Revealing the immune tumor microenvironment (iTME) in melanoma by multiplexed imaging

Project Information

ImageMelanoma

Grant agreement ID: 948811

DOI

10.3030/948811

Project closed

EC signature date 28 October 2020

Start date 1 January 2021

End date 30 June 2026

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 613 750,00

EU contribution

€ 1 613 750,00

Coordinated by

WEIZMANN INSTITUTE OF SCIENCE
Israel

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (11)

Immune profiling and tracking of two-dimensional transition metal dichalcogenides in cells and tissues

Author(s): Arianna Gazzi a 1, Laura Fusco a b 1, Marco Orecchioni c, Sandeep Keshavan d, Yuyoung Shin e, Jean-Charles Grivel f, Darawan Rinchai b, Eiman I. Ahmed b, Ofer Elhanani g, Giulia Furesi h, Martina Rauner i, Leeat Keren g, Klaus Ley c j, Cinzia Casiraghi e, Davide Bedognetti b k l, Bengt Fadeel d, Lucia Gemma Delogu
Published in: Nano Today, 2024, ISSN 1748-0132
Publisher: Elsevier BV
DOI: 10.1016/j.nantod.2023.102084

A spatial atlas of human gastrointestinal acute GVHD reveals epithelial and immune dynamics underlying disease pathophysiology

Author(s): Nofar Azulay, Idan Milo, Yuval Bussi, Raz Ben-Uri, Tal Keidar Haran, Michal Eldar, Ofer Elhanani, Yotam Harnik, Oran Yakubovsky, Ido Nachmany, Tomer-Meir Salame, Martin Wartenberg, Philippe Bertheau, David Michonneau, Gerard Socie, Leeat Keren
Published in: Science Translational Medicine, Issue 17, 2025, ISSN 1946-6234
Publisher: American Association for the Advancement of Science
DOI: 10.1126/scitranslmed.adu6032

From genes to modules, from cells to ecosystems

Author(s): Tal Keidar Haran, Leeat Keren
Published in: Molecular Systems Biology, 2022, ISSN 1744-4292
Publisher: Nature Publishing Group
DOI: 10.15252/msb.202110726

Spatial profiling technologies illuminate the tumor microenvironment

Author(s): Ofer Elhanani, Raz Ben-Uri, Leeat Keren
Published in: Cancer Cell, 2023, ISSN 1878-3686
Publisher: Cell Press
DOI: 10.1016/j.ccell.2023.01.010

CellSighter: a neural network to classify cells in highly multiplexed images

Author(s): Yael Amitay, Yuval Bussi, Ben Feinstein, Shai Bagon, Idan Milo & Leeat Keren
Published in: Nature Communications, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-40066-7

MAUI (MBI Analysis User Interface)-An image processing pipeline for Multiplexed Mass Based Imaging

Author(s): Alex Baranski, Idan Milo, Shirley Greenbaum, John-Paul Oliveria, Dunja Mrdjen, Michael Angelo and Leeat Keren
Published in: Plos Computational Biology, 2021, ISSN 1553-734X
Publisher: Public Library of Science
DOI: 10.1371/journal.pcbi.1008887

Immune Profiling and Multiplexed Label-Free Detection of 2D MXenes by Mass Cytometry and High-Dimensional Imaging

Author(s): Laura Fusco, Arianna Gazzi, Christopher E. Shuck, Marco Orecchioni, Dafne Alberti, Sènan Mickael D'Almeida, Darawan Rinchai, Eiman Ahmed, Ofer Elhanani, Martina Rauner, Barbara Zavan, Jean-Charles Grivel, Leeat Keren, Giulia Pasqual, Davide Bedognetti, Klaus Ley, Yury Gogotsi, Lucia Gemma Delogu
Published in: Advanced Materials, 2022, ISSN 0935-9648
Publisher: United Nations Industrial Developement Organization
DOI: 10.1002/adma.202205154

High-dimensional imaging using combinatorial channel multiplexing and deep learning

Author(s): Raz Ben-Uri, Lior Ben Shabat, Dana Shainshein, Omer Bar-Tal, Yuval Bussi, Noa Maimon, Tal Keidar Haran, Idan Milo, Inna Goliand, Yoseph Addadi, Tomer Meir Salame, Alexander Rochwarger, Christian M. Schürch, Shai Bagon, Ofer Elhanani, Leeat Keren
Published in: Nature Biotechnology, Issue 44, 2026, Page(s) 233-246, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/s41587-025-02585-0

Data modeling the interplay between single-cell shape, single-cell protein expression, and tissue state

Author(s): Yuval Tamir, Yuval Bussi, Claudia Owczarek, Luciana Luque, Giuseppe Torrisi, Leor Ariel Rose, Orit Kliper-Gross, Linus Schumacher, Maddy Parsons, Leeat Keren, Assaf Zaritsky
Published in: Cell Reports Methods, 2026, ISSN 2667-2375
Publisher: Elsevier

Multiplexed image analysis: what have we achieved and where are we headed?

Author(s): Yuval Bussi, Leeat Keren
Published in: Nature Methods, Issue 21, 2024, Page(s) 2212-2215, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-024-02539-5

CellTune: an integrative software for accurate cell classification in spatial proteomics

Author(s): Yuval Bussi, Dana Shainshein, Eli Ovits, Sarah Posner, Nofar Azulay, Noa Maimon, Tal Keidar Haran, Raz Ben-Uri, Caitlin Brown, Noam Schuldiner, Eylon Yaniv, David Van Valen, Idan Milo, Ofer Elhanani, Robert Schiemann, Leeat Keren
Published in: Nature Methods, Issue 23, 2026, Page(s) 1574-1587, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-026-03162-2

Conference proceedings (1)

Sampling-Aware 3D Spatial Analysis in Multiplexed Imaging

Author(s): Ido Harlev, Tamar Oukhanov, Raz Ben Uri, Leeat Keren, Shai Bagon
Published in: 2026
Publisher: CVPR
DOI: 10.48550/arxiv.2604.07890