flyer for students on stage event
Calling #ETH & #UZH students! π§¬
Present your #OMICS research at FGCZβs #StudentsOnStage this June. Best presentation wins a prize! π
β³ Deadline: May 15, 2026
π Submit abstract: tinyurl.com/3vejybk3
"Der #Mond, das #Meer und die #MΓΌcke -
eine Reise durch die Welt der Biologischen #Uhren"
Vortrag von Dr Tobias Kaiser
MPl fΓΌr Evolutionsbiologie, #PlΓΆn
Mittwoch, 4.3.2026, 19 Uhr
Eutiner Landesbibliothek, Schlossplatz 4, #Eutin
#SHUG #CAU #WissKomm #Chronobiologie #Evolution #Γkologie #Genomik
Looking for a postdoc to build my new lab at TGen (Phoenix, AZ) focused on pangenome methods for cancer and complex disease. Full stack β from pangenome assembly and compression to association studies and somatic variant discovery. Reach out if interested! guarracinolab.github.io#join
Weβre excited to share the Pan-genomes Doorstep Meeting @ #PEQG26! Join this 3-hour workshop on evolutionary applications of pangenomics, covering construction, analysis, phylogenetics, annotation & graph QC. Register separately or as an add-on to PEQG: genetics-gsa.org/peqg-2026/do...
This article is now published! academic.oup.com/nargab/artic...
Weβve added a few new analyses. First off, we show that, while gene presence absence variation (PAV) scales with evolutionary distance in both plants and animals, the base level and rate of accrual are both twice as high in plants.
Want to learn more about pangenomics or find solutions to problems you are already facing? Join us on 07β13 June 2026 at the EMBO Practical Course on Pangenomics, in the Campania region, Italy.
Applications are now open and close on 3 February!
Find out more: meetings.embo.org/event/26-pan...
New milestone for wall lizards: 10 chromosome-level reference genomes released by MPI EvolBio, Wellcome Sanger Institute & collaborators β now >50% of described Podarcis species have high-quality references. A backbone resource for evo & pop genomics. www.evolbio.mpg.de/3851900/ten-...
PhD position on the #evo-devo of lizard color patterns, exploring how pigment cells build diverse patterns using developmental and genomic tools. Links to more info about the project and the researchschool below. Please share with interested students!
A really great resource for finding course material is glittr.org. You can find course material on bash/python scripting, cli computing etc.
Sauna, vodka, tea.
Inhale the North, speciate.
Even ants must pee.
Stankowski (2024) Evol J Linnean Soc
doi.org/10.1093/evol...
Fig 1. Overview of APAV pipeline. (A) Workflow for PAV calling and consequent analysis. The coordinates of the target region are first extracted from a GFF file or BED file. The coverage of both the whole region and the element region is calculated based on the BAM files. The PAVs are determined according to their coverage, and interactive reports are generated. Subsequent analyses can be performed using the PAV tables, including genome size estimation, classification and statistical analysis, phenotypic association analysis, and visualization of elements. (B) Interactive analysis reports. The PAV report presents PAV tables, coverage data, pangenome sequences, genome annotation, and sequence alignments. The sample report presents sample tables, phenotype information, and real-time PAV analysis results. https://doi.org/10.1371/journal.pcbi.1013288.g001
APAV: An advanced pangenome analysis and visualization toolkit
journals.plos.org/ploscompbiol...
𧬠New study in Gen. Bio.! We tested how RNA input & PCR cycles affect duplication rates across 4 sequencers. βοΈ RNA = βοΈ duplicates = βοΈ diversity. Key for optimizing RNA-seq protocols! Thanks + congrats to @catharineaquino.bsky.social @nataliazajac.bsky.social + collaborators!
π tinyurl.com/bdcuen59
Fig. 1. Method overview. (i) Pangenome graph is sketched using solid anchors (k-mers) and its distin- guished paths, i.e., haplotypes paths, are indexed using an FMD-index. (ii) Speciξc strings are computed from long reads and (iii) anchored to the graph using solid anchors. (iv) Based on their anchoring, an- chored speciξc strings are clustered. (v-vi) Each cluster, composed of several speciξc strings anchored to (mostly) the same subgraph and which may contain sequencing errors (the red Xs), is assembled and locally realigned back to the corresponding subgraph (in case of a diploid locus, two consensuses are created and analyzed). (vii) The base-level alignments are ξnally used to augment the initial pangenome graph. https://www.biorxiv.org/content/10.1101/2025.02.07.637057v1.full-text
Interesting idea: instead of building the pangenome graph from scratch for new samples, dynamically update it by introducing new nodes/edges from long reads biorxiv.org/content/10.1101/2025.02.07.637057
PALSS-Pangenome Graph Augmentation from Long-reads Specific Strings github.com/ldenti/palss
Last week I had an incredible time at #MemPanG25! I was honoured to have a chance to give a talk! It was great to learn what is new and what is coming in the field of pangenomics. Huge thanks to @thinks.lol , @andreaguarracino.bsky.social, and the whole organizing team for making it happen!
Great to see our research on heterogenous and novel transcript expression in single cells of patient-derived clear cell renal cell carcinoma organoids published as part of Long-read sequencing special issue in Genome Research, along fantastic collection of articles on long reads!
We offer 2 PhD Positions in Evolutionary Biology!
1οΈβ£ Evolutionary Developmental Biology β Craniofacial evolution. (March 31, 2025)
2οΈβ£ Evolution of Polygenic Traits β Genetic adaptation in Drosophila. (April 30, 2025)
More here: www.evolbio.mpg.de/1639156/Job_...
#PhD #EvoDevo #Genetics
