Single-cell genomics to comprehensively understand healthy B-cell maturation and transformation to chronic lymphocytic leukemia

Informazioni relative al progetto

BCLLatlas

ID dell’accordo di sovvenzione: 810287

DOI

10.3030/810287

Progetto chiuso

Data della firma CE 29 Marzo 2019

Data di avvio 1 Aprile 2019

Data di completamento 31 Dicembre 2025

Finanziato da

• EXCELLENT SCIENCE - European Research Council (ERC)

Costo totale

€ 8 333 331,00

Contributo UE

€ 8 333 331,00

Coordinato da

CONSORCIO PARA LA EXPLOTACION DEL CENTRO NACIONAL DE ANALISIS GENOMICO
Spain

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Pubblicazioni

Peer reviewed articles (25)

SPOTlight: seeded NMF regression to deconvolute spatial transcriptomics spots with single-cell transcriptomes

Autori: Marc Elosua-Bayes, Paula Nieto, Elisabetta Mereu, Ivo Gut, Holger Heyn
Pubblicato in: Nucleic Acids Research, Numero 49/9, 2021, Pagina/e e50-e50, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkab043

"CHROMATIN ACTIVATION PROFILING OF STEREOTYPED CHRONIC LYMPHOCYTIC LEUKEMIAS REVEALS A SUBSET #8 SPECIFIC SIGNATURE"

Autori: Maria Tsagiopoulou, Vicente Chapaprieta, Nuria Russiñol, Beatriz García-Torre, Nikolaos Pechlivanis, Ferran Nadeu, Nikos Papakonstantinou, Niki Stavroyianni, Anastasia Chatzidimitriou, Fotis Psomopoulos, Elías Campo, Kostas Stamatopoulos, Jose I. Martin-Subero
Pubblicato in: Blood, 2023, ISSN 0006-4971
Editore: American Society of Hematology
DOI: 10.1182/blood.2022016587

A Transcriptional Map of Human Tonsil Architecture: Beyond the Sum of (Single Cell) Parts

Autori: Helena L. Crowell, Laura Llaó‐Cid, Gerard Frigola, Samuel Gunz, Irene Ruano, Patricia Lorden, Max Ruiz, Marta Kulis, José Ignacio Martin‐Subero, Holger Heyn, Elias Campo, Anna Pascual‐Reguant
Pubblicato in: European Journal of Immunology, Numero 56, 2026, ISSN 0014-2980
Editore: John Wiley & Sons Ltd.
DOI: 10.1002/eji.70121

Increased LEF1 protein levels and isoform switching drive cell proliferation in chronic lymphocytic leukemia

Autori: Judith Mateos-Jaimez, Anna Vidal-Crespo, Stella Charalampopoulou, Raúl F. Pérez, Vicente Chapaprieta, Víctor Jiménez-Martínez, Liska Caviedes-Cárdenas, Martí Duran-Ferrer, Guadalupe Espadas, Eduard Sabidó, Anne Largeot, Sophie A. Herbst, Sascha Dietrich, Miguel Bastos Boente, Miguel Alcoceba, Ferran Nadeu, Ingo Ringshausen, Jerome Paggetti, Etienne Moussay, Dolors Colomer, Elias Campo, Alb
Pubblicato in: Blood, Numero 146, 2025, Pagina/e 3213-3227, ISSN 0006-4971
Editore: American Society of Hematology
DOI: 10.1182/blood.2025030129

The emerging landscape of spatial profiling technologies

Autori: Jeffrey R. Moffitt, Emma Lundberg, Holger Heyn
Pubblicato in: Nature Reviews Genetics, Numero 23, 2022, Pagina/e 741-759, ISSN 1471-0056
Editore: Nature Publishing Group
DOI: 10.1038/s41576-022-00515-3

Machine learning and multi-omics data in chronic lymphocytic leukemia: the future of precision medicine?

Autori: Maria Tsagiopoulou, Ivo G. Gut
Pubblicato in: Frontiers in Genetics, Numero 14, 2024, ISSN 1664-8021
Editore: Frontiers Media
DOI: 10.3389/fgene.2023.1304661

Detection of early seeding of Richter transformation in chronic lymphocytic leukemia

Autori: Ferran Nadeu, Romina Royo, Ramon Massoni-Badosa, Heribert Playa-Albinyana, Beatriz Garcia-Torre, Martí Duran-Ferrer, Kevin J. Dawson, Marta Kulis, Ander Diaz-Navarro, Neus Villamor, Juan L. Melero, Vicente Chapaprieta, Ana Dueso-Barroso, Julio Delgado, Riccardo Moia, Sara Ruiz-Gil, Domenica Marchese, Ariadna Giró, Núria Verdaguer-Dot, Mónica Romo, Guillem Clot, Maria Rozman, Gerard Frigola, Al
Pubblicato in: Nature Medicine, Numero 28, 2022, Pagina/e 1662-1671, ISSN 1078-8956
Editore: Nature Publishing Group
DOI: 10.1038/s41591-022-01927-8

