Author

Aleksandra Jurek

Science for Life Laboratory

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 2 Genomics· 2 Neuroscience· 2

Signature Assays, Organisms & Methods

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Assay:spatial transcriptomics· 6 Organism:mouse· 4 Approach:statistical model· 4 Approach:experimental assay· 3 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Organism:human· 2 Research Focus:benchmarking· 1

Frequent Co-Authors

Joakim LundebergiD· 5 shared José Fernández NavarroiD· 4 shared Ludvig BergenstråhleiD· 2 shared Alexandra B. FirsovaiD· 1 shared Alexandre Denadai‐SouzaiD· 1 shared Alia ShamikhiD· 1 shared Alma AnderssoniD· 1 shared An Snellinx· 1 shared

Activity by Year

2018-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 15 mutual co-author links

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5 shared papersNeuroscience

Joakim LundebergORCID

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Author profile →

6 papers

Recent·Most cited

Dual spatially resolved transcriptomics for SARS-CoV-2 host-pathogen colocalization studies in humans

Hailey Sounart, Enikő Lázár, Yuvarani Masarapu, Jian Wu, Tibor Várkonyi, Tibor Glasz, András Kiss, Erik Borgström, Andrew Martin Hill, Sefanit Rezene, Soham Gupta, Aleksandra Jurek, Anezka Niesnerova, Henrik Druid, Olaf Bergmann, Stefania Giacomello

This paper presents a method to simultaneously detect host and SARS-CoV-2 transcriptomes in lung tissue and identifies pathway shifts in infected cells.

Genome biology · Oct 19, 2023Peer-reviewedGenomics

Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples

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

Spatial and temporal transcriptomics reveal microglia-astroglia crosstalk in the amyloid-β plaque cell niche of Alzheimer’s disease

Wei-Ting Chen, Ashley Lu, Katleen Craessaerts, Benjamin Pavie, Carlo Sala Frigerio, Nikky Corthout, Xiaoyan Qian, Jana Laláková, Malte Kühnemund, Iryna Voytyuk, Leen Wolfs, Renzo Mancuso, Evgenia Salta, Sriram Balusu, An Snellinx, , Bart De Strooper

The paper uses spatial transcriptomics and in situ sequencing to study gene networks in the amyloid-β plaque niche of AD, revealing microglia-astroglia interactions and myelination abnormalities.

Cell · Jul 22, 2020Peer-reviewedNeuroscience

Molecular Atlas Of The Adult Mouse Brain

Cantin Ortiz, José Fernández Navarro, Aleksandra Jurek, Antje Märtin, Joakim Lundeberg, Konstantinos Meletis

The paper creates a molecular atlas of the adult mouse brain using spatial transcriptomics, revealing new subregions and a molecular code for spatial annotation.

Science Advances · Jun 26, 2020Peer-reviewedNeuroscience

Spatial mapping of cell types by integration of transcriptomics data

Alma Andersson, Joseph Bergenstråhle, Michaela Asp, Ludvig Bergenstråhle, Aleksandra Jurek, José Fernández Navarro, Joakim Lundeberg

The paper presents a probabilistic method integrating spatial transcriptomics and single-cell RNA-sequencing to spatially map cell types across tissues.

bioRxiv · Dec 13, 2019 · PreprintBioinformatics

Charting Tissue Expression Anatomy by Spatial Transcriptome Decomposition

Jonas Maaskola, Ludvig Bergenstråhle, Aleksandra Jurek, José Fernández Navarro, Jens Lagergren, Joakim Lundeberg

The paper introduces a probabilistic framework to analyze spatial transcriptomics data, identifying transcriptomic patterns corresponding to cell types and tissue components in mouse brain samples.

bioRxiv · Dec 28, 2018 · PreprintBioinformatics