Institutional selected publications

Cellular senescence is immunogenic and promotes anti-tumor immunity

Marin I, Boix O, Garcia-Garijo A, Sirois I, Caballe A, Zarzuela E, Ruano I, Attolini CS, Prats N, López-Domínguez JA, Kovatcheva M, Garralda E, Muñoz J, Caron E, Abad M, Gros A, Pietrocola F, Serrano M

Cancer Discovery

(2 )

410 -

431

(2023)

Metastatic recurrence in colorectal cancer arises from residual EMP1+ cells

Cañellas-Socias A, Cortina C, Hernando-Momblona X, Palomo-Ponce S, Mulholland EJ, Turon G, Mateo L, Conti S, Roman O, Sevillano M, Slebe F, Stork D, Caballé-Mestres A, Berenguer-Llergo A, Álvarez-Varela A, Fenderico N, Novellasdemunt L, Jiménez-Gracia L, Sipka T, Bardia L, Lorden P, Colombelli J, Heyn H, Trepat X, Tejpar S, Sancho E, Tauriello DVF, Leedham S, Attolini CS, Batlle E

Nature

611

(7936 )

603 -

613

(2022)

Integrating and formatting biomedical data as pre-calculated knowledge graph embeddings in the Bioteque

Fernández-Torras, Adrià; Duran-Frigola, Miquel; Bertoni, Martino; Locatelli, Martina; Aloy, Patrick

Nature Communications

(1 )

5304 -

(2022)

Comparative analyses of vertebrate CPEB proteins define two subfamilies with coordinated yet distinct functions in post-transcriptional gene regulation

Duran-Arqué, Berta; Cañete, Manuel; Castellazzi, Chiara Lara; Bartomeu, Anna; Ferrer-Caelles, Anna; Reina, Oscar; Caballé, Adrià; Gay, Marina; Arauz-Garofalo, Gianluca; Belloc, Eulalia; Mendez, Raúl

Genome Biology

(1 )

192 -

(2022)

Lysine 27 dimethylation of <i>Drosophila</i> linker histone dH1 contributes to heterochromatin organization independently of H3K9 methylation

Bernués, Jordi; Izquierdo-Boulstridge, Andrea; Reina, Oscar; Castejón, Lucía; Fernández-Castañer, Elena; Leal, Núria; Guerrero-Pepinosa, Nancy; Bonet-Costa, Carles; Vujatovic, Olivera; Climent-Cantó, Paula; Azorín, Fernando

Nucleic Acids Research

(16 )

9212 -

9225

(2022)

DNAffinity: a machine-learning approach to predict DNA binding affinities of transcription factors

Barissi S, Sala A, Wieczór M, Battistini F, Orozco M

Nucleic Acids Research

(16 )

9105 -

9114

(2022)

Discovering the drivers of clonal hematopoiesis

Pich, O; Reyes-Salazar, I; Gonzalez-Perez, A; Lopez-Bigas, N

Nature Communications

(1 )

4267 -

(2022)

A single WNT enhancer drives specification and regeneration of the Drosophila wing

Gracia-Latorre E, Pérez L, Muzzopappa M, Milán M

Nature Communications

(1 )

4794 -

4794

(2022)

TP53-dependent toxicity of CRISPR/Cas9 cuts is differential across genomic loci and can confound genetic screening

Alvarez, MM; Biayna, J; Supek, F

Nature Communications

(1 )

4520 -

(2022)

PerSVade: personalized structural variant detection in any species of interest

Schikora-Tamarit, Miquel Àngel; Gabaldón, Toni

Genome Biology

(1 )

175 -

(2022)

The impact of rare germline variants on human somatic mutation processes

Vali-Pour M, Park S, Espinosa-Carrasco J, Ortiz-Martínez D, Lehner B, Supek F

Nature Communications

(1 )

3724 -

3724

(2022)

Mex3a marks drug-tolerant persister colorectal cancer cells that mediate relapse after chemotherapy

Alvarez-Varela, A; Novellasdemunt, L; Barriga, FM; Hernando-Momblona, X; Canellas-Socias, A; Cano-Crespo, S; Sevillano, M; Cortina, C; Stork, D; Morral, C; Turon, G; Slebe, F; Jimenez-Gracia, L; Caratu, G; Jung, P; Stassi, G; Heyn, H; Tauriello, DVF; Mateo, L; Tejpar, S; Sancho, E; Attolini, CSO; Batlle, E

