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Arrías, Paula NazarenaORCID iD iconorcid.org/0000-0001-5668-768X
Alternative names
Publications (3 of 3) Show all publications
Arrías, P. N., Esnal, M. R. & Malm, M. (2025). Imaging the rAAV manufacturing process: assessing the subcellular localisation of capsids during production. Human Gene Therapy, 36(3-4), E187-E188
Open this publication in new window or tab >>Imaging the rAAV manufacturing process: assessing the subcellular localisation of capsids during production
2025 (English)In: Human Gene Therapy, ISSN 1043-0342, E-ISSN 1557-7422, Vol. 36, no 3-4, p. E187-E188Article in journal, Meeting abstract (Other academic) Published
Place, publisher, year, edition, pages
Mary Ann Liebert, 2025
National Category
Medical Biotechnology (Focus on Cell Biology, (incl. Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)
Identifiers
urn:nbn:se:kth:diva-366118 (URN)001418811501134 ()
Note

QC 20250707

Available from: 2025-07-07 Created: 2025-07-07 Last updated: 2025-07-07Bibliographically approved
Esnal, M. R., Arrías, P. N., Rockberg, J. & Malm, M. (2025). Understanding recombinant AAV production kinetics in HEK293 cells. Human Gene Therapy, 36(3-4), E189-E189
Open this publication in new window or tab >>Understanding recombinant AAV production kinetics in HEK293 cells
2025 (English)In: Human Gene Therapy, ISSN 1043-0342, E-ISSN 1557-7422, Vol. 36, no 3-4, p. E189-E189Article in journal, Meeting abstract (Other academic) Published
Place, publisher, year, edition, pages
Mary Ann Liebert, 2025
National Category
Medical Biotechnology (Focus on Cell Biology, (incl. Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)
Identifiers
urn:nbn:se:kth:diva-366119 (URN)001418811501138 ()
Note

QC 20250707

Available from: 2025-07-07 Created: 2025-07-07 Last updated: 2025-07-07Bibliographically approved
Mozaffari, S., Arrías, P., Clementel, D., Piovesan, D., Ferrari, C., Tosatto, S. C. .. & Monzon, A. M. (2024). STRPsearch: fast detection of structured tandem repeat proteins. Bioinformatics, 40(12), Article ID btae690.
Open this publication in new window or tab >>STRPsearch: fast detection of structured tandem repeat proteins
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2024 (English)In: Bioinformatics, ISSN 1367-4803, E-ISSN 1367-4811, Vol. 40, no 12, article id btae690Article in journal (Refereed) Published
Abstract [en]

Motivation: Structured Tandem Repeats Proteins (STRPs) constitute a subclass of tandem repeats characterized by repetitive structural motifs. These proteins exhibit distinct secondary structures that form repetitive tertiary arrangements, often resulting in large molecular assemblies. Despite highly variable sequences, STRPs can perform important and diverse biological functions, maintaining a consistent structure with a variable number of repeat units. With the advent of protein structure prediction methods, millions of 3D models of proteins are now publicly available. However, automatic detection of STRPs remains challenging with current state-of-the-art tools due to their lack of accuracy and long execution times, hindering their application on large datasets. In most cases, manual curation remains the most accurate method for detecting and classifying STRPs, making it impracticable to annotate millions of structures. Results: We introduce STRPsearch, a novel tool for the rapid identification, classification, and mapping of STRPs. Leveraging manually curated entries from RepeatsDB as the known conformational space of STRPs, STRPsearch uses the latest advances in structural alignment for a fast and accurate detection of repeated structural motifs in proteins, followed by an innovative approach to map units and insertions through the generation of TM-score profiles. STRPsearch is highly scalable, efficiently processing large datasets, and can be applied to both experimental structures and predicted models. In addition, it demonstrates superior performance compared to existing tools, offering researchers a reliable and comprehensive solution for STRP analysis across diverse proteomes.

Place, publisher, year, edition, pages
Oxford University Press (OUP), 2024
National Category
Biochemistry Molecular Biology
Identifiers
urn:nbn:se:kth:diva-358172 (URN)10.1093/bioinformatics/btae690 (DOI)001377102900001 ()39558588 (PubMedID)2-s2.0-85211966531 (Scopus ID)
Note

QC 20250114

Available from: 2025-01-07 Created: 2025-01-07 Last updated: 2025-02-20Bibliographically approved
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ORCID iD: ORCID iD iconorcid.org/0000-0001-5668-768X

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