Alejandro Gonzales-Irribarren

Recently DVM graduate @ UNMSM, working as a bionformatics software developer @ Open Chromosome Collective. With strong foundations in multi-omics and medicine informatics, I enjoy developing high-performance software for genomics data. Currently, I work mostly with Rust, Python, Nextflow and R.

2024

Now at the Open2C team with Ph.D. Nezar Abdennur as part of GSoC 2024. Here, I am working on the Rust-based acceleration of bioframes' genomic ineterval operations and a Python API to access universal metadata assembly.

2024

Worked in the Comparative Genomics team at Senckenberg Frankfurt, developing algorithms to resolve genome-wide annotations produced by orthology inference-based methods using long-read transcriptomics.

2024

Right after graduation, I worked as Bioinformatics Assitant with Ph.D. Mirko Zimic at UPCH. Here, we studied the effect of the thermodynamic pressure on GC-related DNA mutations using over 60,000 E. coli generations.

2023

During my last year at UNMSM, I worked as an Oncology Bioinformatics Intern at LIIGH-UNAM, where I investigated human/dog prostate cancer transcriptional parallelisms.

2018 - 2023

DVM at the National University of San Marcos. Graduated with the highest honors (Summa Cum Laude) after holding the 1st place during 6 consecutive years. Published 2 papers and 3 bioinformatic tools. Won 1 international congress and was recognized by the Pan American Veterinary Association.

What else have I done?

Just published my most recent tool: gxf2bed, the fastest G{F,T}F-to-BED converter around the block!
I graduated Summa Cum Laude (1/82) [GPA: 4.0] from the School of Veterinary Medicine @ UNMSM!
Developed postoga with Michael Hiller and Bogdan Kirilenko @ LOEWE Centre for Translational Biodiversity Genomics, a post-processing pipeline attached to TOGA, a novel tool to infer orthologs.
I've created gtfsort, a high-performance GTF sorter that uses a lexicographically-based index ordering algorithm, completely written in Rust and available here.
I've developed a suite of tools to handle fast and efficient parallelized conversions between gene-annotation formats: bed2gtf and bed2gff, both written in Rust.
I've worked with Jose-Luis Rodriguez @ Universidad Complutense de Madrid on the gene expression effect in neuroblastoma cell cultures induced by allethrin, a pyrethroid.
I'm also the creator of noel, a per-gene non-overlapping exon length calculator, and to-trans, a transcriptome builder from fasta + GTF/GFF.
I was the founder president of the Circle of Veterinary Studies in Epidemiology @ UNMSM, a student group focused on epidemiology-related talks/research/training.
I won the 1st place in the 2021 International Congress of Biosciences (ICB-HAMUTAY) and recognized as a distinguished participant at the 2021 Pan American Veterinary Association Congress with a research in canine prostate cancer molecular markers.