Nature Cancer

(9 )

1052 -

(2022)

Mutational signatures are markers of drug sensitivity of cancer cells

Levatić J, Salvadores M, Fuster-Tormo F, Supek F

Nature Communications

(1 )

2926 -

2926

(2022)

Functional patient-derived organoid screenings identify MCLA-158 as a therapeutic EGFR × LGR5 bispecific antibody with efficacy in epithelial tumors

Herpers B, Eppink B, James MI, Cortina C, Cañellas-Socias A, Boj SF, Hernando-Momblona X, Glodzik D, Roovers RC, van de Wetering M, Bartelink-Clements C, Zondag-van der Zande V, Mateos JG, Yan K, Salinaro L, Basmeleh A, Fatrai S, Maussang D, Lammerts van Bueren JJ, Chicote I, Serna G, Cabellos L, Ramírez L, Nuciforo P, Salazar R, Santos C, Villanueva A, Stephan-Otto Attolini C, Sancho E, Palmer HG, Tabernero J, Stratton MR, de Kruif J, Logtenberg T, Clevers H, Price LS, Vries RGJ, Batlle E, Throsby M

Nature Cancer

(4 )

418 -

(2022)

Overcoming TGF beta-mediated immune evasion in cancer

Tauriello, DVF; Sancho, E; Batlle, E

Nature Reviews Cancer

(1 )

25 -

(2021)

The viral nucleocapsid protein and the human RNA-binding protein Mex3A promote translation of the Andes orthohantavirus small mRNA

Vera-Otarola, J; Castillo-Vargas, E; Angulo, J; Barriga, FM; Batlle, E; Lopez-Lastra, M

Plos Pathogens

(9 )

e1009931 -

(2021)

In silico saturation mutagenesis of cancer genes

Muiños F; Martínez-Jiménez F; Pich O; Gonzalez-Perez A; Lopez-Bigas N

Nature

596

(7872 )

428 -

(2021)

Proteostasis failure and mitochondrial dysfunction leads to aneuploidy-induced senescence

Joy, J; Barrio, L; Santos-Tapia, C; Romao, D; Giakoumakis, NN; Clemente-Ruiz, M; Milan, M

Developmental Cell

(14 )

2043 -

(2021)

Bioactivity descriptors for uncharacterized chemical compounds

Bertoni M; Duran-Frigola M; Badia-i-Mompel P; Pauls E; Orozco-Ruiz M; Guitart-Pla O; Alcalde V; Diaz VM; Berenguer-Llergo A; Brun-Heath I; Villegas N; de Herreros AG; Aloy P

Nature Communications

(1 )

3932 -

(2021)

Structure-based design of a Cortistatin analogue with immunomodulatory activity in models of inflammatory bowel disease

Rol Á; Todorovski T; Martin-Malpartida P; Escolà A; Gonzalez-Rey E; Aragón E; Verdaguer X; Vallès-Miret M; Farrera-Sinfreu J; Puig E; Fernández-Carneado J; Ponsati B; Delgado M; Riera A; Macias MJ

Nature Communications

(1 )

1869 -

(2021)

Candida pathogens induce protective mitochondria-associated type I interferon signalling and a damage-driven response in vaginal epithelial cells

Pekmezovic M; Hovhannisyan H; Gresnigt MS; Iracane E; Oliveira-Pacheco J; Siscar-Lewin S; Seemann E; Qualmann B; Kalkreuter T; Müller S; Kamradt T; Mogavero S; Brunke S; Butler G; Gabaldón T; Hube B

Nature Microbiology

(5 )

643 -

(2021)

Timing the origin of eukaryotic cellular complexity with ancient duplications

Vosseberg J; van Hooff JJE; Marcet-Houben M; van Vlimmeren A; van Wijk LM; Gabaldón T; Snel B

Nature Ecology & Evolution

(1 )

92 -

100

(2021)

Systematic analysis of alterations in the ubiquitin proteolysis system reveals its contribution to driver mutations in cancer

Martinez-Jimenez, F; Muinos, F; Lopez-Arribillaga, E; Lopez-Bigas, N; Gonzalez-Perez, A

