Publications
2025
The metabolic organ connectome: A novel approach to measure allostatic load during health-to-disease transition
Barbara Katharina Geist,
Julia Guthrie,
Hunor Kertesz,
Florian W Kiefer,
Oana C Kulterer,
Thomas Nakuz,
Lukas Nics,
Eva-Maria Patronas,
Andre Rendeiro,
Chrysoula Vraka,
Josef Yu,
Stefan Grünert,
Marcus Hacker.
Med. 2025 Dec 12;6(12):100881. doi: 10.1016/j.medj.2025.100881. Epub 2025 Oct 14.
2025
Systematic mapping of human tissue microanatomy reveals age-associated remodeling and resilience
Iva Buljan,
Zsuzsanna Bagó-Horváth,
André F. Rendeiro.
bioRxiv [Preprint]. 2025 Oct 14:2025.10.13.682110. doi: 110.1101/2025.10.13.682110.
2025
The Spatial Atlas of Human Anatomy (SAHA): A Multimodal Subcellular-Resolution Reference Across Human Organs
Jiwoon Park,
Roberto De Gregorio,
Erika Hissong,
Elif Ozcelik,
Nicholas Bartelo,
Felipe Segato Dezem,
Luke Zhang,
Maycon Marção,
Hannah Chasteen,
Yimin Zheng,
Ernesto Abila,
Junbum Kim,
Theodore Nelson,
Jacqueline Proszynski,
Akua A Agyemang,
Mohith Reddy Arikatla,
Arjumand Wani,
Yutian Liu,
Evelyn Metzger,
Stefan Rogers,
Prajan Divakar,
Parambir S Dulai,
Jason Reeves,
Yan Liang,
Liuliu Pan,
Sayani Bhattacharjee,
Michael Patrick,
Kimberly Young,
Ashley Heck,
Mithra Korukonda,
Dan McGuire,
Lidan Wu,
Aster Wardhani,
Joseph Beechem,
George Church,
Steven M Lipkin,
Aaron Berliner,
Sanjay Patel,
Fabio Socciarelli,
Jan Krumsiek,
Rohit Chandwani,
Sebastien Monette,
Brian Robinson,
Massimo Loda,
Olivier Elemento,
Luciano Martelotto,
Jasmine Plummer,
André F Rendeiro,
Alicia Alonso,
Robert E Schwartz,
Shauna Lee Houlihan,
Christopher E Mason.
bioRxiv [Preprint]. 2025 Nov 5:2025.06.16.658716. doi: 10.1101/2025.06.16.658716.
2025
LazySlide: accessible and interoperable whole slide image analysis
Yimin Zheng,
Ernesto Abila,
Eva Chrenková,
Juliane Winkler,
André F. Rendeiro.
bioRxiv [Preprint]. 2025 Jun 01:2025.05.28.656548. doi: 10.1101/2025.05.28.656548.
2025
Simultaneous immunomodulation and epithelial-to-mesenchymal transition drives lung adenocarcinoma progression
Junbum Kim,
Hiranmayi Ravichandran,
Liron Yoffe,
Bhavneet Bhinder,
Kyle Finos,
Arshdeep Singh,
Bradley B Pua,
Stewart Bates,
Bevan Emma Huang,
Andre F Rendeiro,
Vivek Mittal,
Nasser K Altorki,
Timothy E McGraw,
Olivier Elemento.
bioRxiv [Preprint]. 2025 Feb 22:2025.02.19.637138. doi: 10.1101/2025.02.19.637138.
2025
Marsilea: an intuitive generalized paradigm for composable visualizations
Yimin Zheng,
Zhihang Zheng,
André F Rendeiro,
Edwin Cheung.
Genome Biol. 2025 Jan 6;26(1):5. doi: 10.1186/s13059-024-03469-3.
2024
Tissue clocks derived from histological signatures of biological aging enable tissue-specific aging predictions from blood
Ernesto Abila,
Iva Buljan,
Yimin Zheng,
Tamas Veres,
Zhilong Weng,
Maja Nackenhorst,
Wolfgang Hulla,
Yuri Tolkach,
Adelheid Wöhrer,
André F. Rendeiro.
bioRxiv [Preprint]. 2024 Nov 15:2024.11.14.618081. doi: 10.1101/2024.11.14.618081
2024
Pooled multicolour tagging for visualizing subcellular protein dynamics
Andreas Reicher,
Jiří Reiniš,
Maria Ciobanu,
Pavel Růžička,
Monika Malik,
Marton Siklos,
Victoria Kartysh,
Tatjana Tomek,
Anna Koren,
André F Rendeiro,
Stefan Kubicek.
Nat Cell Biol. 2024 May;26(5):745-756. doi: 10.1038/s41556-024-01407-w. Epub 2024 Apr 19.
2024
The evolution of metastatic upper tract urothelial carcinoma through genomic-transcriptomic and single-cell protein markers analysis
Kentaro Ohara,
André Figueiredo Rendeiro,
Bhavneet Bhinder,
Kenneth Wha Eng,
Hiranmayi Ravichandran,
Duy Nguyen,
David Pisapia,
Aram Vosoughi,
Evan Fernandez,
Kyrillus S Shohdy,
Jyothi Manohar,
Shaham Beg,
David Wilkes,
Brian D Robinson,
Francesca Khani,
Rohan Bareja,
Scott T Tagawa,
Madhu M Ouseph,
Andrea Sboner,
Olivier Elemento,
Bishoy M Faltas,
Juan Miguel Mosquera.
Nat Commun. 2024 Mar 18;15(1):2009. doi: 10.1038/s41467-024-46320-w.
2024
Transcriptomic signatures of progressive and regressive liver fibrosis and portal hypertension
Oleksandr Petrenko,
Philipp Königshofer,
Ksenia Brusilovskaya,
Benedikt S Hofer,
Katharina Bareiner,
Benedikt Simbrunner,
Frank Jühling,
Thomas F Baumert,
Joachim Lupberger,
Michael Trauner,
Stefan G Kauschke,
Larissa Pfisterer,
Eric Simon,
André F Rendeiro,
Laura P M H de Rooij,
Philipp Schwabl,
Thomas Reiberger.
iScience. 2024 Feb 20;27(3):109301. doi: 10.1016/j.isci.2024.109301. eCollection 2024 Mar 15.