Fluctuating DNA methylation tracks cancer evolution at clinical scale

Autori: Calum Gabbutt, Martí Duran-Ferrer, Heather E. Grant, Diego Mallo, Ferran Nadeu, Jacob Househam, Neus Villamor, Madlen Müller, Simon Heath, Emanuele Raineri, Olga Krali, Jessica Nordlund, Thorsten Zenz, Ivo G. Gut, Elias Campo, Armando Lopez-Guillermo, Jude Fitzgibbon, Chris P. Barnes, Darryl Shibata, José I. Martin-Subero, Trevor A. Graham
Pubblicato in: Nature, Numero 645, 2025, Pagina/e 764-773, ISSN 0028-0836
Editore: Nature Publishing Group
DOI: 10.1038/s41586-025-09374-4

Dual biological role and clinical impact of de novo chromatin activation in chronic lymphocytic leukemia

Autori: Vicente Chapaprieta, Alba Maiques-Diaz, Ferran Nadeu, Guillem Clot, Ramon Massoni-Badosa, Pablo Mozas, Judith Mateos-Jaimez, Anna Vidal, Stella Charalampopoulou, Martí Duran-Ferrer, Romina Royo, Núria Russiñol, Laura Llaó-Cid, Juan A. Piñeyroa, Neus Villamor, Holger Heyn, Sophie A. Herbst, Junyan Lu, Dean J. Bryant, Jonathan C. Strefford, Sascha Dietrich, Thorsten Zenz, Julio Delgado, Armando
Pubblicato in: Blood, Numero 145, 2025, Pagina/e 2473-2487, ISSN 0006-4971
Editore: American Society of Hematology
DOI: 10.1182/blood.2024025396

An atlas of cells in the human tonsil

Autori: Ramon Massoni-Badosa, Sergio Aguilar-Fernández, Juan C. Nieto, Paula Soler-Vila, Marc Elosua-Bayes, Domenica Marchese, Marta Kulis, Amaia Vilas-Zornoza, Marco Matteo Bühler, Sonal Rashmi, Clara Alsinet, Ginevra Caratù, Catia Moutinho, Sara Ruiz, Patricia Lorden, Giulia Lunazzi, Dolors Colomer, Gerard Frigola, Will Blevins, Lucia Romero-Rivero, Víctor Jiménez-Martínez, Anna Vidal, Judith Mate
Pubblicato in: Immunity, Numero 57, 2024, Pagina/e 379-399.e18, ISSN 1074-7613
Editore: Cell Press
DOI: 10.1016/j.immuni.2024.01.006

Sampling time-dependent artifacts in single-cell genomics studies

Autori: Ramon Massoni-Badosa, Giovanni Iacono, Catia Moutinho, Marta Kulis, Núria Palau, Domenica Marchese, Javier Rodríguez-Ubreva, Esteban Ballestar, Gustavo Rodriguez-Esteban, Sara Marsal, Marta Aymerich, Dolors Colomer, Elias Campo, Antonio Julià, José Ignacio Martín-Subero, Holger Heyn
Pubblicato in: Genome Biology, Numero 21/1, 2020, ISSN 1474-760X
Editore: BMC, Nature Publishing Group
DOI: 10.1186/s13059-020-02032-0

STAMP: Single-cell transcriptomics analysis and multimodal profiling through imaging

Autori: Emanuele Pitino, Anna Pascual-Reguant, Felipe Segato-Dezem, Kellie Wise, Irepan Salvador-Martinez, Helena Lucia Crowell, Maycon Marção, Max Ruiz, Elise Courtois, William F. Flynn, Santhosh Sivajothi, Emily Soja, Ginevra Caratù, German Atzin Mora-Roldan, B. Kate Dredge, Yutian Liu, Hannah Chasteen, Monika Mohenska, Juan C. Nieto, Raymond K.H. Yip, Ruvimbo D. Mishi, José M. Polo, Mohmed Abdalftt
Pubblicato in: Cell, Numero 188, 2026, Pagina/e 5100-5117.e26, ISSN 0092-8674
Editore: Cell Press
DOI: 10.1016/j.cell.2025.05.027

The proliferative history shapes the DNA methylome of B-cell tumors and predicts clinical outcome