Nature Cancer

(1 )

122 -

(2020)

Assembly of the asymmetric human γ-tubulin ring complex by RUVBL1-RUVBL2 AAA ATPase

Zimmermann F; Serna M; Ezquerra A; Fernandez-Leiro R; Llorca O; Luders J

Science Advances

(51 )

eabe0894 -

(2020)

Global hyperactivation of enhancers stabilizes human and mouse naive pluripotency through inhibition of CDK8/19 Mediator kinases

Lynch CJ; Bernad R; Martínez-Val A; Shahbazi MN; Nóbrega-Pereira S; Calvo I; Blanco-Aparicio C; Tarantino C; Garreta E; Richart-Ginés L; Alcazar N; Graña-Castro O; Gómez-Lopez G; Aksoy I; Muñoz-Martín M; Martinez S; Ortega S; Prieto S; Simboeck E; Camasses A; Stephan-Otto Attolini C; Fernandez AF; Sierra MI; Fraga MF; Pastor J; Fisher D; Montserrat N; Savatier P; Muñoz J; Zernicka-Goetz M; Serrano M

Nature Cell Biology

(10 )

1223 -

(2020)

Discovery of EMRE in fungi resolves the true evolutionary history of the mitochondrial calcium uniporter

Pittis AA; Goh V; Cebrian-Serrano A; Wettmarshausen J; Perocchi F; Gabaldón T

Nature Communications

(1 )

4031 -

(2020)

DNA mismatch repair promotes APOBEC3-mediated diffuse hypermutation in human cancers

Mas-Ponte D; Supek F

Nature Genetics

(9 )

958 -

(2020)

Extending the small-molecule similarity principle to all levels of biology with the Chemical Checker

Duran-Frigola, M; Pauls, E; Guitart-Pla, O; Bertoni, M; Alcalde, V; Amat, D; Juan-Blanco, T; Aloy, P

Nature Biotechnology

(9 )

1087 -

(2020)

Zonation of Ribosomal DNA Transcription Defines a Stem Cell Hierarchy in Colorectal Cancer

Morral C; Stanisavljevic J; Hernando-Momblona X; Mereu E; Álvarez-Varela A; Cortina C; Stork D; Slebe F; Turon G; Whissell G; Sevillano M; Merlos-Suárez A; Casanova-Martí À; Moutinho C; Lowe SW; Dow LE; Villanueva A; Sancho E; Heyn H; Batlle E

Cell Stem Cell

(6 )

845 -

(2020)

The RNA binding protein CPEB2 regulates hormone sensing in mammary gland development and luminal breast cancer

Pascual, Rosa; Martin, Judit; Salvador, Fernando; Reina, Oscar; Chanes, Veronica; Millanes-Romero, Alba; Suner, Clara; Fernandez-Miranda, Gonzalo; Bartomeu, Anna; Huang, Yi-Shuian; Gomis, Roger R; Mendez, Raul

Science Advances

(20 )

eaax3868 -

(2020)

Catalytic Regioselective Isomerization of 2,2-Disubstituted Oxetanes to Homoallylic Alcohols

Cabré A; Rafael S; Sciortino G; Ujaque G; Verdaguer X; Lledós A; Riera A

Angewandte Chemie (International Ed. Print)

(19 )

7521 -

7527

(2020)

Regulation of Anisotropic Tissue Growth by Two Orthogonal Signaling Centers

Barrio L; Milán M

Developmental Cell

(5 )

659 -

(2020)

Deficient Endoplasmic Reticulum-Mitochondrial Phosphatidylserine Transfer Causes Liver Disease

Isabel Hernandez-Alvarez, Maria; Sebastian, David; Vives, Sara; Ivanova, Saska; Bartoccioni, Paola; Kakimoto, Pamela; Plana, Natalia; Veiga, Sonia R.; Hernandez, Vanessa; Vasconcelos, Nuno; Peddinti, Gopal; Adrover, Anna; Jove, Mariona; Pamplona, Reinald; Gordaliza-Alaguero, Isabel; Calvo, Enrique; Cabre, Noemi; Castro, Rui; Kuzmanic, Antonija; Boutant, Marie; Sala, David; Hyotylainen, Tuulia; Oresic, Matej; Fort, Joana; Errasti-Murugarren, Ekaitz; Rodrigues, Cecilia M. P.; Orozco, Modesto; Joven, Jorge; Canto, Carles; Palacin, Manuel; Fernandez-Veledo, Sonia; Vendrell, Joan; Zorzano, Antonio;

