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Institution: INIA
Research Groups: Animal Breeding and Genetics
Position: Bioinformatician
Contact email: ramon.peiro@inia.csic.es
BCB Committee: No committees assigned.
BCB Community: No communities assigned.
BCB Tools: ARAMIS (Accurate long-Reads Assembly correction Method for Indel errorS)
BCB Services:
Research topics: Animal genomics, Food safety, Marine Systems, Functional genomics, Sequence analysis, Data Analysis, Deep Learning in Biology, Machine Learning in Biology, Statistical Methods for Biology, DNA methylation, Genomics, Microbial communities, Expression Profiling, RNA Sequencing (RNA-seq), Bioinformatics education, Analysis packages (R, Python, etc.), High-performance Computing
Publications
López-Catalina, A., Costes, V., Peiró-Pastor, R., Kiefer, H., & González-Recio, O. (2024). Oxford nanopore sequencing as an alternative to reduced representation bisulphite sequencing for the identification of CpGs of interest in livestock populations. Livestock Science, 279, 105377. https://doi.org/10.1016/j.livsci.2023.105377
Sacristán-Horcajada, E., González-de la Fuente, S., Peiró-Pastor, R., Carrasco-Ramiro, F., Amils, R., Requena, J. M., Berenguer, J., & Aguado, B. (2021). ARAMIS: From systematic errors of NGS long reads to accurate assemblies. Briefings in Bioinformatics, 22(6). https://doi.org/10.1093/bib/bbab170
García-Olmo, D. C., Peiró-Pastor, R., Picazo, M. G., Olmedillas-López, S., García-Arranz, M., Aguado, B., & García-Olmo, D. (2020). Liquid biopsy by NGS: Differential presence of exons (DPE) is related to metastatic potential in a colon-cancer model in the rat. Translational Oncology, 13(11), 100837. https://doi.org/10.1016/j.tranon.2020.100837
González-de la Fuente, S., Camacho, E., Peiró-Pastor, R., Rastrojo, A., Carrasco-Ramiro, F., Aguado, B., & Requena, J. M. (2019). Complete and de novo assembly of the Leishmania braziliensis (M2904) genome. Memórias Do Instituto Oswaldo Cruz, 114. https://doi.org/10.1590/0074-02760180438
Blesa, A., Sánchez, M., Sacristán-Horcajada, E., González-de la Fuente, S., Peiró, R., & Berenguer, J. (2019). Into the Thermus Mobilome: Presence, Diversity and Recent Activities of Insertion Sequences Across Thermus spp. Microorganisms, 7(1), 25. https://doi.org/10.3390/microorganisms7010025
Camacho, E., González-de la Fuente, S., Rastrojo, A., Peiró-Pastor, R., Solana, J. C., Tabera, L., Gamarro, F., Carrasco-Ramiro, F., Requena, J. M., & Aguado, B. (2019). Complete assembly of the Leishmania donovani (HU3 strain) genome and transcriptome annotation. Scientific Reports, 9(1). https://doi.org/10.1038/s41598-019-42511-4
Sequeira-Mendes, J., Vergara, Z., Peiró, R., Morata, J., Aragüez, I., Costas, C., Mendez-Giraldez, R., Casacuberta, J. M., Bastolla, U., & Gutierrez, C. (2019). Differences in firing efficiency, chromatin, and transcription underlie the developmental plasticity of the Arabidopsis DNA replication origins. Genome Research, 29(5), 784–797. https://doi.org/10.1101/gr.240986.118
Carrasco-Ramiro, F., Peiró-Pastor, R., & Aguado, B. (2017). Human genomics projects and precision medicine. Gene Therapy, 24(9), 551–561. https://doi.org/10.1038/gt.2017.77
González-de la Fuente, S., Peiró-Pastor, R., Rastrojo, A., Moreno, J., Carrasco-Ramiro, F., Requena, J. M., & Aguado, B. (2017). Resequencing of the Leishmania infantum (strain JPCM5) genome and de novo assembly into 36 contigs. Scientific Reports, 7(1). https://doi.org/10.1038/s41598-017-18374-y
Otero, S., Desvoyes, B., Peiró, R., & Gutierrez, C. (2016). Histone H3 Dynamics Reveal Domains with Distinct Proliferation Potential in the Arabidopsis Root. The Plant Cell, 28(6), 1361–1371. https://doi.org/10.1105/tpc.15.01003
Sequeira-Mendes, J., Aragüez, I., Peiró, R., Mendez-Giraldez, R., Zhang, X., Jacobsen, S. E., Bastolla, U., & Gutierrez, C. (2014). The Functional Topography of the Arabidopsis Genome Is Organized in a Reduced Number of Linear Motifs of Chromatin States . The Plant Cell, 26(6), 2351–2366. https://doi.org/10.1105/tpc.114.124578
Singh, P. K., Ramachandran, G., Ramos-Ruiz, R., Peiró-Pastor, R., Abia, D., Wu, L. J., & Meijer, W. J. J. (2013). Mobility of the Native Bacillus subtilis Conjugative Plasmid pLS20 Is Regulated by Intercellular Signaling. PLoS Genetics, 9(10), e1003892. https://doi.org/10.1371/journal.pgen.1003892
Funding:
No funded projects.