Hi there! My name is Sodai and I am a PhD student at the Dept. Algal Development and Evolution as well as the Computational Biology Group at the Max Planck Institute for Biology, Tübingen.
Bioinformatics
Contributions to open-source bioinformatic software applications.
orthologr provides a framework to perform large scale comparative genomics studies with R.
myTAI introduces procedures summarised under the term evolutionary transcriptomics to integrate gene age information into classical gene expression analysis in R.
phylomapr enables quick retrieval of precomputed gene age maps (phylomaps) in R.
GenEra estimates gene-family founder events (i.e., the age of the last common ancestor of protein-coding gene families) through the reimplementation of genomic phylostratigraphy.
Biology
Outside of solitary confinement, we are surrounded by life. I love to learn about the diversity of living forms and the processes that shape their development and evolution. Here are some of my biological adventures.
Algal sample collection in St. Abbs, Scotland.
Publications
Here are my publications thus far:
Barrera-Redondo, J., Lotharukpong, J. S., Drost, H. G., & Coelho, S. M. (2023). Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra. Genome Biology, 24(1), 54.
Manley, B. F., Lotharukpong, J. S., Barrera-Redondo, J., Llewellyn, T., Yildirir, G., Sperschneider, J., … & Dallaire, A. (2023). A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungus Rhizophagus irregularis. G3: Genes, Genomes, Genetics, 13(6), jkad077.
See also on google scholar
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