An integrative approach for the exploration of melanoma genetic and immunological interactions

Project Information

MEL-Interactions

Grant agreement ID: 770854

DOI 10.3030/770854

Project closed

EC signature date 17 January 2018

Start date 1 October 2018

End date 30 September 2023

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 2 000 000,00

EU contribution € 2 000 000,00

Coordinated by

WEIZMANN INSTITUTE OF SCIENCE
Israel

Publications

Peer reviewed articles (22)

NRas activity is regulated by dynamic interactions with nanoscale signaling clusters at the plasma membrane

Author(s): Oren Yakovian, Julia Sajman, Michal Alon, Rand Arafeh, Yardena Samuels, Eilon Sherman*
Published in: iScience, Issue 25/11, 2022, ISSN 2589-0042
Publisher: Cell Press
DOI: 10.1016/j.isci.2022.105282

Anti-tumour immunity induces aberrant peptide presentation in melanoma

Author(s): Osnat Bartok, Abhijeet Pataskar, Remco Nagel, Maarja Laos, Eden Goldfarb, Deborah Hayoun, Ronen Levy, Pierre-Rene Körner, Inger Z M Kreuger, Julien Champagne, Esther A Zaal, Onno B Bleijerveld, Xinyao Huang, Juliana Kenski, Jennifer Wargo, Alexander Brandis, Yishai Levin, Orel Mizrahi, Michal Alon, Sacha LebonWeiwen Yang, Morten M Nielsen, Noam Stern-Ginossar, Maarten Altelaar, Celia R Berkers, T
Published in: Nature, Issue 590/7845, 2021, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-020-03054-1

Cross-Talk between Receptor Tyrosine Kinases AXL and ERBB3 Regulates Invadopodia Formation in Melanoma Cells

Author(s): Or-Yam Revach; Oded Sandler; Yardena Samuels; Benjamin Geiger
Published in: Cancer research , Issue 3, 2019, ISSN 0008-5472
Publisher: American Association for Cancer Research
DOI: 10.1158/0008-5472.can-18-2316

Cancer research in the era of immunogenomics

Author(s): Yochai Wolf, Yardena Samuels*
Published in: ESMO Open, Issue 3/7, 2018, ISSN 2059-7029
Publisher: Elsevier
DOI: 10.1136/esmoopen-2018-000475

The proteasome regulator PSME4 modulates proteasome activity and antigen diversity to abrogate antitumor immunity in NSCLC

Author(s): Aaron Javitt, Merav D. Shmueli*, Matthias P. Kramer, Aleksandra A. Kolodziejczyk, Ivan J. Cohen, Lihi Radomir, Daoud Sheban, Iris Kamer, Kevin Litchfield, Elizabeta Bab-Dinitz, Oranit Zadok, Vanessa Neiens, Adi Ulman, Hila Wolf-Levy, Avital Eisenberg-Lerner, Assaf Kacen, Michal Alon, Ana Toste Rêgo, Elvira Stacher-Priehse, Michael LindnerIna Koch, Jair Bar, Charles Swanton, Yardena Samuels, Yisha
Published in: Nature Cancer, Issue 4/5, 2023, ISSN 2662-1347
Publisher: Nature Research
DOI: 10.1038/s43018-023-00557-4

Large-Scale Immuno-Peptidome Analysis Reveals Recurrent Post-Translational Splicing of Cancer and Immune-Associated Genes

Author(s): Ronen Levy, Tal Alter Regev, Wayne Paes, Nofar Gumpert, Sapir Cohen Shvefel, Osnat Bartok, Maria Dayan-Rubinov, Michal Alon, MeravD Shmueli, Yishai Levin, Yifat Merbl, Nicola Ternette, Yardena Samuels*
Published in: Molecular & Cellular Proteomics, Issue 22/4, 2023, ISSN 1535-9484
Publisher: American Society for Biochemistry and Molecular Biology
DOI: 10.1016/j.mcpro.2023.100519

Identification of presented SARS-CoV-2 HLA class I and HLA class II peptides using HLA peptidomics

Author(s): Adi Nagler, Shelly Kalaora, Chaya Barbolin, Anastasia Gangaev, Steven L.C Ketelaars, Michal Alon, Joy Pai, Gil Benedek, Yfat Yahalom-Ronen, Noam Erez, Polina Greenberg, Gal Yagel, Aviyah Peri, Yishai Levin, Ansuman T Satpathy, Erez Bar-Haim, Nir Paran, Pia Kvistborg, Yardena Samuels*
Published in: Cell reports, Issue 35/13, 2021, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2021.109305

PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem.

