Scientists at the University of California San Diego have reported in the latest publication of Nature Biotechnology on a new type of tool to easily search for mass spectrometry (MS) data instead. This new web-enabled small-molecule MS search engine, called MASST - short for Mass Spectrometry Search Tool, is a starting point for enabling data-driven discovery of mass spectrometry data in the public domain and enables the reuse of public data and its related knowledge.
A paper in Cell Systems by leading co-authors Dr. Pavel Pevzner and his graduate student, Bahar Behsaz, alongside collaborators from around the world, presents the new CycloNovo algorithm that identifies cyclopeptide spectra in a haystack of all peptides (a vast majority of peptides are linear) and decodes them by analyzing large MS datasets.
To further increase the understanding of the microbiome’s impact on human health and to accelerate the development of innovative nutritional solutions promoting health and wellbeing, Nestlé has entered into a partnership with the University of California San Diego Center for Microbiome Innovation (CMI).
Researchers at University of California San Diego, Rutgers and other universities compared microscopic materials in homes and people’s bodies, spanning the spectrum of urbanization in the Amazon basin. They found that the diversity of chemicals clinging to indoor surfaces increases dramatically with urbanization. Most notably, they found more fungi, industrial chemicals, cleaning agents and molecules derived from medications in city homes but not in rural or jungle homes.
New UC San Diego Study Discover Interactions Between Phototrophic Communities Are Highly Dynamic and Driven by Availability of Nutrients.
Light-driven microbial communities, otherwise known as phototrophic communities, are widespread throughout the environment. This group includes cyanobacteria and algae, microorganisms that obtain their energy through photosynthesis, and heterotrophic microorganisms that use organic carbon as food. Researchers at University of California San Diego, along with collaborators from Johns Hopkins University and the National Renewable Energy Laboratory, are working closely to solve some of these unknowns through the integration of metatranscriptomics, metabolomics, and phenotyping with computational modeling.
IBM and UC San Diego Explore Challenges in Constructing Knowledge Bases for Human Microbiome-Disease Associations.
In a new paper in the journal Microbiome researchers at the University of California San Diego (UC San Diego) and IBM are working together through the Artificial Intelligence for Healthy Living program supported by IBM Research AI Horizons Network, to outline the barriers and opportunities for the creation of a comprehensive, accurate, and automated knowledge base for the field of human microbiome research.
Three UC San Diego researchers have received prestigious awards through the National Institutes of Health (NIH) High-Risk, High-Reward Research Program, including the Pioneer Award and the New Innovator Award.
Human skin is home to a large number and wide variety of microorganisms such as bacteria, fungi, and viruses, collectively known as the skin microbiome. Its composition is as individual as a fingerprint and depends on a variety of factors. This new partnership between Evonik and the University of California San Diego Center for Microbiome Innovation aims to provide new insights about the complex composition of these microbial communities on the skin. The target of the three-year agreement and future research projects is the improvement of existing cosmetic raw materials and the potential discovery and development of new ones for promoting a healthier skin microbiome.
QIIME 2: Re-Engineered System Allows for Reproducibility, Transparency, and Clarity of Microbiome Data Science .
The last two decades have seen a surge in the advancement of DNA sequencing and bioinformatics technology which has greatly contributed to how we now understand the microbiomes of the world. This week the publication Nature Biotechnology featured the correspondence announcing the success of QIIME 2.
UC San Diego Center for Microbiome Innovation (CMI) Announces Otsuka Pharmaceutical Development & Commercialization, Inc. as New Corporate Member.
The UC San Diego Center for Microbiome Innovation (CMI) is pleased to announce that Otsuka Pharmaceutical Development & Commercialization, Inc. (OPDC), a member of the Otsuka group, has joined the CMI Industry Member board.