Visualizing Microbial Chemical Molecular Networks: MIG meeting (June 17, 2015)

We are pleased to annouce Dr. Robert Quinn from the Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, as our invited guest speaker for this month's Metabolomics Interest Group (MIG) meeting.
 
Dr. Quinn will be speaking on "Visualizing the Chemical World of Mucosal Associated Microbial Communities with Molecular Networks" using examples of microbial metabolomics data from coral reefs and human lung samples, and showcasing the GNPS (Global Natural Products Social Molecular Networking) initiative.
 
Wednesday, June 17th @ 12:00 -1:00 pm,
BioSci III, Rm 2120 (conference room)
Light refreshments will be served.
 
Quinn chemnetworksAbstract: Mucosal associated microbial communities exist in all biological environments from coral reefs to human lungs. They are comprised of host epithelial cells coated in mucus and harboring a symbiotic microbial community. These systems are highly diverse and contain myriad competitive and cooperative interactions. Dysbioses is an important phenomenon in these systems, where shifts in the constituent microbial communities are associated with a diseased state. While the taxonomic and functional genetics of these communities has been characterized in a number of studies, the global chemistry of these environments is poorly uncharacterized. Mass spectrometry based metabolomics has lagged behind progress in sequencing based omics because of the paucity of sufficient searchable databases. Since the advent of the novel MS/MS data analysis algorithm ‘molecular networking’ the knowledge gap between sequence and metabolite is beginning to narrow. We have applied mass spectrometry based metabolomics to two very different, mucosal associated microbial communities, the cystic fibrosis lung and the reef building coral. The molecular networking approach has revealed that although separated by 500 million years of evolution and thought of as very different systems, the chemistry and physiology that governs these two environments contains much similarity. This lecture will describe the preliminary findings of our foray into the chemical world of these complex systems. 
 
 
 

Chromatin Dynamics Interest Group

This month's "Chromatin Dynamics Interest Group" will be meeting tomorrow, Friday, May 22, 2015 from 2:00 - 3:00pm in Natural Sciences II, Rm 3201
 
Tomorrow's topic: "Spatial dynamics of SIRT1 dictate metabolic transitions in the cell nucleus."
Speaker: Suman Rangit and Lorena Aguiliar
 
Light refreshments will be provided.
 
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Metabolomics Interest Group (MIG)

Last month's Metabolomics Interest Group meeting was held on Tuesday, May 26th from 3:00 - 4:00 pm, BioSci III Conference Room, Rm 2120.
 

MosqCloudPlotThe MIG provides an informal venue for both current research groups, as well as new users, to i) more effectively utilize campus metabolomics resources, ii) obtain user support and provide community feedback, and iii) promote opportunities for collaborative interactions.

Tpoics discussed included:
 
1) Processing of GC EI-MS data, specifically:
- Spectra deconvolution from complex mixtures
- Spectra searching of databases, e.g. NIST libraries
- Scoring match results and building user databases
 
2) Reviewing statistical methods for LC-MS/MS data:
- Processing peak lists for biomarker selection (normalization and parameter selection)
- Data plotting tools, including Cloud plots, Volcano plots, Heatmaps etc.
 
 
 

Metabolomics Interest Group (MIG)

The 2nd meeting of the Metabolomics Interest Group was held on:
 
Monday, April 20th from 1:00 - 2:00 pm
BioSci III Conference Room, Rm 2120.
 
The MIG provides an informal venue for both current research groups, as well as new users, to i) more effectively utilize campus metabolomics resources, ii) obtain user support and provide community feedback, and iii) promote opportunities for collaborative interactions.
 
This month's topic was on "Metabolite Biomarker Identification" from untargeted global mass spec data collected by GC EI-MS, LC-MS or MSMS instruments.
 
We reviewed:
      • Basic untargeted metabolomics experimental designs,
      • Sample handling and data collection 
      • Various software analytical packages, including: Waters MarkerLynx and Progenesis QI packages, Scripps XCMS Online and the open source package MetaboAnalyst.
 
 
Please check back on the Community pages for future announcements or send an email to This email address is being protected from spambots. You need JavaScript enabled to view it.  (Subj: MIG) to be included on the mailing list.
 
 

Metabolomics Interest Group (MIG)

A new interest group focused on "Metabolomics" will meet monthly. The MIG is intended as an informal venue for both current research groups, as well as new users, to i) more effectively utilize campus metabolomics resources, ii) obtain user support and provide community feedback, and iii) promote opportunities for collaborative interactions.
The aims of the Metabolomics Interest Group will be to cover:
    1. Advances in methods/technologies/instrumentation - primarily MS techniques.
    2. Strategies for small molecule quantification and biomarker identification.
    3. Data processing pipelines and software for manipulation of large omic datasets.
    4. Basic training for open access instruments in the UCI Mass Spectrometry Core Facility.
The meetings will be a mix of journal club format, short presentations on specific topics and training opportunities.
 
Our first meeting will be on Monday, Feb 23 @ 1:00 - 2:00 pm, in BioSci III, Rm 2120 (conference room).
Monday's topic: Targeted analyte quantitation by UPLC-MS/MS.
Demonstration: MS Core Facility, Waters Quattro Premier XE (triple quadropole MS). 
 
 
 

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