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Published: Sep 27, 2023
Genetic models of complex traits often rely on incorrect assumptions that drivers of trait variation are additive and independent. An information theoretic framework for analyzing trait variation can better capture phenomena like allelic dominance and gene-gene interaction.
Published: Sep 22, 2023
It is commonly assumed that phenotypes arise from the cumulative effects of many independent genes. However, we show that by accounting for dependent and nonlinear biological relationships, we can generate models that predict phenotypes with great accuracy.
Connections
Supplements (2): Data - Zenodo • Code v1.0.1 - GitHub
Published: Jun 23, 2023
We’re crossing C. reinhardtii and C. smithii algae for high-throughput genotype-phenotype mapping. In preparation, we’re comparing the parents to uncover unique species-specific phenotypes.
Published: Dec 19, 2022
This pub details a process for phage amplification and concentration, DNA extraction, and HPLC and MS analysis of phage nucleosides. We optimized the approach with model phages known to use non-canonical nucleosides in their DNA, but plan to apply it for other phages.
Published: Dec 01, 2022
The process of deciding whether a candidate actin homolog represents a “true” actin is tricky. We propose clear and data-driven criteria to define actin that highlight the functional importance of this protein while accounting for phylogenetic diversity.
Connections
Supplements (2): Code v2.0 - GitHub • Data outputs - Zenodo
Published: Aug 23, 2022
Cells can be highly motile, moving in and out of a microscope’s field of view. Understanding complex life cycles is difficult without continuous observation. To overcome this challenge, we’ve developed a 3D-printed microchamber device to confine cells for long-term visualization.
Connections
Supplements (7): 3D-printing files - NIH 3D Print Exchange • Code v1.1 - GitHub • Imaging data - C. steinii cyst rotation - Zenodo • Imaging data - C. steinii early encystment - Zenodo • Imaging data - C. steinii in a 384-well plate or microwells - Zenodo • Imaging data - C. steinii reanimation experiment - Zenodo • Imaging data - T. rostrata timelapse - Zenodo
