. While such kinase inhibitors are well known in cancer and cardiovascular research, their application to malaria targets represents a novel and promising approach.Kinases are attractive drug targets because of their central role in cell signaling and growth pathways. By targeting specific kinases involved in different stages of the malaria parasite life cycle—whether asexual growth, gametocytogenesis, or differentiation—it may be possible to significantly inhibit parasite growth and progression.<h5>Chromatography in Protein Expression and Purification Workflows</h5>Chromatography plays a critical role throughout Subhoja’s research. Her experience spans from basic chromatography techniques during her early training to advanced protein purification workflows using affinity chromatography, gel filtration (size exclusion chromatography), and ion exchange chromatography.Recombinant proteins are routinely purified using affinity resins such as nickel or cobalt, followed by further purification to remove contaminants. Fast Protein Liquid Chromatography (FPLC) enables compact, stepwise purification workflows suitable for producing proteins for in vitro assays.A recurring challenge in this process is the expression of high-molecular-weight proteins, which often accumulate in insoluble fractions or inclusion bodies. Careful selection of expression vectors, host systems, and induction conditions is therefore essential to maximize yield and solubility.<h5>Integrating Size Exclusion Chromatography into the Workflow</h5>Size exclusion chromatography (SEC) is typically used after affinity purification to further improve protein purity. Following elution with imidazole or glutathione, desalting is required to prevent buffer components from interfering with downstream assays. This is often achieved using desalting columns such as G-25 or PD-10.To remove lower-molecular-weight contaminants, finer SEC media—such as Superdex or Sephacryl columns—are employed. Concentration steps using molecular-weight cut-off filters are then applied to obtain the desired protein concentration for functional studies.These iterative purification and troubleshooting steps are a routine part of protein biochemistry and reflect the importance of methodical optimization and careful validation.<h5>The Role of Mass Spectrometry in Biomolecular Characterization</h5>Mass spectrometry is a key analytical tool in Subhoja’s research pipeline, particularly for target identification and validation. In both malaria and cancer research, MS is used alongside chromatography, immunoprecipitation, and pull-down assays to study protein interactions and molecular recognition events.Affinity-based mass spectrometry enables the identification of binding partners and interactors, whether studying proteins, long non-coding RNAs, or protein complexes. Techniques such as native MS, tandem affinity purification, and proximity labeling (e.g., TurboID-based workflows) provide deeper insights into molecular networks and signaling pathways.These approaches are essential for understanding how candidate drug targets function within complex biological systems.<h5>Sample Preparation Challenges in Biological Research</h5>Sample preparation remains one of the most challenging aspects of biological experimentation. Whole-cell lysates contain proteases, nucleases, and other components that can rapidly degrade target molecules. Preventing degradation requires minimizing preparation time, maintaining low temperatures, and using appropriate inhibitor cocktails.Reproducibility is also critical: biological experiments require multiple replicates, and variability is often unavoidable. Careful handling, protocol optimization, and continuous troubleshooting are essential to ensure reliable results, whether preparing samples for chromatography, mass spectrometry, sequencing, or immunoprecipitation.<h5>Advances in Chromatography and MS for Malaria Research</h5>Modern advances in chromatography and mass spectrometry significantly enhance malaria research by enabling precise target identification, quantification, and functional characterization. Drug discovery workflows begin with construct design and recombinant expression, followed by purification and interaction studies.In malaria research, stage-specific parasite biology requires careful extraction and analysis of proteins from different life cycle stages. Tandem affinity MS, immunoprecipitation, and in vivo validation studies help confirm target relevance and therapeutic potential.Recent work on repurposed kinase inhibitors has shown promising results, including inhibition of hemozoin formation—a key detoxification pathway for the malaria parasite—highlighting the potential of such compounds for further development.<h5>Malaria, Drug Resistance, and Global Impact</h5>Malaria remains a major global health burden, with over 600,000 deaths annually and widespread drug resistance complicating treatment. Artemisinin resistance, particularly associated with mutations in the K13 propeller domain, has driven the search for new targets and therapies.During her PhD, Subhoja focused on falcipain-2, a cysteine protease involved in hemoglobin degradation within the parasite. This pathway is critical for parasite survival and has emerged as a promising drug target. Her work revealed that falcipain-2 operates within a larger protein complex responsible for hemoglobin processing and amino acid release.Understanding these molecular mechanisms is essential for developing robust, stage-specific antimalarial strategies.<h5>Advice for Early-Career Researchers</h5>For researchers just starting out, Subhoja emphasizes the importance of hands-on experience. Working directly with cells, lysates, and analytical tools is essential for truly understanding experimental systems. Failure is an inherent part of research, and perseverance is key.Motivation, teamwork, careful sample handling, and thorough preparation all contribute to long-term success. Reading extensively, critically evaluating one’s own work, and appreciating incremental progress are vital aspects of a sustainable research career.Every successful experiment—no matter how small—represents meaningful progress and contributes to the broader goals of science and medicine.<h5>Closing Remarks</h5>The discussion highlights how interdisciplinary approaches combining chromatography, mass spectrometry, structural biology, and biochemistry are driving advances in malaria drug discovery. Through careful experimental design, analytical rigor, and collaborative teamwork, researchers can address complex biological challenges and contribute to global health solutions.<blockquote>This text has been automatically transcribed from a video presentation using AI technology. It may contain inaccuracies and is not guaranteed to be 100% correct.</blockquote><blockquote><h4>Concentrating on Chromatography Podcast</h4>Dive into the frontiers of chromatography, mass spectrometry, and sample preparation with host David Oliva. Each episode features candid conversations with leading researchers, industry innovators, and passionate scientists who are shaping the future of analytical chemistry. From decoding PFAS detection challenges to exploring the latest in AI-assisted liquid chromatography, this show uncovers practical workflows, sustainability breakthroughs, and the real-world impact of separation science. Whether you’re a chromatographer, lab professional, or researcher you'll discover inspiring content!You can find Concentrating on Chromatography Podcast in podcast apps:<ul><li><a target="_blank" rel="noopener noreferrer" href="https://open.spotify.com/show/1wZg67rCjoGju4yhqxI3tL">Spotify</a></li><li><a target="_blank" rel="noopener noreferrer" href="https://podcasts.apple.com/tz/podcast/concentrating-on-chromatography/id1788429185">Apple podcast</a></li><li><a target="_blank" rel="noopener noreferrer" href="https://podscan.fm/podcasts/concentrating-on-chromatography">podscan</a></li></ul>and on <a target="_blank" rel="noopener noreferrer" href="https://www.youtube.com/@ChromatographyTalk/videos">YouTube channel</a></blockquote>

