Ali Hakimzadeh

My research in bioinformatics began with transcriptomics analysis of Leishmaniasis vaccine trials. During my Ph.D., I transitioned to molecular ecology, focusing on amplicon sequencing and metagenomics analysis. I optimized and designed workflows for long-read sequencing technologies, and gained experience with workflow managers, full-stack pipeline development (PipeCraft2), and database management and versioning (EUKARYOME).

At MPI, my main project involves multi-omics bioinformatics analysis to investigate interactions between the microbiome and cancer in marine transmissible cancers.

For a full list of publications see my ORCiD: https://orcid.org/0000-0003-1336-7445 

• 2025:  Hakimzadeh A et al. (2025). "Are we throwing away good data? Evaluation of chimera detection algorithms on long-read amplicons reveals high false-positive rates across algorithms." Peer J, 13:e20456. https://doi.org/10.7717/peerj.20456
• 2024:  Tedersoo L, Hosseyni Moghaddam MS, Mikryukov V, Hakimzadeh A, Bahram M, Nilsson RH, Yatsiuk I, Geisen S, Schwelm A, Piwosz K, et al. (2024). “EUKARYOME: the rRNA gene reference database for identification of all eukaryotes.” Database, 2024:baae043. https://doi.org/10.1093/database/baae043
• 2023:  Hakimzadeh A et al. (2024). “A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses.” Molecular Ecology Resources, 24(5):e13847. https://doi.org/10.1111/1755-0998.13847