Blog Archives

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Position offered: Metabolomics Core Manager

The Genome Center at the University of California, Davis invites applications from qualified candidates for the position as Manager of the Metabolomics Services Core. This position will have general responsibility for maintaining and improving services at the Genome Center’s Metabolomics

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Symposium to tackle environmental cancer incidence

Wildfires, pesticides and other exposures focus of interdisciplinary meeting (SACRAMENTO) — UC Davis researchers from a variety of disciplines will unite at the first-ever Effects of Lifestyle, Environmental, and Microbial Exposures and Nutrition on Tumorigenesis Symposium (ELEMENTS) at the UC Davis Comprehensive

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18-21 March: Bioinformatics Prerequisites Workshop

Registration is now open for theUC Davis Bioinformatics Prerequisites Workshop! March 18th-21st, 2019 Now in its 12th year, the UC Davis Bioinformatics Core Training Program will present a four-day prerequisites workshop here in Davis in March! This workshop will cover

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Postdoc: Brady and Segal labs

The labs of Siobhan Brady (Dept. of Plant Biology and Genome Center) and David Segal (Dept. of Biochemistry and Molecular Medicine, School of Medicine, Genome Center) at the University of California, Davis are recruiting a postdoctoral scholar, starting immediately.  In

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PacBio Seminar: soil metagenomes and phase-aware assemblies

The DNA Technologies and Bioinformatics Cores are hosting a free Lunch & Learn Seminarpresented by Pacific Biosciences: When:  Thursday, January 31, 1pm Where:  GBSF Auditorium, UC Davis Contact: Kristin Mars – kmars@pacificbiosciences.com Functional metagenomic profiling using high-fidelity long reads Speaker: Joan Wong, Senior Scientist, Bioinformatics Applications,

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Ensembl Genome Browser Workshop, 24 January 24

The Bioinformatics Core and the Shields Library are hosting an Ensembl Genome Browser Workshop on January 24, 2019! For more information and to register, go to https://registration.genomecenter.ucdavis.edu/. The Ensembl and Ensembl Genomes projects (www.ensembl.org) provide a comprehensive and integrated source

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30 Nov: MMI 291 Seminar, ‘Transcriptional control by readers and writers of the Histone Code.’

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17-20 Dec: Genome Assembly Workshop

Genome Assembly is currently in a renaissance, with new technologies coming together to complement each other, producing high-quality reference grade assemblies. Technologies such as linked reads (10x genomics and Illumina), long read technologies (Pacific Biosciences and Oxford Nanopore Technologies), Hi-C

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International Consortium Officially Launches Earth BioGenome Project in London

Key scientific partners and funders from around the globe gathered in London today to officially launch the Earth BioGenome Project (EBP), a global effort to sequence the genetic code of all the planet’s eukaryotes — some 1.5 million known species, including all plants,

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02 Nov: Luxin Wang, ‘One emerging food safety concern: the formation of viable-but-nonculturable and sublethally-injured cells’

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Upcoming Talks and Events

Events on May 16, 2019
WCMC: Best practice in operating mass spectrometers in Metabolomics
Starts: 12:00 am
Ends: May 20, 2019 - 12:00 am
Location: Genome and Biomedical Sciences Facility, 451 Health Science Dr, Davis, CA 95616, USA
Description: Registration: https://goo.gl/forms/TGeuALrTMfTpGh0O2

This course will enhance your standing and expertise to prepare and successfully run samples in a metabolomic laboratory. It is designed to provide hands-on practical exercises using gas and liquid chromatography coupled to mass spectrometry (GC-MS & LC-MS). The course will focus on untargeted data acquisition in metabolomics with both nominal mass and accurate mass instruments. You will learn how to operate the instruments, how to collect metabolite profiles on complex samples and how to prepare and derivatize samples, troubleshoot instruments, acquire data and perform data quality control routines (QA/QC). Overall, you will receive comprehensive understanding of the current best practices in the metabolomics laboratory.