Affinity, Gel Filtration, Size Exclusion Chromatography: Repurposing Kinase Inhibitors for Malaria

In the week of February 9, the following webinars await you in the field of liquid phase and especially HPLC and LC/MS.<blockquote><h4><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinars">👉 DETAILS AND REGISTRATION IN THE WEBINARS SECTION</a></h4>👉 Search and filter in the largest global database with over 5 000 GC, LC, MS and spectroscopy webinars.</blockquote><h5>1. SelectScience: High-Throughput Stability Screening Strategies for Antibody Formulation</h5><ul><li>Tu, 10.2.2026 17:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5807">Registration</a></li></ul>Learn how high-throughput DLS/SLS and rapid-screening DSC accelerate stability assessment of high-concentration antibody formulations, enabling faster, data-driven biologics development.<h5>2. Phenomenex: Big Scale, Big Wins – Prep Chromatography Explained</h5><ul><li>We, 11.2.2026 10:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5793">Registration</a></li></ul>Learn how to scale analytical methods to preparative HPLC, optimize loading capacity, and understand the limits of preparative columns for pharmaceutical applications.<h5>3. ALS Czech Republic: PFAS in Food &amp; Food Contact Material</h5><ul><li>We, 11.2.2026 15:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5816">Registration</a></li></ul>Get a practical overview of PFAS in food and food contact materials, including EU and US regulations, key analytical challenges, and reliable PFAS testing strategies.<h5>4. New Food Magazine: The Science of Next-Gen Ingredients – Fermentation, Formulation and Function</h5><ul><li>We, 11.2.2026 16:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5720">Registration</a></li></ul>Explore how fermentation-driven innovation is transforming functional food ingredients and how advanced analytics optimize flavour, functionality, and stability.<h5>5. SCIEX: Accurate Mass Fundamentals – Interpreting and Applying Your Data</h5><ul><li>We, 11.2.2026 19:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5772">Registration</a></li></ul>Session 3 focuses on interpreting and applying accurate mass data to confirm compound identity, move beyond basic quantitation, and troubleshoot results for confident reporting.<h5>6. Agilent Technologies: Process Analytical Techniques – Online HPLC for Real-Time Monitoring and Control of Bioprocesses</h5><ul><li>Th, 12.2.2026 06:30 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5834">Registration</a></li></ul>Discover how PAT HPLC enables near-real-time monitoring of critical quality attributes in bioprocessing, with a case study on charge-variant control by cation-exchange chromatography.<h5>7. Thermo Fisher Scientific: Introducing the Orbitrap Excedion Pro Hybrid MS</h5><ul><li>Th, 12.2.2026 11:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5889">Registration</a></li></ul>Discover the new Orbitrap Exploris Pro with expanded ETD/EThcD capabilities for confident biopharmaceutical characterization, including intact proteins, PTMs, ADCs, and large biomolecules.<h5>8. Waters Corporation: Planning Your NuGenesis Upgrade – Insights and Best Practices for a Smooth Transition</h5><ul><li>Th, 12.2.2026 19:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5833">Registration</a></li></ul>Learn how to plan a successful NuGenesis upgrade, transition to Windows 11, and unlock new capabilities such as dashboards for real-time operational insights.<h5>9. Thermo Fisher Scientific: Comprehensive Analytical Strategies for Peptide Therapeutics and GLP-1 Agonists with Agilent</h5><ul><li>Th, 12.2.2026 19:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5814">Registration</a></li></ul>Explore analytical workflows for peptide therapeutics, including method development, peptide mapping, GLP-1 QC, and LC-MS strategies across Agilent platforms.<h5>10. Agilent Technologies: Moving from R&amp;D and Limited QC on a UV-Vis-NIR Instrument to Large-Scale QC Using an Autosampler</h5><ul><li>Th, 12.2.2026 20:00 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/2104">Registration</a></li></ul>This webinar covers practical aspects of adding and using an autosampler to maximize UV-Vis-NIR QC workflows at scale.<h5>11. Agilent Technologies: LC Method Transfer – Hidden Challenges &amp; Absolute Solution</h5><ul><li>Fr, 13.2.2026 06:30 CET</li><li><a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/webinar/5787">Registration</a></li></ul>Discover why LC method transfer between legacy and modern systems is challenging, which hidden parameters affect retention and peak shape, and how to achieve robust, reliable results.

