Giacomello Lab

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Team members

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Key publications

ProbeST: a custom probe design pipeline for dual host-pathogen Spatial Transcriptomics
Sofia Rouot, Ireen van Dolderen, Patrick Rosendahl Andreassen, Solène Frapard, Sybil A Herrera-Foessel, Hailey Sounart, Sami Saarenpää, Julia A Vorholt, Stefania Giacomello
BMC Genomics (25 June 2026)

Spatiotemporal analysis reveals distinct inflammatory programs underlying chronic colitis
Jennifer Fransson, Chiara Sorini, Francisca Castillo, Yuhao Chi, Ning He, Martin Suarez-Alvarez, Maria Alejandra Ulloa, Rodrigo A Morales Castro, Ali Okhovat, Hailey Sounart, Chiara Zagami, Rebeca F Cardoso, Srustidhar Das, Stefania Giacomello, Anna Mechling, Charlotte R H Hedin, Philip Smith, Eduardo J Villablanca
Cell Immunity (9 June 2026)

Claustrum and dorsal endopiriform cortex complex cell-identity is determined by Nurr1 and regulates hallucinogenic-like states in mice
Mantas I, Flais I, Masarapu Y, Ionescu T, Frapard S, Jung F, Le Merre P, Saarinen M, Tiklova K, Salmani BY, Gillberg L, Zhang X, Chergui K, Carlén M, Giacomello S, Hengerer B, Perlmann T, Svenningsson P.
Nature Comm (18 September 2024)

Protective alleles and precision healthcare in crewed spaceflight
Lindsay A. Rutter, Matthew J. MacKay, Henry Cope, Nathaniel J. Szewczyk, JangKeun Kim, Eliah Overbey, Braden T. Tierney, Masafumi Muratani, Ben Lamm, Daniela Bezdan, Amber M. Paul, Michael A. Schmidt, George M. Church, Stefania Giacomello, Christopher E. Mason
Nature Comm (22 July 2024)

Spatially resolved multiomics on the neuronal effects induced by spaceflight in mice
Masarapu Y, Cekanaviciute E, Andrusivova Z, Westholm JO, Björklund Å, Fallegger R, Badia-I-Mompel P, Boyko V, Vasisht S, Saravia-Butler A, Gebre S, Lázár E, Graziano M, Frapard S, Hinshaw RG, Bergmann O, Taylor DM, Wallace DC, Sylvén C, Meletis K, Saez-Rodriguez J, Galazka JM, Costes SV, Giacomello S 
Nat Commun (11 June 2024)

Astronaut omics and the impact of space on the human body at scale
Rutter LA, Cope H, MacKay MJ, Herranz R, Das S, Ponomarev SA, Costes SV, Paul AM, Barker R, Taylor DM, Bezdan D, Szewczyk NJ, Muratani M, Mason CE, Giacomello S.
Nature Comm (11 June 2024)

Spatial metatranscriptomics resolves host-bacteria-fungi interactomes
Saarenpää S, Shalev O, Ashkenazy H, Carlos V, Lundberg DS, Weigel D, Giacomello S
Nature Biotechnology (20 Nov 2023)

A new era for plant science: spatial single-cell transcriptomics
Giacomello S
Current Opinion in Plant Biology (26 Apr 2021)

A spatiotemporal organ-wide gene expression and cell atlas of the developing human heart
Asp M*†, Giacomello S†, Larsson L, Wu C, Fürth D, Qian X, Wärdell E, Custodio J, Reimegård J, Salmén F, Österholm C, Ståhl PL, Sundström E, Åkesson E, Bergmann O, Bienko M, Månsson-Broberg A, Nilsson M, Sylvén C, Lundeberg J*
Cell (2019)

Preparation of plant tissue to enable Spatial Transcriptomics profiling using barcoded microarrays
Giacomello S* and Lundeberg J*
Nature Protocols (2018)

Spatially resolved transcriptome profiling in model plant species
Giacomello S*, Salmén F, Terebieniec B K, Vickovic S, Navarro J F, Alexeyenko A, Reimegård J, McKee L S, Mannapperuma C, Bulone V, Ståhl P L, Sundström J F, Street N R, Lundeberg J*
Nature Plants (2017)

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics
Ståhl PL, Salmén F, Vickovic S, Lundmark A, Fernández Navarro J, Magnusson J, Giacomello S, Asp M, Westholm JO, Huss M, Mollbrink A, Linnarsson S, Codeluppi S, Borg Å, Pontén F, PI Costea, Sahlén P, Mulder J, Bergmann O, Lundeberg J*, Frisén J
Science (2016)

* Corresponding author
† Authors contributed equally