Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions
Andersson, Alma, Larsson, Ludvig, Stenbeck, Linnea, Salmén, Fredrik, Ehinger, Anna, Wu, Sunny Z., Al-Eryani, Ghamdan, Roden, Daniel, Swarbrick, Alex, Borg, Åke, Frisén, Jonas, Engblom, Camilla, Lundeberg, Joakim
Published in Nature communications (14.10.2021)
Published in Nature communications (14.10.2021)
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Journal Article
Spatial Transcriptomics to define transcriptional patterns of zonation and structural components in the mouse liver
Hildebrandt, Franziska, Andersson, Alma, Saarenpää, Sami, Larsson, Ludvig, Van Hul, Noémi, Kanatani, Sachie, Masek, Jan, Ellis, Ewa, Barragan, Antonio, Mollbrink, Annelie, Andersson, Emma R., Lundeberg, Joakim, Ankarklev, Johan
Published in Nature communications (02.12.2021)
Published in Nature communications (02.12.2021)
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Journal Article
Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma
Ji, Andrew L., Rubin, Adam J., Thrane, Kim, Jiang, Sizun, Reynolds, David L., Meyers, Robin M., Guo, Margaret G., George, Benson M., Mollbrink, Annelie, Bergenstråhle, Joseph, Larsson, Ludvig, Bai, Yunhao, Zhu, Bokai, Bhaduri, Aparna, Meyers, Jordan M., Rovira-Clavé, Xavier, Hollmig, S. Tyler, Aasi, Sumaira Z., Nolan, Garry P., Lundeberg, Joakim, Khavari, Paul A.
Published in Cell (23.07.2020)
Published in Cell (23.07.2020)
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Journal Article
Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity
Berglund, Emelie, Maaskola, Jonas, Schultz, Niklas, Friedrich, Stefanie, Marklund, Maja, Bergenstråhle, Joseph, Tarish, Firas, Tanoglidi, Anna, Vickovic, Sanja, Larsson, Ludvig, Salmén, Fredrik, Ogris, Christoph, Wallenborg, Karolina, Lagergren, Jens, Ståhl, Patrik, Sonnhammer, Erik, Helleday, Thomas, Lundeberg, Joakim
Published in Nature communications (20.06.2018)
Published in Nature communications (20.06.2018)
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Journal Article
Super-resolved spatial transcriptomics by deep data fusion
Bergenstråhle, Ludvig, He, Bryan, Bergenstråhle, Joseph, Abalo, Xesús, Mirzazadeh, Reza, Thrane, Kim, Ji, Andrew L., Andersson, Alma, Larsson, Ludvig, Stakenborg, Nathalie, Boeckxstaens, Guy, Khavari, Paul, Zou, James, Lundeberg, Joakim, Maaskola, Jonas
Published in Nature biotechnology (01.04.2022)
Published in Nature biotechnology (01.04.2022)
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Journal Article
Clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics
Ratz, Michael, von Berlin, Leonie, Larsson, Ludvig, Martin, Marcel, Westholm, Jakub Orzechowski, La Manno, Gioele, Lundeberg, Joakim, Frisén, Jonas
Published in Nature neuroscience (2022)
Published in Nature neuroscience (2022)
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Journal Article
The spatial transcriptomic landscape of the healing mouse intestine following damage
Parigi, Sara M., Larsson, Ludvig, Das, Srustidhar, Ramirez Flores, Ricardo O., Frede, Annika, Tripathi, Kumar P., Diaz, Oscar E., Selin, Katja, Morales, Rodrigo A., Luo, Xinxin, Monasterio, Gustavo, Engblom, Camilla, Gagliani, Nicola, Saez-Rodriguez, Julio, Lundeberg, Joakim, Villablanca, Eduardo J.
