Publications

Submitted and Published Papers

2026

Computational Evidence of Pesticide–Protein Interactions as a Possible Molecular Basis of Cancer.

Lucia-Tamudo J*, Aguilar-Galindo F & Mata-Garrido J*.

In revisions

Integrative Network and Machine Learning Analysis Identifies Fibrosis-Associated Transcriptional Programs in Heart Failure.

Desterke C*, Collado-Díaz V, Mata-Garrido J & Álvarez-Ribelles A*.

In revisions

Targeting metabolic vulnerabilities by synthetic lethality in hepatoblastoma.

Desterke C, Saifi E, Casafont I & Mata-Garrido J*.

In revisions

Single-Cell RNA Sequencing Reveals the Neuronal Transcriptional Differentiation Program Associated with Ferroptosis-Related Heterogeneity in Human Hepatoblastoma.

Francés R, Casafont I, Desterke C* & Mata-Garrido J*.

Computational Biology and Chemistry. 2026; https://doi.org/10.1016/j.compbiolchem.2026.108986.

2025

The Heterogeneous Interplay Between Metabolism and Mitochondrial Activity in Colorectal Cancer.

Desterke C*, Fu Y, Mata-Garrido J, Hamaï A, Chang Y*.

Journal of Personalized Medicine. 2025; 15(12):571. https://doi.org/10.3390/jpm15120571.

Integrative Neoepitope Discovery in Glioblastoma via HLA Class I Profiling and AlphaFold2-Multimer.

Francés R, Bonifacio-Mudaca J, Casafont I, Desterke C*, Mata-Garrido J*.

Biomedicines. 2025; 13(11):2715. https://doi.org/10.3390/biomedicines13112715.

Single-Cell Heterogeneity of Epigenetic Factor Regulation Deciphers Alteration of RNA Metabolism During Proliferative SHH-Medulloblastoma.

Francés R, Bonifacio-Mudaca J, Casafont I, Desterke C*, Mata-Garrido J*.

Cancers. 2025; 17(21):3424. https://doi.org/10.3390/cancers17213424.

Deciphering Medulloblastoma: Epigenetic and Metabolic Changes Driving Tumorigenesis and Treatment Outcomes.

Bonifacio-Mundaca J, Casavilca-Zambrano S, Desterke C, Casafont Í, Mata-Garrido J*.

Biomedicines. 2025; 13(8):1898. https://doi.org/10.3390/biomedicines13081898

Genomic Alterations and Microbiota Crosstalk in Hepatic Cancers: The Gut–Liver Axis in Tumorigenesis and Therapy.

Fu Y, Bonifacio-Mundaca J, Desterke C, Casafont Í, Mata-Garrido J*.

Genes. 2025; 16(8):920. https://doi.org/10.3390/genes16080920

Transient pharmacological inhibition of SUMOylation during pregnancy induces craniofacial malformations in offspring mice.

Mata-Garrido J*, Zafferri I, Nordlinger A, Loe-Mie Y, Dejean A, Cossec JC*.

Eur J Cell Biol. 2025 Jun;104(2):151480. doi: 10.1016/j.ejcb.2025.151480. Epub 2025 Feb 20. PMID: 39985830.

Single-cell RNAseq reveals adverse metabolic transcriptional program in intrahepatic cholangiocarcinoma malignant cells.

Desterke C, Francés R, Monge C, Fu Y, Marchio A, Pineau P, Mata-Garrido J*.

Biochem Biophys Rep. 2025 Feb 15;41:101949. doi: 10.1016/j.bbrep.2025.101949. PMID: 40034261; PMCID: PMC11872667.

Single-Cell RNA Sequencing Reveals LEF1-Driven Wnt Pathway Activation as a Shared Oncogenic Program in Hepatoblastoma and Medulloblastoma.

Desterke C, Fu Y, Bonifacio-Mundaca J, Monge C, Pineau P, Mata-Garrido J*, Francés R*.

Curr Oncol. 2025 Jan 9;32(1):35. doi: 10.3390/curroncol32010035. PMID: 39851951; PMCID: PMC11763369.

Ferroptosis Transcriptional Regulation and Prognostic Impact in Medulloblastoma Subtypes Revealed by RNA-Seq.

Desterke C, Fu Y, Bonifacio-Mundaca J, Monge C, Pineau P, Mata-Garrido J*, Francés R*.

Antioxidants (Basel). 2025 Jan 15;14(1):96. doi: 10.3390/antiox14010096. PMID: 39857430; PMCID: PMC11761645.

2024

Characterization of an Activated Metabolic Transcriptional Program in Hepatoblastoma Tumor Cells Using scRNA-seq.

Monge C, Francés R, Marchio A, Pineau P, Desterke C, Mata-Garrido J*.

Int J Mol Sci. 2024 Dec 4;25(23):13044. doi: 10.3390/ijms252313044. PMID: 39684755; PMCID: PMC11641740.

Metabolic Transcriptional Activation in Ulcerative Colitis Identified Through scRNA-seq Analysis.

Desterke C, Fu Y, Francés R, Mata-Garrido J*.

Genes (Basel). 2024 Oct 31;15(11):1412. doi: 10.3390/genes15111412. PMID: 39596612; PMCID: PMC11593927.

Metabolic and Epigenetic Mechanisms in Hepatoblastoma: Insights into Tumor Biology and Therapeutic Targets.

Fu Y, Francés R, Monge C, Desterke C, Marchio A, Pineau P, Chang-Marchand Y, Mata-Garrido J*.

