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DBC News is a monthly publication that seeks to inform first and foremost faculty members, researchers and students. It also reaches out to a wider community - Department of Computational Biology partners, visiting faculty and friends.
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Alongside the Department's website it is a complementary means of keeping abreast of the Department's rich and diversified scientific activities - visiting faculty, exceptional conferences, publications, awards, appointments, calls for papers and research, ...
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The whole DBC extends the warmest of welcomes to new members.
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I began my career using experimental evolution for industrial applications in the brewing industry. Through this I developed an interest in data analysis and computational approaches in biology, which led me to completing a master’s at the University of Kentucky. There, I studied the impact of biological complexity on the evolution of gene regulatory networks. I will be working with Professor Lehtinen in the department to study the impact of transmission on microbial community composition and the evolution of clinically relevant life-history traits. Outside of work, I enjoy painting, tattooing, and caring for my cat.
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Unlocking the Future of Medicine with AI - November 13th at CHUV
Discover the latest advances in AI and their impact on clinical and translational medicine.
Discover how cutting-edge innovations are reshaping the future of healthcare through insightful presentations and discussions. Learn more
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2nd Alma Dal Co memorial symposium - November 15th
Building on last year's symposium, also this year we will commemorate our late colleague and friend Alma Dal Co, who was a professor at the Department of Computational Biology (DBC) of UNIL.
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Evolutionary biologist - University of Lyon (France)
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Biology25 conference -
February 13-14
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Biology25 is the largest conference dedicated to organismal biology in Switzerland and serves as the annual joint meeting of the Swiss Zoological Society, the Swiss Botanical Society, and the Swiss Systematics Society. It offers a great opportunity for PhD students and early-career researchers to showcase their research. Learn more
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How do scientists find genes using computers?
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Where to find your DNA in the Genes?
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All the events of the APNS here
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What follows is a small sampling of recently published research across the department — for a more complete list of publications, visit PubMed. If there is a paper you would like to see highlighted in the next issue of the newsletter, please email us.
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When less is more: sketching with minimizers in genomics - With Silvia Prieto-Baños, Lucy M Fitzgerald, Christophe Dessimoz, Natasha Glover, Sina Majidian
The exponential growth in sequencing data necessitates new conceptual and computational methods to derive biological insights. Minimizers are one such advancement, reducing data volume while preserving key properties. This text introduces minimizers, recent methodological developments, and their applications in genomic data analysis, such as genome assembly, metagenomics, and read alignment. It also mentions alternative data sketching techniques like universal hitting sets, syncmers, and strobemers, highlighting their importance in managing large datasets.
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The era of biodiversity genomics involves large-scale genome sequencing to represent each living taxon. However, integrating this data into a functional and evolutionary network is challenging. There is a need for scalable gene annotation methods and improved ortholog analyses, including protein domain level and alternative splicing considerations. New methods are required for identifying orthologs in short proteins and noncoding RNAs. Machine learning-predicted protein structures should be integrated with orthology analyses. Adhering to FAIR principles can enhance bioinformatics efficiency and public understanding of evolution.
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The article introduces a new method combining stochastic simulations and deep learning to infer molecular evolution parameters and reconstruct phylogenetic trees. This approach is more accurate than traditional methods under complex evolutionary scenarios and is highly scalable, as demonstrated on a large clownfish dataset. Integrating these deep learning estimates within a Bayesian framework significantly improves phylogenetic inference accuracy.
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Are you an alumnus or former employee of the department? Email us your news and updates to include in an upcoming newsletter!
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We're excited to announce the launch of a global WhatsApp alumni community for DBC! Our goal is to connect former students, postdocs, and staff worldwide, facilitating connections between alumni in the same cities or countries. This will create opportunities for local meet-ups, networking, and shared experiences.
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Joint the WhatsApp group to reach out to the alumni network. Check the QR code below!
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For our alumni in the Switzerland/Lausanne area, we're organizing a get-together at the Flon Christmas market on December 5th at 19h. This is a great opportunity to catch up with old friends and make new connections.
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Liza Darrous, Marion Patxot, Diana Cruz
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