Webinars LabRulezLCMS Week 07/2026

Charge detection mass spectrometry (CDMS) allows direct mass determination of individual ions and is increasingly used to study heterogeneous biological samples. This work demonstrates the use of Orbitrap-based CDMS/Direct Mass Technology (DMT) for quantitative analysis of transthyretin (TTR) tetramer samples below 100 kDa, extending CDMS beyond its traditional qualitative role.DMT resolved wild-type and C-terminally modified TTR homotetramers, as well as hybrid tetramers, enabling kinetic analysis of subunit exchange and stability. The approach also quantified thyroxine binding to TTR variants, revealing differences in binding affinity linked to C-terminal modification. By separating overlapping m/z signals through charge measurement, CDMS enables accurate mass and abundance determination, highlighting its potential for quantitative analysis of complex protein systems.<blockquote><h4>The original article</h4><h4><a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771">Dissecting Heterogeneous Populations of Protein-Complex Samples Using Direct Mass Technology</a></h4>Robert L. Rider, Jared Hampton, Zhenyu Xi, Carter Lantz, Sangho D. Yun, Weijing Liu, Rosa Viner, Arthur Laganowsky, and David H. Russell*Anal. Chem. 2025, 97, 49, 27057–27063<a target="_blank" rel="noopener noreferrer" href="https://doi.org/10.1021/acs.analchem.5c05771">https://doi.org/10.1021/acs.analchem.5c05771</a><h6>licensed under <a target="_blank" rel="noopener noreferrer" href="https://creativecommons.org/licenses/by/4.0/">CC-BY 4.0</a></h6></blockquote>Selected sections from the article follow. Formats and hyperlinks were adapted from the original.Transthyretin (TTR) is a homotetrameric transport protein that circulates in plasma and cerebrospinal fluid, delivering thyroxine (T4) and retinol-binding protein–vitamin A complexes. <a href="javascript:void(0);">(1)</a> The stability of the TTR tetramer is central to its physiological role because dissociation into monomers can initiate misfolding and amyloid formation, leading to systemic or hereditary transthyretin amyloidosis. <a href="javascript:void(0);">(2)</a> Subunit exchange between wild-type (WT) and variant TTR proteoforms, including disease-associated mutations such as V30M and V122I, have been implicated in amyloid progression by generating hybrid tetramers (tetramers containing WT and mutant subunits) with altered stabilities. <a href="javascript:void(0);">(3,4)</a> Ligand binding, particularly at the two thyroxine-binding sites located at the dimer–dimer interface, can kinetically stabilize the tetramer and modulate amyloidogenicity. <a href="javascript:void(0);">(5,6)</a> Accurate measurement of both subunit exchange kinetics and ligand binding stoichiometry is therefore critical for elucidating the TTR dynamics and stability.Affinity or sequence tags are widely employed in protein expression, purification, or detection. <a href="javascript:void(0);">(7,8)</a> While these tags are often assumed to be inert, their influence on protein structure and dynamics are rarely examined in detail. <a href="javascript:void(0);">(9,10)</a> Protein tags at the N- and C-terminus of TTR have been shown to have differing gas phase stabilities from those of WT-TTR. <a href="javascript:void(0);">(11)</a> The C-terminus is of particular interest because this region participates in the dimer–dimer interface that governs tetramer stability. <a href="javascript:void(0);">(11,12)</a> Characterizing how the C-terminal tag (CT) (-ASGENLFYQ) affects TTR’s solution stability and ligand binding is not only relevant for understanding TTR dynamics but also provides an example of how expression tags can alter protein dynamics. <a href="javascript:void(0);">(13)</a>Native mass spectrometry (nMS) has been invaluable for characterizing protein complexes, <a href="javascript:void(0);">(14)</a> yet conventional nMS often struggles with heterogeneous samples where overlapping charge state distributions and adduct heterogeneity limit resolution and quantitation. <a href="javascript:void(0);">(15)</a> Charge detection mass spectrometry (CDMS) addresses these limitations by independently measuring the charge and m/z of individual ions, enabling the direct determination of molecular mass and abundance. Development of CDMS has largely focused on achieving higher mass resolution <a href="javascript:void(0);">(16)</a> and extending measurements toward assemblies into the GDa range. <a href="javascript:void(0);">(17,18)</a> However, there is untapped utility for CDMS experiments other than mass and proteoform determination. Jordan et al. showed the capability to assess conformational heterogeneity of mAb aggregates using the added charge dimension that CDMS provides. <a href="javascript:void(0);">(19)</a> The current work demonstrates that CDMS can separate proteoforms with overlapping m/z values based on charge and quantify their relative abundances in complex mixtures. While nMS is already a highly quantitative technique, our results establish CDMS as an equally powerful tool for quantitative analysis in heterogeneous systems. <a href="javascript:void(0);">(20,21)</a>Here, we apply Orbitrap-based CDMS/Direct Mass Technology (DMT) using the selective temporal overview of resonant ions (STORI) approach <a href="javascript:void(0);">(22,23)</a> to quantitatively compare WT-TTR and CT-TTR, focusing on two biologically relevant properties: tetramer stability assessed via subunit exchange kinetics and ligand-binding affinity. Conventional nMS cannot fully resolve the overlapping charge states of WT- and CT-TTR or their ligand-bound states. However, DMT can resolve these species by directly measuring the mass (m/z × charge), enabling quantitation of all proteoforms. The data reveal that the CT tag alters tetramer stability and thyroxine-binding affinity, demonstrating the structural sensitivity of TTR to modifications at its C-terminus. More broadly, this work demonstrates the impact that protein tags can have on native protein interactions and highlights the broader utility of quantitative CDMS for probing heterogeneous biological samples.