Cell

177

(4 )

881 -

(2019)

Hsp70 and Hsp40 inhibit an inter-domain interaction necessary for transcriptional activity in the androgen receptor

Eftekharzadeh B; Banduseela V; Chiesa G; Martínez-Cristóbal P; Rauch J; Nath S; Schwarz D; Shao H; Marin-Argany M; Di Sanza C; Giorgetti E; Yu Z; Pieratelli R; Felli I; Brun-Heath I; García J; Nebreda Á; Gestwicki J; Lieberman A; Salvatella X

Nature Communications

(1 )

3562 -

(2019)

Evolutionary and functional patterns of shared gene neighbourhood in fungi

Marcet-Houben M; Gabaldón T

Nature Microbiology

(12 )

2383 -

2392

(2019)

The mutational footprints of cancer therapies

Pich O; Muiños F; Lolkema M; Steeghs N; Gonzalez-Perez A; Lopez-Bigas N

Nature Genetics

(12 )

1732 -

(2019)

The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy

Lindeboom RGH; Vermeulen M; Lehner B; Supek F

Nature Genetics

(11 )

1645 -

(2019)

Atomic structure of the Epstein-Barr virus portal

Machón C; Fàbrega-Ferrer M; Zhou D; Cuervo A; Carrascosa J; Stuart D; Coll M

Nature Communications

(1 )

3891 -

(2019)

Structures of T7 bacteriophage portal and tail suggest a viral DNA retention and ejection mechanism

Cuervo A; Fàbrega-Ferrer M; Machón C; Conesa J; Fernández F; Pérez-Luque R; Pérez-Ruiz M; Pous J; Vega M; Carrascosa J; Coll M

Nature Communications

(1 )

3746 -

(2019)

An artificial DNAzyme RNA ligase shows a reaction mechanism resembling that of cellular polymerases

Aranda J; Terrazas M; Gómez H; Villegas N; Orozco M

Nature Catalysis

(6 )

544 -

552

(2019)

The Origins and the Biological Consequences of the Pur/Pyr DNA·RNA Asymmetry

Terrazas M; Genna V; Portella G; Villegas N; Sánchez D; Arnan C; Pulido-Quetglas C; Johnson R; Guigó R; Brun-Heath I; Aviñó A; Eritja R; Orozco M

Chem

(6 )

1619 -

1631

(2019)

Side chain to main chain hydrogen bonds stabilize a polyglutamine helix in a transcription factor

Escobedo A; Topal B; Kunze M; Aranda J; Chiesa G; Mungianu D; Bernardo-Seisdedos G; Eftekharzadeh B; Gairí M; Pierattelli R; Felli I; Diercks T; Millet O; García J; Orozco M; Crehuet R; Lindorff-Larsen K; Salvatella X

Nature Communications

(1 )

2034 -

(2019)

L amino acid transporter structure and molecular bases for the asymmetry of substrate interaction

Errasti-Murugarren E; Fort J; Bartoccioni P; Díaz L; Pardon E; Carpena X; Espino-Guarch M; Zorzano A; Ziegler C; Steyaert J; Fernández-Recio J; Fita I; Palacín M

Nature Communications

(1 )

1807 -

(2019)

Mitochondrial Protein Synthesis and mtDNA Levels Coordinated through an Aminoacyl-tRNA Synthetase Subunit

Picchioni D; Antolin-Fontes A; Camacho N; Schmitz C; Pons-Pons A; Rodríguez-Escribà M; Machallekidou A; Güler MN; Siatra P; Carretero-Junquera M; Serrano A; Hovde SL; Knobel PA; Novoa EM; Solà-Vilarrubias M; Kaguni LS; Stracker TH; Ribas de Pouplana L

Cell Reports

(1 )

40 -

(2019)

An In-Depth Look at DNA Crystals through the Prism of Molecular Dynamics Simulations

Kuzmanic A; Dans P; Orozco M

Chem

(3 )

649 -

663

(2019)