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Evolution of tissue-specific expression of ancestral genes across vertebrates and insects.
Mantica F, Iñiguez LP, Marquez Y, Permanyer J, Torres-Mendez A, Cruz J, Franch-Marro X, Tulenko F, Burguera D, Bertrand S, Doyle T, Nouzova M, Currie PD, Noriega FG, Escriva H, Arnone MI, Albertin CB, Wotton KR, Almudi I, Martin D, Irimia M. Mantica F, et al. Nat Ecol Evol. 2024 Apr 15. doi: 10.1038/s41559-024-02398-5. Online ahead of print. Nat Ecol Evol. 2024. PMID: 38622362
Genes enriched in A/T-ending codons are co-regulated and conserved across mammals.
Benisty H, Hernandez-Alias X, Weber M, Anglada-Girotto M, Mantica F, Radusky L, Senger G, Calvet F, Weghorn D, Irimia M, Schaefer MH, Serrano L. Benisty H, et al. Among authors: mantica f. Cell Syst. 2023 Apr 19;14(4):312-323.e3. doi: 10.1016/j.cels.2023.02.002. Epub 2023 Mar 7. Cell Syst. 2023. PMID: 36889307 Free article.
Parallel evolution of amphioxus and vertebrate small-scale gene duplications.
Brasó-Vives M, Marlétaz F, Echchiki A, Mantica F, Acemel RD, Gómez-Skarmeta JL, Hartasánchez DA, Le Targa L, Pontarotti P, Tena JJ, Maeso I, Escriva H, Irimia M, Robinson-Rechavi M. Brasó-Vives M, et al. Among authors: mantica f. Genome Biol. 2022 Nov 18;23(1):243. doi: 10.1186/s13059-022-02808-6. Genome Biol. 2022. PMID: 36401278 Free PMC article.
Systematic exploration of dynamic splicing networks reveals conserved multistage regulators of neurogenesis.
Han H, Best AJ, Braunschweig U, Mikolajewicz N, Li JD, Roth J, Chowdhury F, Mantica F, Nabeel-Shah S, Parada G, Brown KR, O'Hanlon D, Wei J, Yao Y, Zid AA, Comsa LC, Jen M, Wang J, Datti A, Gonatopoulos-Pournatzis T, Weatheritt RJ, Greenblatt JF, Wrana JL, Irimia M, Gingras AC, Moffat J, Blencowe BJ. Han H, et al. Among authors: mantica f. Mol Cell. 2022 Aug 18;82(16):2982-2999.e14. doi: 10.1016/j.molcel.2022.06.036. Epub 2022 Jul 31. Mol Cell. 2022. PMID: 35914530 Free PMC article.
Specialization of the photoreceptor transcriptome by Srrm3-dependent microexons is required for outer segment maintenance and vision.
Ciampi L, Mantica F, López-Blanch L, Permanyer J, Rodriguez-Marín C, Zang J, Cianferoni D, Jiménez-Delgado S, Bonnal S, Miravet-Verde S, Ruprecht V, Neuhauss SCF, Banfi S, Carrella S, Serrano L, Head SA, Irimia M. Ciampi L, et al. Among authors: mantica f. Proc Natl Acad Sci U S A. 2022 Jul 19;119(29):e2117090119. doi: 10.1073/pnas.2117090119. Epub 2022 Jul 12. Proc Natl Acad Sci U S A. 2022. PMID: 35858306 Free PMC article.
ExOrthist: a tool to infer exon orthologies at any evolutionary distance.
Márquez Y, Mantica F, Cozzuto L, Burguera D, Hermoso-Pulido A, Ponomarenko J, Roy SW, Irimia M. Márquez Y, et al. Among authors: mantica f. Genome Biol. 2021 Aug 20;22(1):239. doi: 10.1186/s13059-021-02441-9. Genome Biol. 2021. PMID: 34416914 Free PMC article.
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