<h4>Experimental Section</h4><h5>Data Collection</h5>All experiments were conducted on a <a target="_blank" rel="noopener noreferrer" href="https://lcms.labrulez.com/products/560">Thermo Scientific Q-Exactive UHMR</a> with added DMT capabilities (Bremen, Germany). Before DMT, mass spectra were collected at various resolving powers (6–200k) for each sample, with the instrument parameters reported in the Supporting Information (<a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/suppl/10.1021/acs.analchem.5c05771/suppl_file/ac5c05771_si_001.pdf">Table S1</a>). For DMT experiments, the trapping gas pressure in the HCD cell was reduced to 0.3–0.8 to attenuate the signal intensity to a single ion level, as well as decreasing the UHV pressure to assist ion retention through the entire transient of Orbitrap analysis. We observed no significant difference between mass spectra collected at various HCD cell pressures (Supporting Information, <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/suppl/10.1021/acs.analchem.5c05771/suppl_file/ac5c05771_si_001.pdf">Figure S1</a>). For DMT collection, automated ion control (AIC) and 100% target density were used with 200k resolving power.<h4>Results and Discussion</h4>CDMS has emerged as a powerful tool for analyzing heterogeneous biomolecular samples, enabling accurate, direct mass determination by simultaneously measuring the charge and m/z for individual ions. While CDMS has been widely applied for qualitative analyses, its potential for quantitative and less than MDa applications remains underexplored. <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771#fig1">Figure 1</a>A shows the theoretical mass spectrum of WT-TTR (14+ to 16+) and CT-TTR (15+ to 17+) homotetramers, where the two proteoforms become increasingly resolved as the charge states increase (&lt;3900 m/z). <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771#fig1">Figure 1</a>B zooms in on the 14+ (WT) and 15+ (CT) charge states, highlighting their strong overlap, which prevents accurate deconvolution of the proteoforms by conventional methods. <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771#fig1">Figure 1</a>C displays theoretical distributions for 0, 1, and 2 T4 bound states of both WT- and CT-TTR tetramers, where &lt;3900 m/z has observable separation between all proteoforms. However, for the 14+ and 15+ charge states of WT- and CT-TTR, respectively, the 0 T4- and 1 T4-bound populations overlap (<a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771#fig1">Figure 1</a>D). Furthermore, commonly adducted species (Na+, K+, and Zn2+) observed in experimental spectra broaden these distributions, making it increasingly difficult to distinguish and deconvolute the proteoforms (see <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/suppl/10.1021/acs.analchem.5c05771/suppl_file/ac5c05771_si_001.pdf">Figure S2</a>). Here, we employ Orbitrap-based CDMS/DMT to overcome this m/z overlap to resolve and quantify hybrid tetramer formation and T4 binding.<img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Anal_Chem_2025_97_49_27057_27063_Figure_1_A_Theoretical_mass_spectra_of_WT_TTR_and_CT_TTR_homotetramers_47232849d9.jpg" alt="Anal. Chem. 2025, 97, 49, 27057–27063: Figure 1. (A) Theoretical mass spectra of WT-TTR and CT-TTR homotetramers. (B) Zoomed-in view of the 14+ WT-TTR and 15+ CT-TTR distributions to show the large overlap of the proteoforms. (C) Theoretical mass spectra of WT-TTR and CT-TTR homotetramers with thyroxine (T4) binding. (D) Zoomed-in view of the 14+ WT-TTR and 15+ CT-TTR distributions where the 0 and 1 T4 have overlapping distributions. These theoretical distributions do not contain any commonly adducted species (Na+, K+, Zn2+), which broaden the distributions and create more overlap even for the proteoforms in the range 3300–3900 m/z (see Figure S2)." srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Anal_Chem_2025_97_49_27057_27063_Figure_1_A_Theoretical_mass_spectra_of_WT_TTR_and_CT_TTR_homotetramers_47232849d9.jpg 187w," sizes="100vw" width="1417" height="1182"><h5>Thyroxine Binding to TTR Homotetramers</h5>Thyroxine is the less active form of a thyroid hormone important for metabolism that binds to TTR for transport throughout plasma and cerebral spinal fluid. <a href="javascript:void(0);">(31)</a> Turnover of T4 into T3 (active) occurs after dissociation, where it can then modulate gene expression via binding to nuclear receptors. <a href="javascript:void(0);">(32)</a> The TTR tetramer gains substantial stability as it binds up to 2 T4 at the tetramer