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SC
+4
Published: Sep 29, 2023
We want to find and use evolutionary innovations to solve present-day problems. We developed NovelTree, an efficient phylogenomic workflow that will empower us to decode the evolutionary traces of these innovations across the tree of life.
BB
KC
RD
+14
Published: Sep 29, 2023
The ProteinCartography pipeline identifies proteins related to a query protein using sequence- and structure-based searches, compares all protein structures, and creates a navigable map that can be used to look at protein relationships and make hypotheses about function.
Connections
Supplements (3): ProteinCartography v0.5.0 - GitHub • ProteinCartography v0.4.2 - GitHub • Data - Zenodo
RY
Published: Aug 01, 2024
Many protein prediction and design models rely on evolutionary comparisons. We show that popular databases are phylogenetically biased, influencing the statistical utility of the known protein universe in important ways.
Connections
Supplements (1): Code v1.0 - GitHub
RC
+1
Published: Aug 22, 2024
This workflow lets you find potential circular DNA in your organism of interest using short-read, whole-genome sequencing data and a reference genome. We applied it to parasitoid wasps and some other parasites and found putative circular DNA.
Connections
Supplements (2): Code v1.0 - GitHub • Data - Zenodo
