Profiles
Publications
- Bottes, S, Jaeger, BN, Pilz, G A, Jörg, D J, Cole, J D, Kruse, M, Harris, L, Korobeynyk, VI, Mallona, I, Helmchen, F, Guillemot, F, Simons, BD and Jessberger, S (2021) Long-term self-renewing stem cells in the adult mouse hippocampus identified by intravital imaging. Nature Neuroscience 24(2), 225-233. DOI, PDF.
- Mallona, I, Ilie, I M, Karemaker, I D, Butz, S, Manzo, M, Caflisch, A, and Baubec, T (2021) Flanking sequence preference modulates de novo DNA methylation in the mouse genome. Nucleic acids research. Nucleic Acids Research 49(1):145-157 DOI.
- Tao Y, Kang B, Petkovich DA, Bhandari YR, In J, Stein-O'Brien G, Kong X, Xie W, Zachos N, Maegawa S, Brown S, Chiu Yen R, Shao X, Thakor J, Lu Y, Cai Y, Zhang Y, Mallona I, Peinado MA, Zahnow CA, Ahuja N, Fertig E, Issa JP, Baylin SB and Easwaran H (2018) Aging-like spontaneous epigenetic silencing facilitates Wnt activation, stemness and BrafV600E -induced tumorigenesis. Cancer Cell 35(2)315-328. DOI.
- Buj, R, Mallona, I, Diez-Villanueva, A, Zafón, C, Mate JL, Roca, M, Puig-Domingo, M, Reverter, JL, Mauricio, D, Peinado, MA and Jordà M (2018). Kallikreins stepwise scoring reveals three subtypes of papillary thyroid cancer with prognostic applications. Thyroid, 28(5):601-612. DOI.
- Mallona, I, Sierco, A. and Peinado, MA (2018). The Pancancer DNA Methylation Trackhub: A Window to The Cancer Genome Atlas Epigenomics Data Methods in Molecular Biology: CpG Islands, 1766:123-135. DOI, PDF.
- Mallona, I, and Peinado, MA (2017). Truke, a web tool to check for and handle excel misidentified gene symbols BMC Genomics, 18:242. DOI.
- Mallona, I, Díez-Villanueva, A, Martín, B, and Peinado, MA (2017). Chainy, an universal tool for standardized relative quantification in real-time PCR. Bioinformatics, page btw839. DOI, PDF.
- Jordà, M, Díez-Villanueva, A, Mallona, I, Martín, B, Lois, S, Barrera, V, Esteller, M, Vavouri, T, and Peinado, MA (2016). The epigenetic landscape of alu repeats delineates the structural and functional genomic architecture of colon cancer cells. Genome Research, 27(1):118--132 DOI, PDF.
- Buj, R, Mallona, I, Diez-Villanueva, A, Barrera, V, Mauricio, D, Puig-Domingo, M, Reverter, JL, Matias-Guiu, X, Azuara, D, Ramirez, JL, Alonso, S, Rosell, R, Capella, R, Perucho, M, Robledo, M, Peinado, MA and Jorda, M (2016). Quantification of Unmethylated Alu (QUAlu): a tool to assess global hypomethylation in routine clinical samples. Oncotarget, 7(9):10536-46. DOI.
- Mallona, I, Jordà, M, and Peinado, MA (2016). A knowledgebase of the human alu repetitive elements. Journal of Biomedical Informatics, 60:77--83. DOI, PDF.
- Carrió, E, Díez-Villanueva, A, Lois, S, Mallona, I, Cases, I, Forn, M, Peinado, MA, and Suelves M (2015). Deconstruction of dna methylation patterns during myogenesis reveals specific epigenetic events in the establishment of the skeletal muscle lineage. Stem Cells, 33(6):2025-36. DOI.
- Terry, MI and Mallona, I (2015). First record of albinism in salema, sarpa salpa (Perciformes: Sparidae), in the mediterranean sea. Marine Biodiversity Records, 8, e93. DOI.
- Díez-Villanueva, A*, Mallona, I*, and Peinado, MA. Wanderer, an interactive viewer to explore DNA methylation and gene expression data in human cancer (2015). Epigenetics & Chromatin, 8(1). DOI.
- Mallona, I, Díez-Villanueva, A and Peinado, MA. Methylation plotter: a web tool for dynamic visualization of DNA methylation data (2014). Source Code for Biology and Medicine, 9(1):11. DOI.
- Weiss, J, Mallona, I, Gomez-di Marco, P, Fernández-Valera, JM, and Egea-Cortines, M (2012). Genotyping antirrhinum commercial varieties using miniature inverted-repeat transposable elements (MITES). Scientia Horticulturae, 144:161--167. DOI, PDF.
- Mallona, I, Egea-Cortines, M and Weiss, J (2011). Conserved and divergent rhythms of crassulacean acid metabolism-related and core clock gene expression in the cactus opuntia ficus-indica. Plant Physiology, 156(4):1978--1989. DOI, PDF.
- Mallona, I, Weiss, J, and Egea-Cortines, M (2011). pcrefficiency: a web tool for pcr amplification efficiency prediction. BMC Bioinformatics, 12. DOI.
- Mallona, I, Lischewski, S, Weiss, J, Hause, B, and Egea-Cortines, M. Validation of reference genes for quantitative real-time pcr during leaf and flower development in Petunia hybrida (2010). BMC Plant Biology, 10. DOI.
Preprints
- Mallona I, Ausso S, Diez-Villanueva A, Moreno V and Peinado MA (2018). DNA co-methylation networks outline the structure and remodeling dynamics of colorectal cancer epigenome BiorXiv 2020 DOI.
Posters
- Manca P, Mallona I, Santini D, Tonini G, Rolfo CD, Robinson MD, Pantano F: A new bioinformatic pipeline allows the design of small, targeted gene panels for efficient TMB estimation. Ann Oncol 30 Suppl 2:ii8 (2019). DOI.
Thesis
- Identification of novel genes involved in petunia flower development using transcript profiling and reverse genetics, PhD thesis, 2012.