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Clinical and Translational Bioinformatics

In 2023, our group made significant progress in developing Artificial Intelligence tools to unravel the molecular basis of hereditary diseases. A standout accomplishment was our participation in the CAGI 6 international contest, where our pathogenicity predictor prototype achieved a top-ranking position, accurately scoring variants linked to Metachromatic leukodystrophy. This success not only showcased our expertise but also drew international attention, leading to strategic collaborations with leading groups in the molecular diagnosis of hereditary diseases. Notably, we welcomed a Ph.D. student from the Tel Aviv Medical School to work on applying our technology to hereditary deafness. Additionally, we established a collaboration with the HCEMM in Hungary, focusing on the study of cancer-related protein sequence variants. These partnerships underscore our group’s growing influence and pivotal contributions to the fight against hereditary diseases through innovative AI applications.

eCORE

  • Cancer
  • Personalized Medicine, Innovative Diagnostics, Molecular Imaging & Digital Health

Team

Group Leader
Fco. Xavier De la Cruz Montserrat

Researchers
Natàlia Padilla Sirera

PhD Students
Selen Özkan, Shaopei Ye

Publications

4
Publications
100.0
%Q1
39.90
Impact Factor
9.98
Average Impact Factor

Sheppard SE, Bryant L, Wickramasekara RN, Vaccaro C, Robertson B, Hallgren J, Hulen J, Watson CJ, Faundes V, Duffourd Y, Lee P, Simon MC, de la Cruz X, Padilla N, Flores-Mendez M, Akizu N, Smiler J, Pellegrino Da Silva , Li D, March M, Diaz-Rosado A, Peixoto de Barcelos , Choa ZX, Lim CY, Dubourg C, Journel H, Demurger F, Mulhern M, Akman C, Lippa N, Andrews M, Baldridge D, Constantino J, van Haeringen A, Snoeck-Streef I, Chow P, Hing A, Graham JM Jr, Au M, Faivre L, Shen W, Mao R, Palumbos J, Viskochil D, Gahl W, Tifft C, Macnamara E, Hauser N, Miller R, Maffeo J, Afenjar A, Doummar D, Keren B, Arn P, Macklin-Mantia S, Meerschaut I, Callewaert B, Reis A, Zweier C, Brewer C, Saggar A, Smeland MF, Kumar A, Elmslie F, Deshpande C, Nizon M, Cogne B, van Ierland Y, Wilke M, van Slegtenhorst M, Koudijs S, Chen JY, Dredge D, Pier D, Wortmann S, Kamsteeg EJ, Koch J, Haynes D, Pollack L, Titheradge H, Ranguin K, Denomme-Pichon AS, Weber S, Perez de la Fuente R, Sanchez Del Pozo J, Lezana Rosales JM, Joset P, Steindl K, Rauch A, Mei D, Mari F, Guerrini R, Lespinasse J, Tran Mau-Them F, Philippe C, Dauriat B, Raymond L, Moutton S, Cueto-Gonzalez AM, Tan TY, Mignot C, Grotto S, Renaldo F, Drivas TG, Hennessy L, Raper A, Parenti I, Kaiser FJ, Kuechler A, Busk OL, Islam L, Siedlik JA, Henderson LB, Juusola J, Person R, Schnur RE, Vitobello A, Banka S, Bhoj EJ, Stessman HAF
Mechanism of KMT5B haploinsufficiency in neurodevelopment in humans and mice
Sci Adv. 2023 10;9(10):eade1463
DOI: 10.1126/sciadv.ade1463
IF: 13.6

Gracia-Diaz C, Zhou Y, Yang Q, Maroofian R, Espana-Bonilla P, Lee CH, Zhang S, Padilla N, Fueyo R, Waxman EA, Lei S, Otrimski G, Li D, Sheppard SE, Mark P, Harr MH, Hakonarson H, Rodan L, Jackson A, Vasudevan P, Powel C, Mohammed S, Maddirevula S, Alzaidan H, Faqeih EA, Efthymiou S, Turchetti V, Rahman F, Maqbool S, Salpietro V, Ibrahim SH, di Rosa G, Houlden H, Alharbi MN, Al-Sannaa NA, Bauer P, Zifarelli G, Estaras C, Hurst ACE, Thompson ML, Chassevent A, Smith-Hicks CL, de la Cruz X, Holtz AM, Elloumi HZ, Hajianpour MJ, Rieubland C, Braun D, Banka S, French DL, Heller EA, Saade M, Song H, Ming GL, Alkuraya FS, Agrawal PB, Reinberg D, Bhoj EJ, Martinez-Balbas MA, Akizu N
Gain and loss of function variants in EZH1 disrupt neurogenesis and cause dominant and recessive neurodevelopmental disorders.
Nat Commun. 2023 14(1):4109
DOI: 10.1038/s41467-023-39645-5
IF: 16.6

Aguirre J, Padilla N, Ozkan S, Riera C, Feliubadalo L, de la Cruz X
Choosing Variant Interpretation Tools for Clinical Applications: Context Matters
Int J Mol Sci. 2023 24(14):11872
DOI: 10.3390/ijms241411872
IF: 5.6

Porras LM, Padilla N, Moles-Fernandez A, Feliubadalo L, Santamarina-Pena M, Sanchez AT, Lopez-Novo A, Blanco A, Hoya M, Molina IJ, Osorio A, Pineda M, Rueda D, Ruiz-Ponte C, Vega A, Lazaro C, Diez O, Gutierrez-Enriquez S, Cruz X Padilla N, Blanco A, Diez O, Gutierrez-Enriquez S, Cruz X
A new set of in silico tools to support the interpretation of ATM missense variants using graphical analysis
J Mol Diagn. 2023 S1525-1578(23)00243-X
DOI: 10.1016/j.jmoldx.2023.09.009
IF: 4.1

Projects

Avanzando hacia el diagnóstico de precisión a través de la comprensión mecanística de las patologías: de la interpretación de variantes a la identificación del perfil celular.
Principal Investigator: Fco. Javier de la Cruz Montserrat
Agency: Ministerio de Ciencia e Innovación
Funding: 262,500 €
Period: 2023-2026

Advancing the applicability of artificial intelligence in Genomic Medicine: Integrating performance and interpretability in a new generation of protein variant annotation tools (IAMEDGE)
Principal Investigator: Fco. Javier de la Cruz Montserrat
Agency: Ministerio de Ciencia e Innovación
Funding: 219,650 €
Period: 2022-2024

VHIR Annual Report 2023