GEN-MKT-18-7897-A
Dec 4, 2015 | Blogs, Life Science Research, Proteomics | 0 comments
A recent webcast by Charles Pineau, Director of Protim, IRSET, Rennes, France, demonstrates how you can use the OneOmics™ Platform as a “Click & Easy” workflow for integrating next-generation proteomics (NGP) data with next-generation sequencing (NGS) data. Dr. Pineau and his colleagues are interested in gaining new insights into human spermatogenesis and understanding the dialogue between germ cells and somatic cells. In previous research using rat samples, over 1400 unannotated transcripts were identified. Subsequent proteogenomic studies then showed that some of those transcripts encoded for novel proteins. The data analysis for that research was performed using the open source EMBOSS suite of tools.
In the current study, the researchers were interested in analyzing human samples and developing a more simplified workflow for data analysis. Using the SCIEX TripleTOF® 6600, and the Illumina HiSeq 2500, over 1100 new potential transcripts were identified with more than 2 peptides at FDR < 1%. The OneOmics Platform was used for data processing and analysis. Compared with the previous open source EMBOSS suite of tools used in the rat studies, the OneOmics Platform was about 75x faster. Additionally, another major benefit using the OneOmics Platform was the relative ease with which the data could be analyzed compared with the previous workflow which required extensive user customization by writing scripts and formatting files. This enabled the researchers to focus on the biology rather than the complications associated with formatting datasets and transformation of files. Ongoing studies are taking a subset of candidates and validating them using MRM studies, qPCR, and immunohistochemistry.
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Trifluoroacetic acid (TFA) is emerging as one of the most concerning ultrashort-chain PFAS in Europe’s food supply – particularly in cereals, a staple consumed daily by millions. A report from PAN Europe reveals a widespread and largely unmonitored contamination trend that raises serious questions about food safety, regulatory blind spots, and future monitoring strategies.
PFAS analysis is complex, but expert guidance doesn’t have to be. In this episode of our ‘Ask the PFAS expert series’, we’re joined by Michael Scherer, Application Lead for Food and Environmental, to answer the most pressing questions in PFAS analysis. From why LC-MS/MS systems are the gold standard for analyzing diverse PFAS compounds, to which EU methods deliver reliable results for drinking water, and to practical steps to prevent contamination, Michael shares actionable insights to help laboratories achieve accuracy, consistency, and confidence in their workflows.
During an LC-MS/MS experiment, traditional fragmentation techniques like collision-induced dissociation (CID) have long been the gold standard. Electron-activated dissociation (EAD) is emerging as a transformative tool that enhances structural elucidation, particularly for complex or labile metabolites.
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