Category: Papers

New article in PNAS from Francis Motta and our group showing that the parasite’s intraerythrocytic cycle and the human host circadian cycle are coupled during malaria infection.

We provide direct evidence that the parasite’s intrinsic developmental cycle is aligned to the host’s circadian rhythm during malaria infection. This alignment suggests an evolutionary adaptation that creates synchrony between parasites during the blood phase and a method for evading host defenses or optimizing utilization of host resources that are controlled by the host circadian clock. This work opens the door for chronotherapeutic strategies for treating malaria infections.

See the PNAS paper.

Sophia Campione recently published an article in JOVE that allows for the alignment of synchronized time-series data using our previously developed CLOCCS model. This tool helps overcome a major challenge in analyzing synchronized time-series experiment, which is that the experiments can differ in the length of recovery from synchrony and the period. This means that measurements from different experiments cannot easily be analyzed together or compared. This tool allows for phase-specific and biologically relevant comparisons between experiments.

See the papers for the Alignment Tool and for the CLOCCS model.

Robert Moseley and Sophia Campione recently developed a browser-based tool that allows for interactive visualization and generation of network models. The Inherent Dynamics Visualizer (IDV) connects to the network inference tool developed with our collaborators the Inherent Dynamics Pipeline (IDP). The IDV allows for informed decision-making on parameter choices made throughout the IDP. Together, the tools allow for streamlined inference of gene-regulatory networks.

See the papers for the IDV and the IDP. Watch the video for the IDV here:

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Haase Lab questions conclusions of Cross Lab detailed in Rahi et al. Cell, 2016. See publication here:

http://www.tandfonline.com/eprint/MZbJCQbrCqjzEwSVgxNg/full