interface, decreasing tetramer dissociation and SUE. <a href="javascript:void(0);">(33)</a> This has been shown previously to decrease the amyloidogenic rate of TTR, which led to tafamidis (similar in structure to T4) to be designed and is currently the only drug that is approved for clinical treatment of TTR amyloidosis. <a href="javascript:void(0);">(34)</a> Measuring the difference in binding affinity between TTR proteoforms may provide insight into regions of TTR or TTR intermolecular/intramolecular interactions that are important for binding of small molecules such as tafamidis and T4.DMT was further applied to quantify T4 binding to WT- and CT-TTR homotetramers, highlighting the technique’s utility in probing protein–ligand interactions. <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771#fig3">Figure 3</a>A shows a representative mass spectrum of TTR homotetramers in the presence of T4. While ligand-bound species can be observed, homotetramers cannot be confidently resolved across the entire 3000–5000 m/z range. By leveraging the charge-resolving capabilities of DMT, we achieve separation of the homotetramers (<a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/10.1021/acs.analchem.5c05771#fig3">Figure 3</a>B,C) and the 0, 1, and 2 ligand-bound states. The 2D plot clearly shows the gain in resolution achieved when charge is simultaneously measured with m/z by separating the 14+ and 15+ charge states for WT and CT, respectively, in the range 3900–4200 m/z. Additionally, using ion mobility does not provide the same kind of 2D resolution due to the similarity in arrival times for the homotetramer proteoforms, as evidenced by <a target="_blank" rel="noopener noreferrer" href="https://pubs.acs.org/doi/suppl/10.1021/acs.analchem.5c05771/suppl_file/ac5c05771_si_001.pdf">Figures S4 and S5</a> (see the Supporting Information). These data provide evidence that when ion mobility is able to separate out species that overlap in m/z yet differ in mobility, CDMS could be an alternative or used complementarily since the species likely also differ in charge.<img src="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/Anal_Chem_2025_97_49_27057_27063_Figure_3_A_Mass_spectra_of_WT_TTR_and_CT_TTR_homotetramers_with_thyroxine_binding_61b1e98a94.jpg" alt="Anal. Chem. 2025, 97, 49, 27057–27063: Figure 3. (A) Mass spectra of WT-TTR and CT-TTR homotetramers with thyroxine binding. Ligand binding can be resolved, but homotetramers cannot be confidently identified. Charge states labeled are for WT; CT is always one charge state higher at the same m/z range. (B) DMT heatmap resolving WT-TTR and CT-TTR homotetramers with the additional measurement of charge. (C) Deconvoluted mass spectrum from DMT analysis. Both homotetramers and their ligand binding are resolved, and fit for analysis is shown in red. (D) Mole fraction of each homotetramer and their thyroxine binding species. Error bars represent the standard deviation of replicates (n = 3). The significance for each ligand state is in respect to the left adjacent state. *p &lt; 0.05." srcset="https://storage.googleapis.com/labrulez-bucket-strapi-h3hsga3/thumbnail_Anal_Chem_2025_97_49_27057_27063_Figure_3_A_Mass_spectra_of_WT_TTR_and_CT_TTR_homotetramers_with_thyroxine_binding_61b1e98a94.jpg 181w," sizes="100vw" width="1266" height="1094"><h4>Conclusion</h4>This work demonstrates that quantitatively, Orbitrap-based CDMS/DMT can determine differences in protein-complex stability and ligand binding. By directly comparing WT- with CT-TTR, we show that the CT tag accelerates tetramer dissociation while enhancing T4 binding affinity. These results indicate that the C-terminus, located at the dimer–dimer interface, plays a more significant role in TTR stability and ligand recognition than previously appreciated. <a href="javascript:void(0);">(12)</a> Even the addition of a short peptide sequence perturbs noncovalent interactions at the interface, likely altering solvent accessibility, and the dynamics of the thyroxine binding channel. <a href="javascript:void(0);">(37,54)</a> Such findings underscore the importance of evaluating how seemingly minor sequence modifications, such as affinity tags, can influence fundamental biophysical properties.Beyond TTR, this work positions quantitative CDMS as a broadly applicable strategy for analyzing heterogeneous protein systems, where charge domain separation overcomes the resolution limits of m/z domain measurements in traditional nMS experiments. While much of the field has emphasized extending CDMS to ultrahigh masses and maximal resolution, <a href="javascript:void(0);">(16,18)</a> our results highlight the underexplored potential of applying the method in the 1000–10,000 m/z range common to nMS experiments. This capability is directly relevant to heterogeneous membrane protein complexes, which often display broad distributions of oligomeric states, PTMs, lipid, and ligand adducts that complicate spectra. <a href="javascript:void(0);">(48,55)</a> Similarly, mAbs can oligomerize and exhibit mass heterogeneity from variable glycosylation, affecting pharmacokinetics, effector function, and stability. <a href="javascript:void(0);">(19)</a> CDMS may resolve and quantify such proteoforms in a single experiment without the need for charge reduction or chemical derivatization. <a href="javascript:void(0);">(48,56,57)</a>

