European Industrial Doctorate for enhancing upstream biopharmaceutical manufacturing process development through single cell analysis

Livrables

Final network meeting and Biotech conference

Final network meeting combined with a biotech conference to promote the STACCATO (research) results.

Annual Network Training Events including 15 Modules

5-day events consisting of the annual meeting and training modules specifically created for the STACCATO training. Modules are created to teach skills all ESRs will need and which will not me taught locally.

12 Webinars

12 Webinars successfully completed

ESR Biotech Pitches

Each ESR will develop a 5-minute STACCATO Biotech Pitch on their individual reseach topic. Pitches will be recorded and posted on the project website.

Single cell analysis for BioPharma Symposium

ESRs organise a 1 day event to communicate the outputs of the STACCATO project to the BioPharma community.

STACCATO Wiki

A searchable online platform containing STACCATO relevant topics, made available through the website. It will contain basic information on related terminology and technologies as well as project results.

Optimisation of the production process for CAR T cells dose-efficacy correlation

Optimisation of the production process for CAR T cells and understanding of the doseefficacy correlation

Effect of different protein product types on productivity and glycan heterogeneity in CHO cells

Understanding of the effect of different protein product types on productivity and glycan heterogeneity in CHO cells

Cell biology during extended HCDP culture

Understanding of the underlying cell biology during extended HCDP culture

Rhapsody scRNASeq, mtDNA and proteomics of cell therapies

Rhapsody scRNASeq mtDNA and proteomics of cell therapies complete

Manuscripts submitted to peer-reviewed journals (i.e. peer reviewed primary research papers to be published after publication by journal)

Papers on STACCATO research results will be submitted to open access peerreviewed journals For nonopen access publications articles will be deposited in an online repository to be made accessible

STACCATO Podcast Seminar Series

Biannual seminars to be broadcasted via FacebookLive Each seminar will be published via the STACCATO podcast on the project website

Conference presentations and posters

Participation of ESRs and PIs at relecant scientific conferences to disseminate the latest project results

STACCATO Website

The project website of STACCATO will have the main purpose of illustrating the application of single cell analysis for bioprocess development to the general public Additionally it will be the main platform for disseminating resarch project results and informing about the project in general

Publications

Proof-of-Concept of Continuous Transfection for Adeno-Associated Virus Production in Microcarrier-Based Culture

Auteurs: Brian Ladd, Kevin Bowes, Mats Lundgren, Torbjörn Gräslund and Veronique Chotteau
Publié dans: Processes, Numéro 2022, 10(3), 515, 2022, ISSN 2227-9717
Éditeur: MDPI
DOI: 10.3390/pr10030515

Impact of dual baculovirus infection on the Sf9 insect cell transcriptome during AAV production using single-cell RNA-seq

Auteurs: Virgolini N., Silvano M., Hagan R., Correia R., Alves P., Clarke C., Roldao A., Isidro I.
Publié dans: Biotechnology & Bioengineering, 2023, ISSN 1097-0290
Éditeur: Wiley Online Library
DOI: 10.22541/au.167121909.92795915/v1

Dissecting insect cell heterogeneity during influenza VLP production using single-cell transcriptomics

Auteurs: Marco Silvano, Nikolaus Virgolini, Ricardo Correia, Colin Clarke, Ines A. Isidro, Paula M. Alves, Antonio Roldao
Publié dans: Frontiers in Bioengineering and Biotechnology, Numéro vol. 11, 2023, ISSN 2296-4185
Éditeur: Frontiers
DOI: 10.3389/fbioe.2023.1143255

Comparison of Clinically Relevant Oncolytic Virus Platforms for Enhancing T Cell Therapy of Solid Tumors

Auteurs: Cervera-Carrascon V., Quixabeira DCA., Havunen R., Santos JM., Kutvonen E., Clubb JHA., Siurala M., Heiniö C., Zafar S., Koivula T., Lumen D., Vaha M., Garcia-Horsman A., Airaksinen AJ., Sorsa S., Anttila M., Hukkanen V., Kanerva A., Hemminki A.
Publié dans: Molecular therapy oncolytics, Numéro vol.17, 2020, ISSN 2372-7705
Éditeur: CellPress
DOI: 10.1016/j.omto.2020.03.003

Development of a Syrian Hamster anti-PD-L1 monoclonal antibody enables adenoviral oncolytic immunotherapy modelling in an immunocompetent virus replication permissive setting.

