Institutional selected publications

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

Fernández-Torras, A; Duran-Frigola, M; Bertoni, M; Locatelli, M; Aloy, P

Nature Communications

(1 )

5304 -

(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 -

(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)

The impact of rare germline variants on human somatic mutation processes

Vali-Pour, M; Lehner, B; Supek, F

Nature Communications

(1 )

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

Levati, J; Salvadores, M; Fuster-Tormo, F; Supek, F

Nature Communications

(1 )

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; Canellas-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; van Bueren, JJL; Chicote, I; Serna, G; Cabellos, L; Ramirez, L; Nuciforo, P; Salazar, R;...

Nature Cancer

(4 )

418 -

(2022)

Overcoming TGF beta-mediated immune evasion in cancer

Tauriello, DVF; Sancho, E; Batlle, E

Nature Reviews Cancer

(1 )

25 -

(2022)

Dietary palmitic acid promotes a prometastatic memory via Schwann cells

Pascual, G; Dominguez, D; Elosua-Bayes, M; Beckedorff, F; Laudanna, C; Bigas, C; Douillet, D; Greco, C; Symeonidi, A; Hernandez, I; Gil, SR; Prats, N; Bescos, C; Shiekhattar, R; Amit, M; Heyn, H; Shilatifard, A; Benitah, SA

Nature

599

(7885 )

485 -

(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)

Mitochondrial dynamics and liver cancer

Hernández-Alvarez, MI; Zorzano, A

Cancers

(11 )

2571 -

(2021)

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

Rol, A; 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 )

- -

(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; Attolini, CSO; Fernandez, AF; Sierra, MI; Fraga, MF; Pastor,...

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; Alvarez-Varela, A; Cortina, C; Stork, D; Slebe, F; Turon, G; Whissell, G; Sevillano, M; Merlos-Suárez, A; Casanova-Martí, A; 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, R; Martín, J; Salvador, F; Reina, O; Chanes, V; Millanes-Romero, A; Suñer, C; Fernández-Miranda, G; Bartomeu, A; Huang, YS; Gomis, RR; Méndez, R

Science Advances

(20 )

eaax3868 -

(2020)

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

Cabre, A; Rafael, S; Sciortino, G; Ujaque, G; Verdaguer, X; Lledos, 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

Hernández-Alvarez, MI; Sebastián, D; Vives, S; Ivanova, S; Bartoccioni, P; Kakimoto, P; Plana, N; Veiga, SR; Hernández, V; Vasconcelos, N; Peddinti, G; Adrover, A; Jové, M; Pamplona, R; Gordaliza-Alaguero, I; Calvo, E; Cabré, N; Castro, R; Kuzmanic, A; Boutant, M; Sala, D; Hyotylainen, T; Oresic, M; Fort, J; Errasti-Murugarren, E;...

Cell

177

(4 )

881 -

(2019)

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

Eftekharzadeh, B; Banduseela, VC; Chiesa, G; Martínez-Cristóbal, P; Rauch, JN; Nath, SR; Schwarz, DMC; Shao, H; Marin-Argany, M; Di Sanza, C; Giorgetti, E; Yu, ZG; Pieratelli, R; Felli, IC; Brun-Heath, I; García, J; Nebreda, AR; Gestwicki, JE; Lieberman, AP; 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, MP; 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, DM; Cuervo, A; Carrascosa, JL; Stuart, DI; 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, JJ; Fernández, FJ; Pérez-Luque, R; Pérez-Ruiz, M; Pous, J; Vega, MC; Carrascosa, JL; 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, MBA; Aranda, J; Chiesa, G; Mungianu, D; Bernardo-Seisdedos, G; Eftekharzadeh, B; Gairí, M; Pierattelli, R; Felli, IC; Diercks, T; Millet, O; García, J; Orozco, M; Crehuet, R; Lindorff-Larsen, K; Salvatella, X

Nature Communications

(- )

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

(- )

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; de Pouplana, LR

Cell Reports

(1 )

40 -

(2019)

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

Kuzmanic, A; Dans, PD; Orozco, M

Chem

(3 )

649 -

663

(2019)

Chromosomal Instability Induces Cellular Invasion in Epithelial Tissues

Benhra, N; Barrio, L; Muzzopappa, M; Milán, M

Developmental Cell

(2 )

161 -

(2018)

Somatic and Germline Mutation Periodicity Follow the Orientation of the DNA Minor Groove around Nucleosomes

Pich, O; Muiños, F; Sabarinathan, R; Reyes-Salazar, I; Gonzalez-Perez, A; Lopez-Bigas, N

Cell

175

(4 )

1074 -

(2018)

TP53INP2 regulates adiposity by activating β-catenin through autophagy-dependent sequestration of GSK3β

Romero, M; Sabaté-Pérez, A; Francis, VA; Castrillón-Rodriguez, I; Díaz-Ramos, A; Sánchez-Feutrie, M; Durán, X; Palacín, M; Moreno-Navarrete, JM; Gustafson, B; Hammarstedt, A; Fernández-Real, JM; Vendrell, J; Smith, U; Zorzano, A

Nature Cell Biology

(4 )

443 -

(2018)

Multiple signaling kinases target Mrc1 to prevent genomic instability triggered by transcription-replication conflicts

Duch A; Canal B; Barroso S; García-Rubio M; Seisenbacher G; Aguilera A; De Nadal E; Posas F

Nature Communications

(1 )

379 -

(2018)