Dissecting Heterogeneous Populations of Protein-Complex Samples Using Direct Mass Technology

Article

Webinars

Video

Scientists

Scientific article

Interview

Science and research

Everything from the world of analytical chemistry in one place. We connect people in solving their problems. At Labrulez you will find all the necessary information easily, quickly and clearly. Stop searching and start finding.

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Organomation, founded in 1959, designs and manufactures high-quality nitrogen evaporators and extraction systems. Known for innovation and durability, their lab instruments are used globally for efficient sample preparation with strong customer support.

Organomation

Agilent Technologies

Phenomenex

Thermo Fisher Scientific

Restek Corporation

SCIEX

Waters Corporation

<ul>
<li>Learn about physical and chemical properties of common reverse phase stationary phases</li>
<li>Find an understanding and recieve steps for stationary phase selection</li>
<li>Take a deep dive into mobile phase selectivity</li>
</ul>
<blockquote>
Presenter: Kevin Zhao (Senior Technical Specialist)
</blockquote>
<blockquote>
Kevin Zhao is the Senior Technical Specialist with Phenomenex and has 5 years of experience in biochemistry research; 4 years of Protein/Cancer research with CSULA-City of Hope Cancer Collaborative and over 9 years in Phenomenex. Mr. Zhao is a member of a global Technical Support Team which includes providing problem-solving, troubleshooting, and applications assistance for customers worldwide in the fields of chromatography (liquid and gas) and sample preparation, and also handling Industries supported include – pharmaceutical and biopharmaceutical, clinical research and clinical toxicology, food safety, environmental, fuels and specialty chemicals. Mr. Zhao received his B.S. in Biology at the California State Polytechnic University, Pomona. earned his M.S. in Biochemistry at California State University, Los Angeles, and also earned a MBA at the University of the Incarnate Word.
</blockquote>
<blockquote>
Presenter: Koen Askamp (Technical Specialist)
</blockquote>
<blockquote>
Koen Askamp is a Technical Specialist in Phenomenex. He was awarded his BSc and MSc degrees in Molecular Life Sciences at Wageningen University in the Netherlands and joined Phenomenex in 2020 as Technical Sales Consultant. Koen became part of Phenomenex’s global technical support team in 2022 and assists laboratories in training chromatographers and developing analytical methods.
</blockquote>
<blockquote>
Presenter: Namrata Saxena (Technical Manager)
</blockquote>
<blockquote>
Namrata Saxena is a Technical Manager - Asia/Pacific with Phenomenex and is based in Sydney, Australia. She has a post graduate degree with a specialization in Analytical Chemistry, with extensive experience in the Liquid chromatography domain, and her current focus is in Omics and Biologics field. 
</blockquote>
<blockquote>
Before joining Phenomenex she had worked as “Product Specialist” and spent several years in column chemistry, column manufacturing and method development in the application and manufacturing labs of Bischoff Chromatography, Germany. 
</blockquote>
<blockquote>
In her current role, she provides product selection, method development, training and troubleshooting support to customers as well as Phenomenex Sales Consultants globally. 
</blockquote>

Phenomenex: HPLC Method Development: Practical Approaches for Identifying Equivalent and Orthogonal Columns

HPLC Method Development: Practical Approaches for Identifying Equivalent and Orthogonal Columns

Learn about physical and chemical properties of common reverse phase stationary phases

HPLC Method Development: Approaches for Identifying Columns

Event Overview:
<ul>
<li>Understanding the structure-function relationship of polymers is of critical importance for successful incorporation into commercial applications. In this webinar, Nemal Gobalasingham, Ph.D. will explore polymer characterization by multi-angle light scattering (MALS) and differential viscometry, coupled with size-exclusion chromatography or field-flow fractionation, for enhanced studies of polymer structure-function.
</li>
<li>Case studies will illustrate the use of these analytical tools to unlock detailed information about molar mass distributions, size, structural conformation, and composition of a variety of functional polymers. Examples include nonwoven polymer fibers, formulation polymers, polymers for microneedles and polymers for other practical applications, all of which are often challenging to characterize fully by other methods.
</li>
</ul>
Key Learning Objectives:
<ul>
<li>Separation principles of size exclusion chromatography (SEC) and asymmetric flow field flow fractionation (AF4).</li>
<li>Theoretical background of multi-angle light scattering (MALS) detector and intrinsic viscosity (IV).</li>
<li>Determination of molar mass distributions, structural conformation, branching content, and other structural information in functional polymers using SEC-MALS-IV and FFF-MALS.</li>
</ul>
Who Should Attend:
Polymer chemists seeking advanced analytical characterization capabilities. Researchers involved in synthetic, biopolymer, and functional polymer characterization. Scientists interested in the characterization of non-biological materials utilized in conjunction with biomedical applications.
<blockquote>
Presenter: Nemal Gobalasingham, Ph.D. (Waters | Wyatt Technology)
</blockquote>
<blockquote>
Nemal Gobalasingham joined Wyatt Technology in 2018 and currently serves as a Global Training Manager and Senior Application Scientist. He provides application support and training for customers in a broad array of fields and is responsible for the advanced training and development programs for our field scientists and Wyatt representatives across the world. He graduated with a B.S. in chemistry from Syracuse University and completed his Ph.D. in chemistry at the University of Southern California with a research emphasis on semiconducting polymers and materials science.
</blockquote>

Waters Corporation: Structural characterization of functional polymers via light scattering and differential viscometry

Structural characterization of functional polymers via light scattering and differential viscometry

Explore polymer characterization by MALS and differential viscometry, coupled with size-exclusion chromatography or field-flow fractionation.