Auteurs: Clubb J., Kudling T.V., Quixabeira D., Santos J., Havunen R., Heiniö C., Cervera-Carrascon V., Pakola S., Basnet S., Grönberg-Vähä-Koskela s., Kanerva A., & Hemminki A.
Publié dans: Frontiers in Immunology, Numéro vol.14, 2023, ISSN 1664-3224
Éditeur: Frontiers
DOI: 10.3389/fimmu.2023.1060540

Monitoring CAR T cell generation with a CD8-targeted lentiviral vector by single-cell transcriptomics

Auteurs: Charitidis F.T., Adabi E., Thalheimer F.B., Clarke C., Buchholz C.J.
Publié dans: Molecular Therapy – Methods & Clinical Development, Numéro vol.23, 2022, ISSN 2329-0501
Éditeur: CellPress
DOI: 10.1016/j.omtm.2021.09.019

Subphysiological temperature induces pervasive alternative splicing in Chinese hamster ovary cells

Auteurs: Ioanna Tzani, Craig Monger, Krishna Motheramgari, Clair Gallagher, Ryan Hagan, Paul Kelly, Alan Costello, Justine Meiller, Patrick Floris, Lin Zhang, Martin Clynes, Jonathan Bones, Niall Barron, Colin Clarke
Publié dans: Biotechnology and Bioengineering, Numéro 117/8, 2020, Page(s) 2489-2503, ISSN 0006-3592
Éditeur: Wiley - V C H Verlag GmbbH & Co.
DOI: 10.1002/bit.27365

Systemic Delivery of Oncolytic Adenovirus to Tumors Using Tumor-Infiltrating Lymphocytes as Carriers

Auteurs: Santos J, Heiniö C, Quixabeira D, Zafar S, Clubb J, Pakola S, Cervera-Carrascon V, Havunen R, Kanerva A, Hemminki A.
Publié dans: Cells, Numéro vol. 10 issue 5, 2022, ISSN 2073-4409
Éditeur: MDPI
DOI: 10.3390/cells10050978

Adenovirus Encoding Tumor Necrosis Factor Alpha and Interleukin 2 Induces a Tertiary Lymphoid Structure Signature in Immune Checkpoint Inhibitor Refractory Head and Neck Cancer

Auteurs: Clubb J.H.A., Kudling T.V., Heiniö C., Basnet S., Pakola S., Cervera Carrascón V., Santos J.M., Quixabeira D.C.A., Havunen R., Sorsa S., Zheng V., Salo T., Bäck L., Aro K., Tulokas S., Loimu V., Hemminki A.
Publié dans: Frontiers in Immunology, Numéro vol. 13, 2022, ISSN 1664-3224
Éditeur: Frontiers
DOI: 10.3389/fimmu.2022.794251

Transcriptome analysis of Sf9 insect cells during production of recombinant Adeno‐associated virus

Auteurs: Nikolaus Virgolini; Ryan Hagan; Ricardo Correia; Marco Silvano; Sofia Fernandes; Paula M. Alves; Colin Clarke; António Roldão; Inês A. Isidro
Publié dans: Biotechnology Journal, 2022, ISSN 1860-7314
Éditeur: Wiley Online Library
DOI: 10.1002/biot.202200466

Expression of Extracellular Vesicle PIWI-interacting RNAs over hiPSC-cardiomyocyte differentiation

Auteurs: Louro A.F., Virgolini N., Paiva M.A., Isidro I.A., Alves P.M., Gomes-Alves P., Serra M.
Publié dans: Frontiers in Physiology, Numéro Vol 13, 2022, ISSN 1664-042X
Éditeur: Frontiers Research Foundation
DOI: 10.3389/fphys.2022.926528

Local delivery of interleukin 7 with an oncolytic adenovirus activates tumor-infiltrating lymphocytes and causes tumor regression

Auteurs: Kudling T.V., Clubb J.H.A., Quixabeira D.C.A., Santos J.M., Havunen R., Kononov A., Heiniö C., Cervera-Carrascon V., Pakola S., Basnet S., Grönberg-Vähä-Koskela S., Arias V., Gladwyn-Ng I., Aro K., Bäck L., Räsänen J., Ilonen I., Borenius K., Räsänen M., Hemminki O., Rannikko A., Kanerva A., Tapper J., Hemminki A.
Publié dans: OncoImmunology, Numéro vol. 11, issue 1, 2022, ISSN 2162-4011
Éditeur: Landes Bioscience
DOI: 10.1080/2162402x.2022.2096572

Gene expression analysis of adapted insect cells during influenza VLP production using RNA-sequencing

Auteurs: Silvano, M., Correia, R., Virgolini, N., Clarke, C., Alves, P.M., Isidro, I.A., Roldão, A.
Publié dans: Viruses, Numéro vol- 14 issue 10, 2022, ISSN 1999-4915
Éditeur: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v14102238

Tracing production instability in a clonally derived CHO cell line using single‐cell transcriptomics

Auteurs: Ioanna Tzani, Nicolas Herrmann, Sara Carillo, Cathy A. Spargo, Ryan Hagan, Niall Barron, Jonathan Bones, W. Shannon Dillmore, Colin Clarke
Publié dans: Biotechnology and Bioengineering, 2021, ISSN 0006-3592
Éditeur: Wiley - V C H Verlag GmbbH & Co.
DOI: 10.1002/bit.27715

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