Amy Schmid

This paper introduces GRN-BMuSeR, a Bayesian multi-species method for gene regulatory network inference, showing improved performance in bacteria and novel predictions in archaea.

The paper examines microbial community changes in the Great Salt Lake during drought and flood, finding stable communities in hypersaline areas and shifts in others due to environmental stress.

The paper shows that the archaeal transcription factor RosR has divergent functions across species despite strong sequence conservation, likely due to flexible cis-trans interactions.

The paper re-sequences 60 archaeal strains from two species to assess genetic divergence and identify mutations arising from lab manipulations and transfers.

This study identifies and characterizes two new families of archaeal bactofilins, HalA and HalB, showing their roles in shaping cell morphology and curvature in Haloferax volcanii.

This paper compares rRNA removal methods for RNA-seq in halophilic archaea, finding that probe-specificity is critical for effective rRNA depletion and improved transcript detection.

This study identifies HpyA, an archaeal histone-like protein, as a transcriptional regulator that modulates gene expression in response to salt stress in Halobacterium salinarum.

This paper introduces a Bayesian non-parametric model to analyze microbial growth data, accounting for random effects and improving accuracy in estimating biological effects.

This paper introduces a nonparametric model, DPGP, to cluster gene expression time series data and demonstrates its effectiveness using simulated and real datasets.