Project description:Cancer: Surviving and Thriving is a 6-week workshop for cancer survivors. The overall goal of the study is to determine whether an online cancer survivor education and support workshop can have lasting beneficial effects in helping survivors improve their self-management of health skills and quality of life.
Project description:<p>The Metabolomics workshop on experimental and data analysis training for untargeted metabolomics was hosted by the Proteomics Society of India in December 2019. The Workshop included six tutorial lectures and hands-on data analysis training sessions presented by seven speakers. The tutorials and hands-on data analysis sessions focused on workflows for liquid chromatography-mass spectrometry (LC-MS) based on untargeted metabolomics. We review here three main topics from the workshop which were uniquely identified as bottlenecks for new researchers: a) experimental design, b) quality controls during sample preparation and instrumental analysis and c) data quality evaluation. Our objective here is to present common challenges faced by novice researchers and present possible guidelines and resources to address them. We provide resources and good practices for researchers who are at the initial stage of setting up metabolomics workflows in their labs.</p><p><br></p><p>Complete detailed metabolomics/lipidomics protocols are available online at <a href='https://www.embl.de/mcf/metabolomics-core-facility/protocols/index.html' rel='noopener noreferrer' target='_blank'>EMBL-MCF protocol</a> including <a href='https://www.embl.de/mcf/metabolomics-core-facility/video-tutorials/index.html' rel='noopener noreferrer' target='_blank'>video tutorials</a>.</p>
Project description:<p>Individuals vary widely in their drug responses, which can be dangerous and expensive due to treatment delays and adverse effects. Growing evidence implicates the gut microbiome in this variability, however the molecular mechanisms remain largely unknown. We measured the ability of 76 diverse human gut bacteria to metabolize 271 oral drugs and found that many of these drugs are chemically modified by microbes. We combined high-throughput genetics with mass spectrometry to systematically identify drug-metabolizing microbial gene products. These microbiome-encoded enzymes can directly and significantly impact intestinal and systemic drug metabolism in mice, and can explain drug-metabolizing activities of human gut bacteria and communities based on their genomic contents. These causal links between microbiota gene content and metabolic activities connect interpersonal microbiome variability to interpersonal differences in drug metabolism, which has implications for medical therapy and drug development across multiple disease indications.</p><p><br></p><p>Additional data related to this study can also be found by the following links;</p><p>- Raw sequencing data; <a href='https://www.ebi.ac.uk/ena/data/view/PRJEB31790' rel='noopener noreferrer' target='_blank'>ENA (accession no. PRJEB31790)</a></p><p>- Data for Figures; <a href='https://doi.org/10.6084/m9.figshare.8119058' rel='noopener noreferrer' target='_blank'>FigShare</a> </p><p>- Analysis pipeline schemes, scripts and input files for analzing data and generating figures; <a href='https://github.com/mszimmermann/drug-bacteria-gene_mapping' rel='noopener noreferrer' target='_blank'>GitHub</a> and archived <a href='https://doi.org/10.5281/zenodo.2827640' rel='noopener noreferrer' target='_blank'>Zenodo</a></p>
Project description:LC-MS/MS data of crude extracts produced by isolated bacteria recovered from Brazilian Rocas Atoll. Subset of MSV000083601 for use as an example dataset on the Workshop on Advanced Mass Spectometry 2025.