The course will include:


1. Fundamentals of mass spectrometry, chromatography, and metabolomics.
2. hands-on exercises on sample preparation, including extraction and derivatization
of complex samples for untargeted metabolomics profiling
3. Hands-on exercises to learn how to operate both gas and liquid chromatography
coupled to mass spectrometry (GC-MS & LC-MS).
4. quality control routines (QA/QC) in order to ensure comparable data, reproducibility, and instrument performance.
Events on August 19, 2019
International Summer Sessions in Metabolomics
Starts: 12:00 am
Ends: August 31, 2019 - 12:00 am
Location: UC Davis Alumni Center
Description: Registration: https://docs.google.com/forms/d/e/1FAIpQLSeVnMXxhkMtlET-RGDgW99jA3lr1wS4hypU0kI6O1yGV0GqBg/viewform?usp=sf_link

Contact: Jeannette Martins jmartins@ucdavis.edu

Please, contact us now if you need letters of support to obtain funding from your home institutions.

The West Coast Metabolomics Center organizes an instructional course for researchers for researcher which need a deeper and broader understanding in the field of Metabolomics. This course will span 12 days from August 19-30, 2019.

In order to serve the group interests best and have interesting open discussions we have a small class of 22 participants. The participants come always from all over the world and have a very diverse research background.

The course will include:

study design, including pitfall analysis and hidden biases in studies from microbial, plant, mouse and human cohort research
sample preparation and quality control
in-laboratory detailed discussions standard operating procedures for GC-MS and LC-MS data acquisitions
targeted metabolomics, including monitoring charts and use of isotope labeled internal standards
exercises on flux analysis in cancer cells by isotope tracer analysis
untargeted data processing and exercises on MS-DIAL software (in comparison to XCMS)
exercises on identification of unknowns by cheminformatics software workflows (incl MS-FINDER, CFM-ID, and various databases and small software routines)
data normalization and transformation with and without internal standards and quality controls
multivariate and univariate statistics (incl MetDA in comparison to MetaboAnalyst)
pathway mapping (incl MetaBox consisting of MetDA, ChemRICH and MetaMapp in comparison to MetaboAnalyst)
Past course participation:
2018 course: 25 researchers from USA, Brazil, China, Japan, Korea, Taiwan, Russia, Norway, Germany, Poland, Canada
2017 course: 24 researchers from USA, Saudi-Arabia, China, , Korea, Italy, Denmark, Iran, United Kingdom
2016 course: 23 researchers from USA, Saudi-Arabia, China, Thailand, Japan, Italy, Brazil, Chile, Korea, and Canada.
2015 course: 21 researchers from USA, China, Germany, Brazil, Switzerland, Denmark, Canada, Korea, Malaysia, and Netherlands.
2014 course: 20 researchers from USA, New Zealand, Italy, Denmark, China, Canada, Turkey and Switzerland
2013 course: 20 researchers from USA, New Zealand, Costa Rica, Denmark, Luxembourg, Brazil, Columbia, Japan, Korea and Taiwan.
For questions, please contact our program representative Jeannette Martins (jmartins@ucdavis.edu).

Visiting Scientists
Participation in this course is mandatory for visiting international researchers who want to engage in collaborative research projects.
The minimum time span for such collaborative visits is 3 months, preferred is 12 months.
An additional payment of $500 for the visa has to be paid prior to arrival at UC Davis.

Each year, up to five international researchers have started such research visits, funded by agencies in their home countries.
Please contact us at least 6 months in advance to help you with letters of support, booking your course, and obtaining a visa for you.
Cancellation policy
Requests for refunds will be honored when received 2 month prior to the program. Refund requests can be only accepted in a written form. However, another person may be substituted at any time for this program, unless it requires issuing a new travel visa for international scholars.

A $150 administrative fee and the credit card fee will be deducted for cancellations.
In the unlikely event that this program is cancelled or postponed due to insufficient enrollments or unforeseen circumstances, the WCMC will fully refund registration fees but cannot be held responsible for any other expenses, including cancellation or change charges assessed by airlines, hotels, travel agencies, or other organizations.

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