The National Research Platform: Stretched, Multi-Tenant, Scientific Kubernetes Cluster
Critical operational insights are discussed, including security enhancements using Kubernetes-integrated threat detection, extensive monitoring, and comprehensive accounting systems.
Longitudinal flux balance analyses of a patient with episodic colonic inflammation reveals microbiome metabolic dynamics
We report the first use of constraint-based microbial community modeling on a single individual with episodic inflammation of the gastrointestinal tract.
Towards a Dynamic Composability Approach for using Heterogeneous Systems in Remote Sensing
Altintas, Ilkay, et al. "Towards a dynamic composability approach for using heterogeneous systems in remote sensing." 2022 IEEE 18th International Conference on e-Science (e-Science). IEEE, 2022.
Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity
Many studies have investigated the role of the microbiome in inflammatory bowel disease (IBD), but few have focused on surgery specifically or its consequences on the metabolome.
De Novo Peptide Sequencing Reveals Many Cyclopeptides in the Human Gut and Other Environments
We present a computational pipeline for automated analysis and discovery of cyclic and branch cyclic peptides (cyclopeptides).
Phylogenomics of 10,575 Genomes Reveals Evolutionary Proximity Between Domains Bacteria and Archaea
Nature Communications 10, 5477. (2019).
Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads
As metagenomic studies move to increasing numbers of samples, communities like the human gut may benefit more from the assembly of abundant microbes in many samples, rather than the exhaustive assembly of fewer samples.