Academic Journal
StreamFind: data processing workflows for qualification and quantification of biopharmaceutical drug products analyzed by size exclusion chromatography coupled to capillary-enhanced Raman spectroscopy.
| Τίτλος: | StreamFind: data processing workflows for qualification and quantification of biopharmaceutical drug products analyzed by size exclusion chromatography coupled to capillary-enhanced Raman spectroscopy. |
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| Συγγραφείς: | Thissen J; Institut Für Umwelt & Energie, Technik & Analytik E.V. (IUTA), Bliersheimer Str. 58-60, 47229, Duisburg, Germany.; Faculty of Mathematics and Natural Sciences, Institute of Pharmaceutics and Biopharmaceutics, Heinrich Heine University, Universitätsstr. 1, 40225, Düsseldorf, Germany., Klassen MD; Institut Für Umwelt & Energie, Technik & Analytik E.V. (IUTA), Bliersheimer Str. 58-60, 47229, Duisburg, Germany., Fischer B; Faculty of Mathematics and Natural Sciences, Institute of Pharmaceutics and Biopharmaceutics, Heinrich Heine University, Universitätsstr. 1, 40225, Düsseldorf, Germany., Hacker MC; Faculty of Mathematics and Natural Sciences, Institute of Pharmaceutics and Biopharmaceutics, Heinrich Heine University, Universitätsstr. 1, 40225, Düsseldorf, Germany., Breitkreutz J; Faculty of Mathematics and Natural Sciences, Institute of Pharmaceutics and Biopharmaceutics, Heinrich Heine University, Universitätsstr. 1, 40225, Düsseldorf, Germany., Teutenberg T; Institut Für Umwelt & Energie, Technik & Analytik E.V. (IUTA), Bliersheimer Str. 58-60, 47229, Duisburg, Germany., Cunha R; Institut Für Umwelt & Energie, Technik & Analytik E.V. (IUTA), Bliersheimer Str. 58-60, 47229, Duisburg, Germany. cunha@iuta.de. |
| Πηγή: | Analytical and bioanalytical chemistry [Anal Bioanal Chem] 2025 Aug; Vol. 417 (19), pp. 4469-4480. Date of Electronic Publication: 2025 Jun 26. |
| Τύπος έκδοσης: | Journal Article |
| Γλώσσα: | English |
| Στοιχεία περιοδικού: | Publisher: Springer-Verlag Country of Publication: Germany NLM ID: 101134327 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1618-2650 (Electronic) Linking ISSN: 16182642 NLM ISO Abbreviation: Anal Bioanal Chem Subsets: MEDLINE |
| Imprint Name(s): | Original Publication: Heidelberg : Springer-Verlag, 2002- |
| Ιατρικοί όροι (MeSH): | Spectrum Analysis, Raman*/methods , Chromatography, Gel*/methods , Antibodies, Monoclonal*/analysis , Biological Products*/analysis , Software*, Pharmaceutical Preparations/analysis ; Principal Component Analysis ; Workflow ; Least-Squares Analysis |
| Περίληψη: | Innovative hyphenated technologies, such as size exclusion chromatography coupled with capillary-enhanced Raman spectroscopy (SEC-CERS), enable more comprehensive analyses of biopharmaceutical drug products. However, specialized software for processing and analyzing data from these advanced techniques is often lacking. This study introduces the R package StreamFind, which is designed to help users seamlessly process both chromatographic and Raman spectroscopic data within an integrated workflow. We detail the implementation and structure of StreamFind and demonstrate its ability in the in-depth analysis of biopharmaceutical products. The study shows its capability to differentiate monoclonal antibodies and entire biopharmaceutical formulations and to quantify various components based on their Raman spectra. Principal component analysis (PCA) identified significant differences among the biopharmaceutical products analyzed, while multivariate curve resolution-alternating least squares (MCR-ALS) proved to be an effective method for quantifying different components within these products. The StreamFind platform is designed to be extensible, to facilitate contributions from new users and to support the future integration of additional algorithms to process different types of complex analytical data. (© 2025. The Author(s), under exclusive licence to Springer-Verlag GmbH, DE part of Springer Nature.) |
