Author
Science for Life LaboratoryORCID 0000-0003-0554-080XUnclaimed ORCID profile · follow to get notified of new preprints
12 papers
Recent·Most cited
Patrick Truong, Reza Mirzazadeh, Joakim Lundeberg, Klas Blomgren, Lola Boutin
The paper uses spatial transcriptomics to analyze immune infiltration in pediatric ependymoma, revealing compartmentalized immune niches and heterogeneous T-cell therapy opportunities.
bioRxiv · Sep 28, 2026 · PreprintCancer Biology
Marcos Machado, Mengxiao He, Leire Alonso Galicia, Žaneta Andrusivová, Emmanouela Perisynaki, Matthew William Myers, Sarantis Giatrellis, Sandra A O'Toole, Beata Kiedik, Raphaël Mauron, S. Leij, Kate Harvey, John Reeves, Javier Escudero Morlanes, Taobo Hu, , Reza Mirzazadeh
SIMPlex generates matched spatial and single-nucleus transcriptomic profiles from the same tissue section to resolve cell states with spatial signatures in mouse and human cancer tissues.
bioRxiv · Sep 10, 2026 · PreprintMolecular Biology
Javier Escudero Morlanes, Timo‐Pekka K. Lehto, Ludvig Larsson, Leire Alonso Galicia, Annelie Mollbrink, Alia Shamikh, Elisa Basmaci, Gabriela Prochazka, Teresita Díaz de Ståhl, Johanna Sandgren, Fulya Taylan, Bianca Tesi, Ann Nordgren, Andrew M. Erickson, Alastair D.G. Lamb, , Linda Kvastad
The paper creates a spatial transcriptomic atlas of pediatric brain tumors, identifying spatial archetypes and relapse-associated clones across multiple diagnoses.
bioRxiv · Aug 26, 2026 · PreprintCancer Biology
Mahtab Avijgan, Ana Pérez Ruiz, Leire Alonso Galicia, Jose Marchan, Laura Sudupe, Ruihan Zhou, Amal Nazaraliyev, Žaneta Andrusivová, Ludvig Larsson, Pâmella Miranda, Doste Rashid Mamand, Yunhan Zhao, Farasat Zaman, Hong Qian, Klas Blomgren, , Phillip T. Newton
This study characterizes gene expression in human growth plates, identifying novel markers and sub-populations of resting zone chondrocytes with features of quiescent stem cells.
Bone Research · Aug 4, 2026Peer-reviewedMolecular Biology
Loren Méar, Jasmin Hassan, Matthew William Myers, Hosein Toosi, Ilmatar Rooda, Nina Boskovic, Filippa Bertilsson, Feria Hikmet, Anastasios E. Damdimopoulos, Rutger Schutten, Borbala Katona, Marzie Abdolhamdi, Emmanouela Perisynaki, Katri Knuus, Karin Pettersson, , Pauliina Damdimopoulou
The paper uses multimodal single-cell profiling to show how puberty and chemotherapy affect pediatric ovarian tissue, identifying vulnerabilities and a potential biomarker.
bioRxiv · Jun 8, 2026 · PreprintDevelopmental Biology
Marco Vicari, Reza Mirzazadeh, Anna Nilsson, Mohammadreza Shariatgorji, Patrik Bjärterot, Ludvig Larsson, Hower Lee, Mats F. Nilsson, Julia Foyer, Markus Ekvall, Paulo Czarnewski, Xiaoqun Zhang, Per Svenningsson, Lukas Käll, Per E. Andrén, Joakim Lundeberg
This paper introduces a spatial multimodal analysis method that integrates histology, mass spectrometry imaging, and spatial transcriptomics to study mRNA and metabolite distributions in brain tissues.
Nature Biotechnology · Sep 4, 2023Peer-reviewedGenomics
Reza Mirzazadeh, Žaneta Andrusivová, Ludvig Larsson, Phillip T. Newton, Leire Alonso Galicia, Xesús Manoel Abalo, Mahtab Avijgan, Linda Kvastad, Alexandre Denadai‐Souza, Nathalie Stakenborg, Alexandra B. Firsova, Alia Shamikh, Aleksandra Jurek, Niklas Schultz, Monica Nistér, , Joakim Lundeberg
The paper introduces RRST, a spatial transcriptomics workflow that improves mRNA recovery from low-quality fresh frozen samples, demonstrating its effectiveness across multiple tissue types.
Nature Communications · Jan 31, 2023Peer-reviewedGenomics
Eva Gracia Villacampa, Ludvig Larsson, Reza Mirzazadeh, Linda Kvastad, Alma Andersson, Annelie Mollbrink, Georgia Kokaraki, Vanessa Monteil, Niklas Schultz, K. Sofia Appelberg, Núria Montserrat, Haibo Zhang, Josef Martin Penninger, Wolfgang Miesbach, Alì Mirazimi, , Joakim Lundeberg
This paper presents a method for genome-wide spatial mRNA analysis in FFPE tissues, demonstrating its ability to delineate anatomical regions and analyze transcriptomic signatures in ovarian carcinosarcoma.
Cell Genomics · Dec 1, 2021Peer-reviewedGenetics
Ludvig Bergenstråhle, Bryan Dawei He, Joseph Bergenstråhle, Xesús Manoel Abalo, Reza Mirzazadeh, Kim Thrane, Andrew L. Ji, Alma Andersson, Ludvig Larsson, Nathalie Stakenborg, Guy E. Boeckxstaens, Paul A. Khavari, James Zou, Joakim Lundeberg, Jonas Maaskola
This paper introduces a method to combine histology and spatial gene expression data to infer high-resolution transcriptome maps without sequencing or hybridization.
Nature Biotechnology · Nov 29, 2021Peer-reviewedBioinformatics
Andrew M. Erickson, Emelie Berglund, Mengxiao He, Maja Marklund, Reza Mirzazadeh, Niklas Schultz, Ludvig Bergenstråhle, Linda Kvastad, Alma Andersson, Joseph Bergenstråhle, Ludvig Larsson, Alia Shamikh, Elisa Basmaci, Teresita Díaz de Ståhl, Timothy Rajakumar, , Joakim Lundeberg
The paper uses spatial transcriptomics to analyze copy number variations in benign and malignant tissues, revealing clonal patterns and suggesting early cancer evolution mechanisms.
bioRxiv · Jul 12, 2021 · PreprintGenomics
Tracy J. Ballinger, Britta A. M. Bouwman, Reza Mirzazadeh, Silvano Garnerone, Nicola Crosetto, Colin A M Semple
The paper develops genome-wide models of DNA double strand break (DSB) susceptibility to identify structural variants (SVs) under positive or purifying selection in cancer.
Genome biology · Feb 8, 2019Peer-reviewedBioinformatics
Winston X. Yan, Reza Mirzazadeh, Silvano Garnerone, David A. Scott, Martin Schneider, Tomasz Kallas, Joaquín Custodio, Erik Wernersson, Linyi Alex Gao, Yinqing Li, Yana Federova, Bernd Zetsche, Feng Zhang, Magda Bienko, Nicola Crosetto
BLISS quantifies DNA double-strand breaks in situ with high sensitivity and efficiency, showing Cpf1 has higher specificity than Cas9.
bioRxiv · Dec 4, 2016 · PreprintMolecular Biology