Genes (Basel). 2024 Oct 22;15(11):1358. doi: 10.3390/genes15111358. PMID: 39596558; PMCID: PMC11593527.

Single-Cell RNA-Seq Analysis Links DNMT3B and PFKFB4 Transcriptional Profiles with Metastatic Traits in Hepatoblastoma.

Desterke C, Francés R, Monge C, Marchio A, Pineau P, Mata-Garrido J*.

Biomolecules. 2024 Oct 31;14(11):1394. doi: 10.3390/biom14111394.

miR-30c-5p Gain and Loss of Function Modulate Sciatic Nerve Injury-Induced Nucleolar Stress Response in Dorsal Root Ganglia Neurons.

Francés R, Mata-Garrido J, Lafarga M, Hurlé MA, Tramullas M*.

Int J Mol Sci. 2024 Oct 24;25(21):11427. doi: 10.3390/ijms252111427. PMID: 39518978; PMCID: PMC11547303.

Inflammatory Bowel Diseases in Spain: A View from the Present to the Future.

Francés R, Fu Y, Desterke C, Mata-Garrido J*.

J. 2024; 7(4):489-501. doi: 10.3390/j7040030.

Alternative Balance between Transcriptional and Epigenetic Regulation during Developmental Proliferation of Human Cranial Neural Crest Cells

Desterke C, Francés R, Monge C, Marchio A, Pineau P, Mata-Garrido J*.

Cells. 2024 Sep 30;13(19):1634. doi: 10.3390/cells13191634. PMID: 39404397; PMCID: PMC11476078.

CBX3 antagonizes IFNγ/STAT1/PD-L1 axis to modulate colon inflammation and CRC chemosensitivity.

Xiang Y, Mata-Garrido J, Fu Y, Desterke C, Batsché E, Hamaï A, Sedlik C, Sereme Y, Skurnik D, Jalil A, Onifarasoaniaina R, Frapy E, Beche JC, Alao R, Piaggio E, Arbibe L*, Chang Y*.

EMBO Mol Med. 2024 Jun;16(6):1404-1426. doi: 10.1038/s44321-024-00066-6. Epub 2024 Apr 29.

2023

HP1γ Prevents Activation of the cGAS/STING Pathway by Preserving Nuclear Envelope and Genomic Integrity in Colon Adenocarcinoma Cells.

Mata-Garrido J*, Frizzi L, Nguyen T, He X, Chang-Marchand Y, Xiang Y, Reisacher C, Casafont I, Arbibe L*.

Int J Mol Sci. 2023 Apr 16;24(8):7347. doi: 10.3390/ijms24087347. PMID: 37108510; PMCID: PMC10138453.

2022

Identification of Epigenetic Interactions between MicroRNA-30c-5p and DNA Methyltransferases in Neuropathic Pain.

Francés R, Mata-Garrido J, de la Fuente R, Carcelén M, Lafarga M, Berciano MT, García R, Hurlé MA, Tramullas M*.

Int J Mol Sci. 2022 Nov 13;23(22):13994. doi: 10.3390/ijms232213994. PMID: 36430472; PMCID: PMC9694031.

The Heterochromatin protein 1 is a regulator in RNA splicing precision deficient in ulcerative colitis.

Mata-Garrido J, Xiang Y, Chang-Marchand Y, Reisacher C, Ageron E, Guerrera IC, Casafont I, Bruneau A, Cherbuy C, Treton X, Dumay A, Ogier-Denis E, Batsché E, Costallat M, Revêchon G, Eriksson M, Muchardt C, Arbibe L*.

Nat Commun. 2022 Nov 18;13(1):6834. doi: 10.1038/s41467-022-34556-3. PMID: 36400769; PMCID: PMC9674647.

2018

Persistent accumulation of unrepaired DNA damage in rat cortical neurons: nuclear organization and ChIP-seq analysis of damaged DNA.

Mata-Garrido J, Tapia O, Casafont I, Berciano MT, Cuadrado A, Lafarga M*.

Acta Neuropathol Commun. 2018 Jul 26;6(1):68. doi: 10.1186/s40478-018-0573-6. PMID: 30049290; PMCID: PMC6062993.

2016

Dynamic Behavior of the RNA Polymerase II and the Ubiquitin Proteasome System During the Neuronal DNA Damage Response to Ionizing Radiation.

Casafont I, Palanca A, Lafarga V, Mata-Garrido J, Berciano MT, Lafarga M*.

Mol Neurobiol. 2016 Dec;53(10):6799-6808. doi: 10.1007/s12035-015-9565-8. Epub 2015 Dec 11. PMID: 26660115.

MXD1 localizes in the nucleolus, binds UBF and impairs rRNA synthesis.

Lafita-Navarro MC, Blanco R, Mata-Garrido J, Liaño-Pons J, Tapia O, García-Gutiérrez L, García-Alegría E, Berciano MT, Lafarga M, León J*

Oncotarget. 2016 Oct 25;7(43):69536-69548. doi: 10.18632/oncotarget.11766. PMID: 27588501; PMCID: PMC5342496.

Neuronal accumulation of unrepaired DNA in a novel specific chromatin domain: structural, molecular and transcriptional characterization.

Mata-Garrido J, Casafont I, Tapia O, Berciano MT, Lafarga M*.

Acta Neuropathol Commun. 2016;4:41. Published 2016 Apr 22. doi:10.1186/s40478-016-0312-9