| Competing Interests: | Declarations. Conflict of interest: The authors declare no competing interests. |
| References: | ICH Q6B. Specifications: Test Procedures and Acceptance Criteria for Biotechnological/Biological Products. CPMP/ICH/365/96. London: EMA. 1999. European Medicines Agency. Guideline on development, production, characterisation and specification for monoclonal antibodies and related products. EMA/CHMP/BWP/532517/2008 Rev. 1. London: EMA. 2016;01:23–2025. Robinson CJ, Jones C. Quality control and analytical techniques for biopharmaceuticals. Bioanalysis. 2011;3(1):81–95. (PMID: 21175369) Thissen J, Klassen MD, Constantinidis P, Hacker MC, Breitkreutz J, Teutenberg T, et al. Online Coupling of Size Exclusion Chromatography to Capillary Enhanced Raman Spectroscopy for the Analysis of Proteins and Biopharmaceutical Drug Products. Anal Chem. 2023;95(48):17868–77. (PMID: 38050672) Thissen J, Klassen MD, Hacker MC, Breitkreutz J, Teutenberg T, Fischer B. Online coupling of size exclusion chromatography to capillary-enhanced Raman spectroscopy for the identification of protein classes in hemolyzed blood serum. Anal Bioanal Chem. 2025;417(2):335–44. (PMID: 39556139) OriginLab Corporation. Origin(Pro), Version 2021b. Northampton, MA, USA: OriginLab Corporation; 2021. Brehm S, Himcinschi C, Kraus J, Kortus J. PyRamanGUI: Open-source graphical user interface for analyzing Raman spectra. SoftwareX. 2023;23:101486. https://doi.org/10.1016/j.softx.2023.101486 . Storozhuk D, Ryabchykov O, Popp J, Bocklitz T. RAMANMETRIX: a delightful way to analyze Raman spectra 2022. Available from: https://arxiv.org/abs/2201.07586 . Accessed 2 Feb 2025. Wilkinson MD, Dumontier M, Aalbersberg IJ, Appleton G, Axton M, Baak A, et al. The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data. 2016;3(1):160018. (PMID: 269782444792175) Pfizer. Zirabev: Highlights of prescribing information: Food and Drug Administration. Available from: https://www.accessdata.fda.gov/drugsatfda_docs/label/2019/761099s000lbl.pdf . Accessed 2 Feb 2025. Ushey K, Allaire JJ, Tang Y. reticulate: Interface to 'Python'. R package version 1.42.0. 2025. Available from: https://rstudio.github.io/reticulate/ . Accessed 20 June 2025. Eddelbuettel D, Francois R. Rcpp: Seamless R and C++ Integration. J Stat Softw. 2011;40(8):1–18. Sheehy G, Picot F, Dallaire F, Ember K, Nguyen T, Petrecca K, et al. Open-sourced Raman spectroscopy data processing package implementing a baseline removal algorithm validated from multiple datasets acquired in human tissue and biofluids. J Biomed Opt. 2023;28(2):025002. (PMID: 368252459941747) Chang W. R6: Encapsulated Classes with Reference Semantics. R package version 2.6.1. 2022. Available from: https://r6.r-lib.org . Accessed 20 June 2025. Vaughan D, Hester J, Kalinowski T, Landau W, Lawrence M, Maechler M. S7: An Object Oriented System Meant to Become a Successor to S3 and S4. R package version 0.2.0.9000. 2024. Available from: https://rconsortium.github.io/S7/ . Accessed 20 June 2025. Helmus R, ter Laak TL, van Wezel AP, de Voogt P, Schymanski EL. patRoon: open source software platform for environmental mass spectrometry based non-target screening. J Cheminf. 2021;13(1):1. Kucheryavskiy S. mdatools – R package for chemometrics. Chemom Intell Lab Syst. 2020;198:103937. Pedregosa F, Varoquaux G, Gramfort A, Michel V, Thirion B, Grisel O, et al. Scikit-learn: Machine Learning in Python. J Mach Learn Res. 2011;12:2825–30. Höhn D, Renner G, Cunha JR. Available from: https://github.com/odea-project/qAlgorithms . Accessed 2 Feb 2025. Kapoulkine A. pugixml 2006 - 2025 Available from: https://github.com/zeux/pugixml ; https://pugixml.org/ . Accessed 2 Feb 2025. Chambers MC, Maclean B, Burke R, Amodei D, Ruderman DL, Neumann S, et al. A cross-platform toolkit for mass spectrometry and proteomics. Nat Biotechnol. 