Author(s): Erfan Sadeqi Azer; Farid Rashidi Mehrabadi; Farid Rashidi Mehrabadi; Salem Malikic; Xuan Cindy Li; Xuan Cindy Li; Osnat Bartok; Kevin Litchfield; Kevin Litchfield; Ronen Levy; Yardena Samuels; Alejandro A. Schäffer; E. Michael Gertz; Chi-Ping Day; Eva Pérez-Guijarro; Kerrie L. Marie; Maxwell P. Lee; Glenn Merlino; Funda Ergün; S. Cenk Sahinalp
Published in: Azer , E S , Mehrabadi , F R , Malikić , S , Li , X C , Bartok , O , Litchfield , K , Levy , R , Samuels , Y , Schäffer , A A , Gertz , M E , Day , C-P , Pérez-Guijarro , E , Marie , K , Lee , M P , Merlino , G , Ergun , F & Sahinalp , S C 2020 , ' PhISCS-BnB : a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem ' , Bioinformatics , vol. 36 , no. 1 , pp. i16, Issue 36/1, 2020, ISSN 1367-4811
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btaa464

Neoantigens in cancer immunotherapy: quantity vs. quality

Author(s): Yochai Wolf*, Yardena Sameuls*
Published in: Molecular Oncology, Issue 17/8, 2023, ISSN 1574-7891
Publisher: Elsevier BV
DOI: 10.1002/1878-0261.13483

PIK3CA in cancer: The past 30 years

Author(s): Rand Arafeh, Yardena Samuels
Published in: Seminars in Cancer Biology, Issue 29, 2019, ISSN 1044-579X
Publisher: Academic Press
DOI: 10.1016/j.semcancer.2019.02.002

Combined presentation and immunogenicity analysis reveals a recurrent RAS.Q61K neoantigen in melanoma

Author(s): Aviyah Peri, Erez Greenstein, Michal Alon, Joy A Pai, Tamir Dingjan, Shlomit Reich-Zeliger, Eilon Barnea, Chaya Barbolin, Ronen Levy, Claudia Arnedo-Pac, Shelly Kalaora, Bareket Dassa, Ester Feldmesser, Ping Shang, Polina Greenberg, Yishai Levin, Gil Benedek, Mitchell P Levesque, David J Adams, Michal LotemJames S Wilmott, Richard A Scolyer, Göran B Jönsson, Arie Admon, Steven A Rosenberg, Cyril
Published in: The Journal of Clinical Investigation, Issue 131/20, 2021, ISSN 0021-9738
Publisher: American Society for Clinical Investigation
DOI: 10.1172/jci129466

Identification of bacteria-derived HLA-bound peptides in melanoma

Author(s): Shelly Kalaora, Adi Nagler, Deborah Nejman, Michal Alon, Chaya Barbolin, Eilon Barnea, Steven L C Ketelaars, Kuoyuan Cheng, Kevin Vervier, Noam Shental, Yuval Bussi, Ron Rotkopf, Ronen Levy, Gil Benedek, Sophie Trabish, Tali Dadosh, Smadar Levin-Zaidman, Leore T Geller, Kun Wang, Polina GreenbergGal Yagel, Aviyah Peri, Garold Fuks, Neerupma Bhardwaj, Alexandre Reuben, Leandro Hermida, Sarah B John
Published in: Nature, Issue 592/7852, 2021, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-021-03368-8

The landscape of T cell antigens for cancer immunotherapy

Author(s): Aviyah Peri, Nadja Salomon, Yochai Wolf*, Sebastian Kreiter*, Mustafa Diken*, Yardena Samuels*
Published in: Nature Cancer, Issue 4/7, 2023, ISSN 2662-1347
Publisher: Nature Research
DOI: 10.1038/s43018-023-00588-x

Post-translational modifications reshape the antigenic landscape of the MHC I immunopeptidome in tumors

Author(s): Kacen, A., A. Javitt, M.P. Kramer, D. Morgenstern, T. Tsaban, M.D. Shmueli, G.C. Teo, F. da Veiga Leprevost, E. Barnea, F. Yu, A. Admon, L. Eisenbach, Y. Samuels, O. Schueler-Furman, Y. Levin, A.I. Nesvizhskii, and Y. Merbl.
Published in: Nature Biotechnology, Issue 41/2, 2022, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/s41587-022-01464-2

Exome Sequencing of ABCB5 Identifies Recurrent Melanoma Mutations that Result in Increased Proliferative and Invasive Capacities