Characterization of polymers via light scattering

<h4>SCIEX OS software summer school</h4>
Master the essentials of SCIEX OS software with our live webinars this summer
Join us for our summer school series dedicated to enhancing your proficiency with SCIEX OS software. Over the course of next months, we offer a series of concise, 30-minute webinars designed to fit into your schedule.
Agenda:
<ul>
<li>23 July, 11:00 a.m. CET – Hardware configuration and instrument verification</li>
<li>6 Aug, 11:00 a.m. CET – Compound optimization</li>
<li>20 Aug, 11:00 a.m. CET – Data processing: quantitation</li>
<li>2 September, 11:00 a.m. CET – Data processing: screening</li>
</ul>

SCIEX OS software summer school - Compound optimization

Join us for our summer school series dedicated to enhancing your proficiency with SCIEX OS software.

Compound optimization

SCIEX OS software summer school - Data processing: quantitation

Data processing: quantitation

SCIEX OS software summer school - Data processing: screening

Data processing: screening

Key Learning Points:
<ul>
<li>Understand the benefit of using SPE than other sample preparation techniques </li>
<li>Learn the basic protocol for SPE method and separation modes</li>
<li>Dig into reverse phase SPE typical protocol, and solid phase extraction media</li>
</ul>
Who Should Attend:
Anyone beginning with solid phase extraction (SPE) technique, or anyone struggling with method sensitivity
<blockquote>
Presenter: Grace Guo (Senior Technical Specialist, Phenomenex)
</blockquote>
<blockquote>
Grace Guo graduated from the Johns Hopkins University with a Master’s degree in Material Science and Engineering. She joined Phenomenex Technical Team in 2017 providing technical support globally. With more than 8 years of experience on SPE, HPLC and GC, she delivered 50+ seminars and webinars globally covering food and environmental, clinical, pharma and biopharma industry. 
</blockquote>

Phenomenex: Solid Phase Extraction Introduction and Theory

Solid Phase Extraction Introduction and Theory

Understand the benefit of using SPE than other sample preparation techniques.

Summary
Comming soon...
<blockquote>
Presenter: Jennifer Field (Professor, Oregon State University)
</blockquote>
<blockquote>
Dr. Field has a Ph.D. in geochemistry from the Colorado School of Mines. Her current research focuses on the development and application of quantitative analytical methods for organic micropollutants and their transformation products in natural and engineered systems with a focus on per- and polyfluoroalkyl substances (PFAS). She is considered a pioneer in the area of PFAS occurrence and behavior and has focused on groundwater contaminated by fire-fighting foams and PFAS in municipal wastewater treatment systems and in municipal landfills. Current work focuses on the development of PFAS fingerprinting sources, biomimetic chromatography of PFAS, and PFAS on specialized textiles, fluoropolymers and other materials. She served as an Executive and Associate Editor for Environmental Science and Technology and received the Agilent Thought Leader Award in 2023.
</blockquote>
<blockquote>
Presenter: Norm Farmer (PFAS Program Director, SGS North America)
</blockquote>
<blockquote>
Norm Farmer is the PFAS Program Director for SGS North America. Technical Director for SGS US Environmental Laboratories. He received his BS in Chemical Oceanography from the Florida Institute of Technology. He has 35 years of commercial environmental laboratory experience and 27 years supporting various Department of Defense environmental programs. He has spent the last 10 years working on PFAS analysis and data review.
</blockquote>
<blockquote>
Presenter: Tarun Anumol, PhD (Director, Global Environment Market, Agilent Technologies, Inc.)
</blockquote>
<blockquote>
Tarun Anumol is the Director for Global Environment Market at for Agilent Technologies. Previously, he was an LC-MS applications scientist at Agilent, focused on developing analytical methods for trace contaminants on LC-MS/MS and LC-Q/TOF in food and environmental matrices. Tarun has a strong history of working in the environmental &amp; food testing industry, with a background in technical and applied science, with over 30 peer-reviewed journal publications in this area.
</blockquote>
<blockquote>
Prior to joining Agilent, Tarun graduated with a Ph.D. in Chemical &amp; Environmental Engineering from the University of Arizona with a focus on emerging contaminant attenuation including PPCPs, PFAS and DBPs in water reuse schemes.
</blockquote>
<blockquote>
Presenter: Maya Murshak (CEO and Technical Director, Merit Laboratories)
</blockquote>
<blockquote>
Maya is the CEO and Technical Director for Merit Laboratories. She currently oversees all of the laboratory functions. Maya continues to work closely with laboratory certification, accreditation, and project coordination. She has over 37 years of practical laboratory experience based on her extensive analytical work with both chromatography and mass spec systems. Maya is a Chemical Engineer, holding both B.S. and M.S. degrees from Michigan State University. Go Green!
</blockquote>

Agilent: Panel Discussion: The Present & Future of PFAS analysis – will we ever fully characterize PFAS?