2012;30(10):918–20. (PMID: 230518043471674) Savitzky A, Golay MJE. Smoothing and Differentiation of Data by Simplified Least Squares Procedures. Anal Chem. 1964;36(8):1627–39. Eilers PHC. Parametric Time Warping. Anal Chem. 2004;76(2):404–11. (PMID: 14719890) Zhang Z-M, Chen S, Liang Y-Z. Baseline correction using adaptive iteratively reweighted penalized least squares. Analyst. 2010;135(5):1138–46. (PMID: 20419267) Socrates G. Infrared and Raman Characteristic Group Frequencies: Tables and Charts. 3rd ed. John Wiley & Sons; 2004. Rygula A, Majzner K, Marzec KM, Kaczor A, Pilarczyk M, Baranska M. Raman spectroscopy of proteins: a review. J Raman Spectrosc. 2013;44(8):1061–76. Wen ZQ. Raman spectroscopy of protein pharmaceuticals. J Pharm Sci. 2007;96(11):2861–78. (PMID: 17847076) Devitt G, Rice W, Crisford A, Nandhakumar I, Mudher A, Mahajan S. Conformational Evolution of Molecular Signatures during Amyloidogenic Protein Aggregation. ACS Chem Neurosci. 2019;10(11):4593–611. (PMID: 31661242) Xing L, Fan W, Chen N, Li M, Zhou X, Liu S. Amyloid formation kinetics of hen egg white lysozyme under heat and acidic conditions revealed by Raman spectroscopy. J Raman Spectrosc. 2019;50(5):629–40. Ettah I, Ashton L. Engaging with Raman Spectroscopy to Investigate Antibody Aggregation. Antibodies. 2018;7(3):24. (PMID: 315448766640673) Dolui S, Mondal A, Roy A, Pal U, Das S, Saha A, et al. Order, Disorder, and Reorder State of Lysozyme: Aggregation Mechanism by Raman Spectroscopy. J Phys Chem B. 2020;124(1):50–60. (PMID: 31820990) Renner G, Nellessen A, Schwiers A, Wenzel M, Schmidt TC, Schram J. Data preprocessing & evaluation used in the microplastics identification process: A critical review & practical guide. TrAC, Trends Anal Chem. 2019;111:229–38. Sandoz GmbH. ANNEX I - SUMMARY OF PRODUCT CHARACTERISTICS: European Medicines Agency; updated 04/01/2024. Available from: https://www.ema.europa.eu/en/documents/product-information/rixathon-epar-product-information_en.pdf . Accessed 10 June 2025. Genentech Inc. Avastin: Highlights of prescribing information.: Food and Drug Administration; updated 08/2024. Available from: https://www.accessdata.fda.gov/drugsatfda_docs/label/2022/125085s340lbl.pdf . Accessed 10 June 2025. Janssen Pharmaceutical Companies. Darzalex Faspro: Highlights of prescribing information.: Food and Drug Administration; updated 01/2021. Available from: https://www.accessdata.fda.gov/drugsatfda_docs/label/2021/761145s002lbl.pdf . Accessed 10 June 2025. Shukla MK, Wilkes P, Bargary N, Meagher K, Khamar D, Bailey D, et al. Identification of monoclonal antibody drug substances using non-destructive Raman spectroscopy. Spectrochim Acta, Part A. 2023;299:122872. Jaumot J, Gargallo R, de Juan A, Tauler R. A graphical user-friendly interface for MCR-ALS: a new tool for multivariate curve resolution in MATLAB. Chemom Intell Lab Syst. 2005;76(1):101–10. |
| Grant Information: | 16DKWN138 Bundesministerium für Bildung und Forschung; KK5312603KA1 Bundesministerium für Wirtschaft und Klimaschutz |
| Contributed Indexing: | Keywords: Biopharmaceuticals; Liquid chromatography; Open-source software; Raman spectroscopy; StreamFind |
| Substance Nomenclature: | 0 (Antibodies, Monoclonal) 0 (Biological Products) 0 (Pharmaceutical Preparations) |
| Entry Date(s): | Date Created: 20250626 Date Completed: 20250722 Latest Revision: 20250722 |
| Update Code: | 20260130 |
| DOI: | 10.1007/s00216-025-05964-3 |
| PMID: | 40569409 |
| Βάση Δεδομένων: | MEDLINE |
| ISSN: | 1618-2650 |
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| DOI: | 10.1007/s00216-025-05964-3 |