Autori: Martí Duran-Ferrer, Guillem Clot, Ferran Nadeu, Renée Beekman, Tycho Baumann, Jessica Nordlund, Yanara Marincevic-Zuniga, Gudmar Lönnerholm, Alfredo Rivas-Delgado, Silvia Martín, Raquel Ordoñez, Giancarlo Castellano, Marta Kulis, Ana C. Queirós, Seung-Tae Lee, Joseph Wiemels, Romina Royo, Montserrat Puiggrós, Junyan Lu, Eva Giné, Sílvia Beà, Pedro Jares, Xabier Agirre, Felipe Prosper, Ca
Pubblicato in: Nature Cancer, Numero 1/11, 2020, Pagina/e 1066-1081, ISSN 2662-1347
Editore: Nature Publishing Group
DOI: 10.1038/s43018-020-00131-2

<i>BCL3</i> rearrangements in B-cell lymphoid neoplasms occur in two breakpoint clusters associated with different diseases

Autori: Anna Carbo-Meix, Francesca Guijarro, Luojun Wang, Marta Grau, Romina Royo, Gerard Frigola, Heribert Playa-Albinyana, Marco M. Buhler, Guillem Clot, Marti Duran-Ferrer, Junyan Lu, Isabel Granada, Maria-Joao Baptista, Jose-Tomas Navarro, Blanca Espinet, Anna Puiggros, Gustavo Tapia, Laura Bandiera, Gabriella De Canal, Emanuela Bonoldi, Fina Climent, Inmaculada Ribera-Cortada, Mariana Fernandez-Cabal
Pubblicato in: Haematologica, Numero 109, 2024, Pagina/e 493-508, ISSN 0390-6078
Editore: Ferrata Storti Foundation
DOI: 10.3324/haematol.2023.283209

Interpretable inflammation landscape of circulating immune cells

Autori: Laura Jiménez-Gracia, Davide Maspero, Sergio Aguilar-Fernández, Francesco Craighero, Maria Boulougouri, Max Ruiz, Domenica Marchese, Ginevra Caratù, Jose Liñares-Blanco, Miren Berasategi, Ricardo O. Ramirez Flores, Angela Sanzo-Machuca, Ana M. Corraliza, Hoang A. Tran, Rachelly Normand, Jacquelyn Nestor, Yourae Hong, Tessa Kole, Petra van der Velde, Frederique Alleblas, Flaminia Pedretti, Adri
Pubblicato in: Nature Medicine, Numero 32, 2026, Pagina/e 633-644, ISSN 1078-8956
Editore: Nature Publishing Group
DOI: 10.1038/s41591-025-04126-3

MYC target gene activation in chronic lymphocytic leukemia and richter transformation: links to aggressiveness and tumor microenvironment interactions

Autori: M. Tsagiopoulou, S. Rashmi, M. Chatziaslani, I. Gut
Pubblicato in: Frontiers in Pharmacology, Numero 16, 2025, ISSN 1663-9812
Editore: Frontiers Media S.A.
DOI: 10.3389/fphar.2025.1642458

IGLV3-21R110 mutation has prognostic value in patients with treatment-naive chronic lymphocytic leukemia

Autori: Charlotte Syrykh, Berta Pons-Brun, Núria Russiñol, Heribert Playa-Albinyana, Tycho Baumann, Martí Duran-Ferrer, Marta Kulis, Anna Carbó-Meix, Pablo Mozas, Miguel Alcoceba, Marcos González, Almudena Navarro-Bailón, Enrique Colado, Ángel R. Payer, Marta Aymerich, María J. Terol, Junyan Lu, Binyamin A. Knisbacher, Cynthia K. Hahn, Sílvia Ruiz-Gaspà, Anna Enjuanes, Catherine J. Wu, Gad Getz,
Pubblicato in: Blood Advances, Numero 7, 2023, Pagina/e 7384-7391, ISSN 2473-9529
Editore: American Society of Hematology
DOI: 10.1182/bloodadvances.2023010132

A method for multiplexed full-length single-molecule sequencing of the human mitochondrial genome

Autori: Ieva Keraite, Philipp Becker, Davide Canevazzi, Cristina Frias-López, Marc Dabad, Raúl Tonda-Hernandez, Ida Paramonov, Matthew John Ingham, Isabelle Brun-Heath, Jordi Leno, Anna Abulí, Elena Garcia-Arumí, Simon Charles Heath, Marta Gut, Ivo Glynne Gut
Pubblicato in: Nature Communications, Numero 13, 2022, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-022-33530-3

Multi-organ single-cell transcriptomics of immune cells uncovered organ-specific gene expression and functions

Autori: Maria Tsagiopoulou, Sonal Rashmi, Sergio Aguilar, Juan Nieto, Ivo G. Gut
Pubblicato in: Scientific Data, 2026, ISSN 2052-4463
Editore: Springer Nature
DOI: 10.1101/2023.05.29.542692

