Dr Cei Abreu-Goodger

Reader in Bioinformatics

Background

2021-                Reader in Bioinformatics at the Institute of Evolutionary Biology, University of Edinburgh

2010-2021      Group leader at the National Laboratory of Genomics for Biodiversity (Langebio Cinvestav), Irapuato, Mexico

2008-2010      Postdoctoral research fellow at the EMBL-European Bioinformatics Institute (EBI), Cambridge, UK

2006-2008      Postdoctoral research fellow at the Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK

2005-2006      Postdoctoral research fellow at the Centre for Genomic Sciences, National Autonomous University of Mexico

2000-2005      Ph.D. Biochemical Sciences (Bioinformatics), Institute of Biotechnology (IBT), National Autonomous University of Mexico

1995-2000      B.Sc. Basic Biomedical Research, Institute of Biomedical Research (IIB), National Autonomous University of Mexico

 

Undergraduate teaching

  • Genomes and Genomics 3 (BILG09005) (Lecturer)

Postgraduate teaching

  • Statistics and Data Analysis (PGBI11003) (Lecturer and Course Organiser)
  • Next Generation Genomics (BILG11004) (Lecturer)

Open to PhD supervision enquiries?

Yes

Areas of interest for supervision

Bioinformatic projects related to small non-coding RNA, gene expression and regulation, transposable elements, genome evolution.

Current PhD students supervised

Current students (2023)

  • Isaac Martinez-Ugalde (3rd year Evolutionary Biology)
  • Yenetzi Villagrana-Pacheco (2nd year Evolutionary Biology)
  • Adriana Orrego-Durañona (1st year Cell and Molecular Biology), co-supervised with Dr Elizabeth Bayne
  • Logan Wang (MSc Bioinfomatics dissertation project)
  • Yao Tong (MSc Bioinformatics dissertation project)
  • Thomas Cattanach (Honours thesis project, Cell Biology)

Past PhD students supervised

Recently graduated students (2000-2022)

  • Xiaoqi Luo. MSc dissertation: Predicting regulatory motifs from large scale transcriptome resources”. Master of Science in Bioinformatics. August 2022.
  • Guanke Bao. MSc dissertation: Predicting regulatory motifs from large scale transcriptome resources”. Master of Science in Bioinformatics. August 2022.
  • Ruoci Chen. MSc dissertation: “Dissecting RNA interference mechanisms and functions in the human pathogen Cryptococcus neoformans”. Master of Science in Bioinformatics. August 2022. Co-supervised with Dr Elizabeth Bayne.
  • Tantely Delaine. BSc thesis: Genomic drivers of gene regulation by small RNA in the parasitic nematode, Heligmosomoides bakeri”. BSc (Hons) Biological Sciences (Evolutionary Biology). May 2022.
  • Panachai Punnatin. MSc dissertation: “Traversing networks of transcriptomes to predict regulatory motifs”. Master of Science in Bioinformatics. August 2021. 
  • Zulia Fernandina Nieves López. MSc thesis: “Origin and function of phytopathogen small RNAs produced during infection”. Plant Biotechnology Master’s program (Mexico). August 2021.
  • Yenetzi Villagrana Pacheco. MSc thesis: “Predicting microRNA functions from individual cell transcriptomes”. Plant Biotechnology Master’s program (Mexico). August 2021.
  • José Roberto Bermúdez Barrientos. PhD thesis: “Species interactions mediated by small RNAs”. Integrative Biology PhD program (Mexico). August 2020.
  • Gonzalo Córdova López. MSc thesis: “Function and horizontal transfer of the RmNV-20S and RmNV-23S Narnavirus that reside within Rhizopus microsporus”. Integrative Biology Master’s program (Mexico). August 2020. Co-supervised with Dr Laila Pamela Partida-Martínez.
  • Carlos Daniel Luna Gómez. MSc thesis: “Genome-wide prediction of tissue-specific enhancers during Drosophila melanogaster development”. Integrative Biology Master’s program (Mexico). August 2020. Co-supervised with Dr Katarzyna Oktaba-Sosin.
  • Daniel Lepe Soltero. PhD thesis: “Effects of hybridization on paternal genome activation in Arabidopsis embryogenesis”. Plant Biotechnology PhD program (Mexico). July 2020. Co-supervised with Dr Charles Stewart Gillmor III.
  • Isaac Martínez Ugalde. MSc thesis: “Characterization of the biogénesis of secreted transposable element derived small RNAs by Heligmosomoides bakeri”. Integrative Biology Master’s program (Mexico). February 2020.
  • Michelle Crisely Munguía Figueroa. MSc thesis: “The cellular mechanisms of lifespan extension by metformin in budding yeast”. Integrative Biology Master’s program (Mexico). February 2020. Co-supervised with Dr Alexander de Luna-Fors.

Research summary

I am currently a Reader in Bioinformatics at the Institute of Ecology and Evolution (University of Edinburgh). My research interests are focused on gene regulation, small RNAs and transposable elements, using computational analyses and a variety of host-pathogen models. I did my PhD in Mexico, studying the evolution of regulatory RNA in bacteria, a postdoc in Cambridge UK working on the function of microRNAs in vertebrates, and was a group leader in Mexico for ten years before moving to the University of Edinburgh.