Panel Discussion: The Present & Future of PFAS analysis – will we ever fully characterize PFAS?

The Present & Future of PFAS analysis

Does regulated laboratory software use in a modern software ecosystem have to be complex?
Join us for our latest webinar to unlock insights into the intricacies of regulated laboratory software. We will discuss the changing regulatory landscapes, observations, and considerations when aligning software records with ALCOA+ principles as well as the essentials of requirements, qualification and validation for laboratory software. If you work in QC, or are working in a regulated laboratory, you do not want to miss this!
Learning Objectives:
<ul>
<li>Review the dynamics of regulatory changes impacting modern software ecosystems
</li>
<li>Discover the significance of aligning software records with ALCOA+ principles for data integrity and compliance
</li>
<li>Identify and gain insights into the requirements, qualification, and validation processes essential for effective laboratory software management
</li>
</ul>
<blockquote>
Presenter: Joe Ault (Sr. Product Marketing Manager, Thermo Fisher Scientific)
</blockquote>
<blockquote>
Joe Ault has a diverse professional background in pharma, having contributed significantly to validation campaigns for both small-scale, gene therapy startups and large pharma firms. Previously, Joe was a senior manager of computerized system validation at a cell and gene therapy startup, where his focus was on commercialization. He has also held roles as a computerized system validation engineer focused on laboratory and manufacturing systems. In addition to his roles at pharmaceutical firms, Joe has served as a validation consultant for industry leaders specializing in chromatography data systems. In this capacity, he played a crucial role in ensuring the validation and compliance of these systems, contributing to the reliability and accuracy of critical data for regulated customers. With a career spanning commercialization in startups and validation expertise of chromatography data systems, Joe is now focused on the creation and delivery of validation services in support of Thermo Fisher Scientific customers of enterprise software products.
</blockquote>

Thermo Scientific: Navigating changes in regulated software environments

Navigating changes in regulated software environments

Changing regulatory landscapes, observations, and considerations when aligning software records with ALCOA+ principles.

Developing methods of analysis for drug compounds is not an easy task. Knowing how to develop a new method or how to incorporate new compounds into an existing method, as well as what is needed in terms of both materials and methods, can be challenging.
In this webinar, we will get you started on your analytical method with your column choice, including the particle, phase, and dimension. We’ll then discuss the mobile phase choice and method conditions that will meet your analytical goals. Throughout this training, we will use Restek’s Pro EZLC Chromatogram Modeler to exemplify the practices discussed.
<ul>
<li>Learn key information on how to effectively analyze drug compounds.</li>
<li>See how the Pro EZLC Chromatogram Modeler can help with adding new compounds to your analysis.</li>
<li>Learn how the Raptor Biphenyl allows for easy incorporation of these compounds into existing methods.</li>
</ul>

Restek Corporation: Method Development Considerations for the LC-MS/MS Analysis of Drugs

Method Development Considerations for the LC-MS/MS Analysis of Drugs

In this webinar, we will get you started on your analytical method with your column choice, including the particle, phase, and dimension.

Method Development for the LC-MS/MS Analysis of Drugs

Are you tired of dealing with inconsistent LC results? Are you looking to extend the life of your LC columns and improve lab efficiency?
Our upcoming webinar, LC Columns Tips &amp; Tricks, is designed to help you get the most out of your LC columns.
Our expert will share invaluable insights on:
<ul>
<li>Understanding LC column chemistry to optimize separations
</li>
<li>Proper handling of new LC columns for maximum lifespan
</li>
<li>Proven techniques to extend column life and reduce downtime
</li>
<li>Effective column maintenance and troubleshooting strategies
</li>
</ul>
This live webinar is an excellent opportunity to deepen your knowledge, improve your lab efficiency, and reduce operational costs. Whether you&#39;re a seasoned pro or just getting started, you&#39;ll walk away with practical knowledge to elevate your column performance and lifetime. Adham Ahmed will be presenting and answering your questions live.
Who Should Attend?
<ul>
<li>Laboratory Analysts and Scientists who are involved in small molecule pharmaceutical analysis
</li>
<li>Chromatographers seeking to optimize LC column performance
</li>
<li>Quality control professionals aiming to improve data reliability and reproducibility
</li>
<li>Research and development scientists working on method development and validation
</li>
<li>Lab Managers: Leaders looking to improve operational efficiency and extend the lifespan of lab equipment.
</li>
<li>Anyone involved in LC column selection, maintenance, and troubleshooting
</li>
</ul>
<blockquote>
Presenter: Adham Ahmed (Global Product Manager, Thermo Fisher Scientific)
</blockquote>
<blockquote>
Adham Ahmed has 15+ years of experience in particle development and functionality for chromatographic application. Presently, he is the Global Product Manager of the Hypersil BDS and ODS and other columns within the Thermo Fisher Scientific Portfolio. His experience includes working in R&amp;D, application specialist and Product management, with a focus on understanding customer’s challenges and laboratory needs.
</blockquote>

Thermo Scientific: LC Columns Tips & Tricks

LC Columns Tips & Tricks

Our upcoming webinar, LC Columns Tips & Tricks, is designed to help you get the most out of your LC columns.

LCMS webinars focusing on Academy/Principles - page 14