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Arrías, Paula NazarenaORCID iD iconorcid.org/0000-0001-5668-768X
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Publikationer (3 of 3) Visa alla publikationer
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
Öppna denna publikation i ny flik eller fönster >>Imaging the rAAV manufacturing process: assessing the subcellular localisation of capsids during production
2025 (Engelska)Ingår i: Human Gene Therapy, ISSN 1043-0342, E-ISSN 1557-7422, Vol. 36, nr 3-4, s. E187-E188Artikel i tidskrift, Meeting abstract (Övrigt vetenskapligt) Published
Ort, förlag, år, upplaga, sidor
Mary Ann Liebert, 2025
Nationell ämneskategori
Medicinsk bioteknologi (Inriktn. mot cellbiologi (inkl. stamcellsbiologi), molekylärbiologi, mikrobiologi, biokemi eller biofarmaci)
Identifikatorer
urn:nbn:se:kth:diva-366118 (URN)001418811501134 ()
Anmärkning

QC 20250707

Tillgänglig från: 2025-07-07 Skapad: 2025-07-07 Senast uppdaterad: 2025-07-07Bibliografiskt granskad
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
Öppna denna publikation i ny flik eller fönster >>Understanding recombinant AAV production kinetics in HEK293 cells
2025 (Engelska)Ingår i: Human Gene Therapy, ISSN 1043-0342, E-ISSN 1557-7422, Vol. 36, nr 3-4, s. E189-E189Artikel i tidskrift, Meeting abstract (Övrigt vetenskapligt) Published
Ort, förlag, år, upplaga, sidor
Mary Ann Liebert, 2025
Nationell ämneskategori
Medicinsk bioteknologi (Inriktn. mot cellbiologi (inkl. stamcellsbiologi), molekylärbiologi, mikrobiologi, biokemi eller biofarmaci)
Identifikatorer
urn:nbn:se:kth:diva-366119 (URN)001418811501138 ()
Anmärkning

QC 20250707

Tillgänglig från: 2025-07-07 Skapad: 2025-07-07 Senast uppdaterad: 2025-07-07Bibliografiskt granskad
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.
Öppna denna publikation i ny flik eller fönster >>STRPsearch: fast detection of structured tandem repeat proteins
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2024 (Engelska)Ingår i: Bioinformatics, ISSN 1367-4803, E-ISSN 1367-4811, Vol. 40, nr 12, artikel-id btae690Artikel i tidskrift (Refereegranskat) 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.

Ort, förlag, år, upplaga, sidor
Oxford University Press (OUP), 2024
Nationell ämneskategori
Biokemi Molekylärbiologi
Identifikatorer
urn:nbn:se:kth:diva-358172 (URN)10.1093/bioinformatics/btae690 (DOI)001377102900001 ()39558588 (PubMedID)2-s2.0-85211966531 (Scopus ID)
Anmärkning

QC 20250114

Tillgänglig från: 2025-01-07 Skapad: 2025-01-07 Senast uppdaterad: 2025-02-20Bibliografiskt granskad
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ORCID-id: ORCID iD iconorcid.org/0000-0001-5668-768X

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