GROUP LEADER: Roderic Guigó (Coordinator of the Bioinformatics and Genomics Programme)

STAFF SCIENTIST: Silvia Pérez-Lluch

POSTDOCTORAL FELLOWS: Cecilia Klein, Marina Ruiz, Ramil Nurtdinov, Bruna Correa, Valentin Wucher, Mariona Bustamante, Natalia Vilor

PhD STUDENTS: Sebastian Ullrich, Reza Sodaei, Diego Garrido, Manuel Muñoz, Beatrice Borsari, Raziel Amador

BIOINFORMATICIANS: Julien Lagarde, Francisco Câmara, Emilio Palumbo, Joao Curado

TECHNICIANS: Carmen Arnán, Silvia Carbonell

STUDENTS: Aida Ripoll, Marcos Camara, Vasilis Ntasis

VISITING SCIENTISTS: Charles E. Epstein (Sabbatical, Oct-Dec 2018), Iman Sadeghi (Postdoc, from Nov 2018)

SUMMARY

The overarching theme of the research in our group   is the understanding of the information encoding in genomic sequences, and how this information is processed in the pathway leading from DNA to protein sequences. More specifically, we are interested in the regulation of the primary production (transcription) and post-processing (splicing) of RNA, and how this regulated production relates to cell, tissue and organism phenotypes. Our research is increasingly incorporating high throughput and experimental approaches. In addition, but related to this basic component of our research, our group is also involved in the development of software for functional annotation in genomic sequences. Our group has actively participated in the analysis of many eukaryotic genomes and it is involved in a number of international projects: ENCODE, GTEx, BluePrint and the International Cancer Genome Consortium, among others.

Genome Research

Fig. 1

Genome Research

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Fig. 2

RESEARCH PROJECTS

  • Gene Prediction/Genome Annotation
  • Genome-Wide Search for Selenoproteins
  • Relationship between tissue transcriptomes and phenotypes
  • Epigenetic regulation of RNA production and processing
  • Identification and characterization of long non-coding RNAs
  • Development of computational methods for functional annotation of genomes

SELECTED PUBLICATIONS

Ferreira PG, Muñoz-Aguirre M, Reverter F, Sá Godinho CP, Sousa A, Amadoz A, Sodaei R, Hidalgo MR, Pervouchine D, Carbonell-Caballero J, Nurtdinov R, Breschi A, Amador R, Oliveira P, Çubuk C, Curado J, Aguet F, Oliveira C, Dopazo J, Sammeth M, Ardlie KG, Guigó R.
“The effects of death and post-mortem cold ischemia on human tissue transcriptomes.”
Nat Commun, 9(1):490, 2018.

Garrido-Martín D, Palumbo E, Guigó R, Breschi A.
“ggsashimi: Sashimi plot revised for browser- and annotation-independent splicing visualization.”
PLoS Comput Biol, 14(8):e1006360, 2018.

Vizcaya-Molina E, Klein CC, Serras F, Mishra RK, Guigó R, Corominas M.
“Damage-responsive elements in Drosophila regeneration.”
Genome Res, 28(12):1852-1866, 2018

Uszczynska-Ratajczak B, Lagarde J, Frankish A, Guigó R, Johnson R.
“Towards a complete map of the human long non-coding RNA transcriptome.”
Nat Rev Genet, 19(9):535-548, 2018 (Review)

Guigo R, de Hoon M.
“Recent advances in functional genome analysis.”
F1000Res, 7, 2018.