Published in Nature communications (11.02.2022)
Published in Nature communications (11.02.2022)
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Journal Article
Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples
Mirzazadeh, Reza, Andrusivova, Zaneta, Larsson, Ludvig, Newton, Phillip T., Galicia, Leire Alonso, Abalo, Xesús M., Avijgan, Mahtab, Kvastad, Linda, Denadai-Souza, Alexandre, Stakenborg, Nathalie, Firsova, Alexandra B., Shamikh, Alia, Jurek, Aleksandra, Schultz, Niklas, Nistér, Monica, Samakovlis, Christos, Boeckxstaens, Guy, Lundeberg, Joakim
Published in Nature communications (2023)
Published in Nature communications (2023)
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Journal Article
Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin
Li, Xiaofei, Andrusivova, Zaneta, Czarnewski, Paulo, Langseth, Christoffer Mattsson, Andersson, Alma, Liu, Yang, Gyllborg, Daniel, Braun, Emelie, Larsson, Ludvig, Hu, Lijuan, Alekseenko, Zhanna, Lee, Hower, Avenel, Christophe, Kallner, Helena Kopp, Åkesson, Elisabet, Adameyko, Igor, Nilsson, Mats, Linnarsson, Sten, Lundeberg, Joakim, Sundström, Erik
Published in Nature neuroscience (2023)
Published in Nature neuroscience (2023)
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Journal Article
Automation of Spatial Transcriptomics library preparation to enable rapid and robust insights into spatial organization of tissues
Berglund, Emelie, Saarenpää, Sami, Jemt, Anders, Gruselius, Joel, Larsson, Ludvig, Bergenstråhle, Ludvig, Lundeberg, Joakim, Giacomello, Stefania
Published in BMC genomics (15.04.2020)
Published in BMC genomics (15.04.2020)
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Journal Article
Integrated single cell and spatial transcriptomics reveal autoreactive differentiated B cells in joints of early rheumatoid arthritis
Hardt, Uta, Carlberg, Konstantin, af Klint, Erik, Sahlström, Peter, Larsson, Ludvig, van Vollenhoven, Annika, Hernandez Machado, Susana, Israelsson, Lena, Amara, Khaled, Chemin, Karine, Korotkova, Marina, Karlsson Hedestam, Gunilla B., Catrina, Anca I., Teichmann, Sarah A., Ståhl, Patrik L., Malmström, Vivianne
Published in Scientific reports (13.07.2022)
Published in Scientific reports (13.07.2022)
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Journal Article
Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium
Vickovic, Sanja, Schapiro, Denis, Carlberg, Konstantin, Lötstedt, Britta, Larsson, Ludvig, Hildebrandt, Franziska, Korotkova, Marina, Hensvold, Aase H., Catrina, Anca I., Sorger, Peter K., Malmström, Vivianne, Regev, Aviv, Ståhl, Patrik L.
Published in Communications biology (11.02.2022)
Published in Communications biology (11.02.2022)
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Journal Article
The spatial RNA integrity number assay for in situ evaluation of transcriptome quality
Kvastad, Linda, Carlberg, Konstantin, Larsson, Ludvig, Villacampa, Eva Gracia, Stuckey, Alexander, Stenbeck, Linnea, Mollbrink, Annelie, Zamboni, Margherita, Magnusson, Jens Peter, Basmaci, Elisa, Shamikh, Alia, Prochazka, Gabriela, Schaupp, Anna-Lena, Borg, Åke, Fugger, Lars, Nistér, Monica, Lundeberg, Joakim
Published in Communications biology (08.01.2021)
Published in Communications biology (08.01.2021)
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Journal Article
Genome-wide spatial expression profiling in formalin-fixed tissues
Gracia Villacampa, Eva, Larsson, Ludvig, Mirzazadeh, Reza, Kvastad, Linda, Andersson, Alma, Mollbrink, Annelie, Kokaraki, Georgia, Monteil, Vanessa, Schultz, Niklas, Appelberg, Karin Sofia, Montserrat, Nuria, Zhang, Haibo, Penninger, Josef M., Miesbach, Wolfgang, Mirazimi, Ali, Carlson, Joseph, Lundeberg, Joakim
Published in Cell genomics (08.12.2021)
Published in Cell genomics (08.12.2021)
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Journal Article
SnapShot: Spatial transcriptomics
Larsson, Ludvig, Bergenstråhle, Ludvig, He, Mengxiao, Andrusivova, Zaneta, Lundeberg, Joakim
Published in Cell (21.07.2022)
Published in Cell (21.07.2022)
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Journal Article
Spatial landscapes of cancers: insights and opportunities
Chen, Julia, Larsson, Ludvig, Swarbrick, Alexander, Lundeberg, Joakim
Published in Nature reviews. Clinical oncology (01.09.2024)
Published in Nature reviews. Clinical oncology (01.09.2024)
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Journal Article
A single-cell and spatially resolved atlas of human breast cancers
Wu, Sunny Z., Al-Eryani, Ghamdan, Roden, Daniel Lee, Junankar, Simon, Harvey, Kate, Andersson, Alma, Thennavan, Aatish, Wang, Chenfei, Torpy, James R., Bartonicek, Nenad, Wang, Taopeng, Larsson, Ludvig, Kaczorowski, Dominik, Weisenfeld, Neil I., Uytingco, Cedric R., Chew, Jennifer G., Bent, Zachary W., Chan, Chia-Ling, Gnanasambandapillai, Vikkitharan, Dutertre, Charles-Antoine, Gluch, Laurence, Hui, Mun N., Beith, Jane, Parker, Andrew, Robbins, Elizabeth, Segara, Davendra, Cooper, Caroline, Mak, Cindy, Chan, Belinda, Warrier, Sanjay, Ginhoux, Florent, Millar, Ewan, Powell, Joseph E., Williams, Stephen R., Liu, X. Shirley, O’Toole, Sandra, Lim, Elgene, Lundeberg, Joakim, Perou, Charles M., Swarbrick, Alexander
Published in Nature genetics (01.09.2021)
Published in Nature genetics (01.09.2021)
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