Author(s): Géraldine Sana, James P. Madigan, Jared J. Gartner, Marie Fourrez, Jimmy Lin, Nouar Qutob, Jitendra Narayan, Suneet Shukla, Suresh V. Ambudkar, Di Xia, Steven A. Rosenberg, Michael M. Gottesman, Yardena Samuels, Jean-Pierre Gillet
Published in: Journal of Investigative Dermatology, Issue 139/9, 2019, Page(s) 1985-1992.e10, ISSN 0022-202X
Publisher: Blackwell Publishing Inc.
DOI: 10.1016/j.jid.2019.01.036

A genome‐wide CRISPR screen identifies FBXO42 involvement in resistance toward MEK inhibition in NRAS ‐mutant melanoma

Author(s): Adi Nagler, David W. Vredevoogd, Michal Alon, Phil F. Cheng, Sophie Trabish, Shelly Kalaora, Rand Arafeh, Victoria Goldin, Mitchell P. Levesque, Daniel S. Peeper, Yardena Samuels
Published in: Pigment Cell & Melanoma Research, Issue 33/2, 2020, Page(s) 334-344, ISSN 1755-1471
Publisher: Basil Blackwell
DOI: 10.1111/pcmr.12825

UVB-Induced Tumor Heterogeneity Diminishes Immune Response in Melanoma

Author(s): Yochai Wolf, Osnat Bartok, Sushant Patkar, Gitit Bar Eli, Sapir Cohen, Kevin Litchfield, Ronen Levy, Alejandro Jiménez-Sánchez, Sophie Trabish, Joo Sang Lee, Hiren Karathia, Eilon Barnea, Chi-Ping Day, Einat Cinnamon, Ilan Stein, Adam Solomon, Lital Bitton, Eva Pérez-Guijarro, Tania Dubovik, Shai S. Shen-Orr, Martin L. Miller, Glenn Merlino, Yishai Levin, Eli Pikarsky, Lea Eisenbach, Arie Admon
Published in: Cell, Issue 179/1, 2019, Page(s) 219-235.e21, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2019.08.032

Immunoproteasome expression is associated with better prognosis and response to checkpoint therapies in melanoma

Author(s): Shelly Kalaora, Joo Sang Lee, Eilon Barnea, Ronen Levy, Polina Greenberg, Michal Alon, Gal Yagel, Gitit Bar Eli, Roni Oren, Aviyah Peri, Sushant Patkar, Lital Bitton, Steven A. Rosenberg, Michal Lotem, Yishai Levin, Arie Admon, Eytan Ruppin, Yardena Samuels
Published in: Nature Communications, Issue 11/1, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-14639-9

Mechanisms of immune activation and regulation: lessons from melanoma

Author(s): Shelly Kalaora, Adi Nagler, Jennifer A Wargo, Yardena Samuels*
Published in: Nature reviews. Cancer, Issue 22/4, 2022, ISSN 1474-175X
Publisher: Nature Publishing Group
DOI: 10.1038/s41568-022-00442-9

MEK inhibition reverses aberrant signaling in melanoma cells through reorganization of NRas and BRAF in self nano-clusters

Author(s): Oren Yakovian; Julia Sajman; Rand Arafeh; Yair Neve-Oz; Michal Alon; Yardena Samuels; Eilon Sherman
Published in: Cancer Research, Issue 81/5, 2021, ISSN 0008-5472
Publisher: American Association for Cancer Research
DOI: 10.1158/0008-5472.can-20-1205

Melanoma models for the next generation of therapies

Author(s): E. Elizabeth Patton*, Kristen L. Mueller, David J. Adams, Niroshana Anandasabapathy, Andrew E. Aplin, Corine Bertolotto, Marcus Bosenberg, Craig J. Ceol, Ping Chi, Meenhard Herlyn, Sheri L. Holmen, Florian A. Karreth, Charles K. Kaufman, Shaheen Khan, Sebastian Kobold, Eleonora Leucci, Carmit Levy, David B. Lombard, Amanda W. Lund, Kerrie L. MarieJean Christophe Marine, Richard Marais, Martin McMa
Published in: Cancer Cell, 2021, ISSN 1535-6108
Publisher: Cell Press
DOI: 10.1016/j.ccell.2021.01.011

Intratumor heterogeneity and anti-tumor immunity shape one another bidirectionally

Author(s): Yochai Wolf*, Yardena Samuels*
Published in: Clinical Cancer Research, Issue 28/14, 2022, ISSN 1078-0432
Publisher: American Association for Cancer Research
DOI: 10.1158/1078-0432.ccr-21-1355