Robust CRISPR-Cas9 Genetic Editing of Primary Chronic Lymphocytic Leukemia and Mantle Cell Lymphoma Cells

Autori: Judith Mateos-Jaimez, Maurizio Mangolini, Anna Vidal, Marta Kulis, Dolors Colomer, Elias Campo, Ingo Ringshausen, Jose I. Martin-Subero, Alba Maiques-Diaz
Pubblicato in: HemaSphere, Numero 7, 2023, Pagina/e e909, ISSN 2572-9241
Editore: Wiley
DOI: 10.1097/hs9.0000000000000909

Spatiotemporal T-cell tracking for personalized T-cell receptor T-cell therapy designs in childhood cancer

Autori: I. Sentís, J.L. Melero, A. Cebria-Xart, M. Grzelak, M. Soto, A. Michel, Q. Rovira, C.J. Rodriguez-Hernandez, G. Caratù, A. Urpi, C. Sauvage, A. Mendizabal-Sasieta, D. Maspero, C.E. Lavarino, A. Pascual-Reguant, A. Castañeda Heredia, J.P. Muñoz Perez, J. Mora, A. Harari, J.C. Nieto, A. Avgustinova, H. Heyn
Pubblicato in: Annals of Oncology, Numero 36, 2025, Pagina/e 1096-1106, ISSN 0923-7534
Editore: Oxford University Press
DOI: 10.1016/j.annonc.2025.05.530

Systematic benchmarking of single-cell ATAC-sequencing protocols

Autori: Florian V. De Rop, Gert Hulselmans, Chris Flerin, Paula Soler-Vila, Albert Rafels, Valerie Christiaens, Carmen Bravo González-Blas, Domenica Marchese, Ginevra Caratù, Suresh Poovathingal, Orit Rozenblatt-Rosen, Michael Slyper, Wendy Luo, Christoph Muus, Fabiana Duarte, Rojesh Shrestha, S. Tansu Bagdatli, M. Ryan Corces, Lira Mamanova, Andrew Knights, Kerstin B. Meyer, Ryan Mulqueen, Akram Taheri
Pubblicato in: Nature Biotechnology, Numero 42, 2024, Pagina/e 916-926, ISSN 1087-0156
Editore: Nature Publishing Group
DOI: 10.1038/s41587-023-01881-x

IGLV3-21R110 identifies an aggressive biological subtype of chronic lymphocytic leukemia with intermediate epigenetics

Autori: Ferran Nadeu, Romina Royo, Guillem Clot, Martí Duran-Ferrer, Alba Navarro, Silvia Martín, Junyan Lu, Thorsten Zenz, Tycho Baumann, Pedro Jares, Xose S. Puente, José I. Martín-Subero, Julio Delgado, Elías Campo
Pubblicato in: Blood, Numero 137/21, 2021, Pagina/e 2935-2946, ISSN 0006-4971
Editore: American Society of Hematology
DOI: 10.1182/blood.2020008311

Identification of two epitypes of IGHV unmutated chronic lymphocytic leukemia with distinct B‐cell‐related epigenetic imprinting and genetic alterations

Autori: Stella Charalampopoulou, Silvia Ramos‐Campoy, Marti Duran‐Ferrer, Anna Puiggros, Joanna Kamaso, Florence Nguyen‐Khac, Gian Matteo Rigolin, Antonio Cuneo, Rosa Collado, Rocío García‐Serra, Claudia Haferlach, Margarita Ortega, Pau Abrisqueta, Francesc Bosch, Thorsten Zenz, María Laura Blanco, Rocío Salgado, Mª Dolores García‐Malo, Eva Gimeno, Armando Lopez‐Guillermo, Elias Campo, L
Pubblicato in: HemaSphere, Numero 10, 2026, ISSN 2572-9241
Editore: Wiley
DOI: 10.1002/hem3.70211

A single-cell tumor immune atlas for precision oncology

Autori: Paula Nieto, Marc Elosua-Bayes, Juan L. Trincado, Domenica Marchese, Ramon Massoni-Badosa, Maria Salvany, Ana Henriques, Juan Nieto, Sergio Aguilar-Fernández, Elisabetta Mereu, Catia Moutinho, Sara Ruiz, Patricia Lorden, Vanessa T. Chin, Dominik Kaczorowski, Chia-Ling Chan, Richard Gallagher, Angela Chou, Ester Planas-Rigol, Carlota Rubio-Perez, Ivo Gut, Josep M. Piulats, Joan Seoane, Joseph E. P
Pubblicato in: Genome Research, Numero 31/10, 2021, Pagina/e 1913-1926, ISSN 1088-9051
Editore: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.273300.120