The integration of multi-omics data is a major approach for the understanding of pathophysiological mechanisms and the discovery of biomarkers in health. However, few multi-omics data are publicly available to date. In a study recently published in the open data...
Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort
A multi-omics analysis combined with artificial intelligence was conducted on a cohort of young patients (younger than 50 years) without major comorbidities including 47 “critical” (in the ICU under mechanical ventilation), 25 “non-critical” (in a non-critical care...
Optimized Sample Preparation and Data Processing of Data-Independent Acquisition Methods for the Robust Quantification of Trace-Level Host Cell Protein Impurities in Antibody Drug Products
Host cell proteins (HCPs) are a major class of bioprocess-related impurities generated by the host organism and are generally present at low levels in purified biopharmaceutical products. The monitoring of these impurities is identified as an important critical...
The box C/D snoRNP assembly factor Bcd1 interacts with the histone chaperone Rtt106 and controls its transcription dependent activity
The small nucleolar particles of the C/D box snoRNP family participate in the biogenesis of ribosomes whose function is to decode the information carried by mRNA to synthesize proteins. Teams from the IMoPA (Nancy), IPHC/LSMBO/ProFI-Strasbourg (Strasbourg), GIM...
Along with the publication of the "Blueprint" map of the Human Proteome in Nature Communications, JPR has just published a "virtual issue" of a selection of 60 publications on the human proteome celebrating 10 years of the Human Proteome Project....
We are pleased and very proud to announce the publication of Proline in Bioinformatics.
Here, we present Proline, a robust software suite for analysis of MS-based proteomics data which collects, processes, allows visualization and publication of proteomics datasets. We illustrate its ease of use for various steps in the validation and quantification workflow, its data curation capabilities and its computational efficiency….
Feel free to try the software by downloading the zero installation version.
Although biomarkers are widely used, important limitations have been identified due to their lack of specificity. An a priori knowledge-based approach (i.e. based on mechanistic criteria specific to the genesis of a disease) that takes advantage of ever-increasing “omics” databases could be a powerful way to identify biomarkers, provided that scientists have access to computer tools to search the data even when they have little experience in programming or bioinformatics support.
Bouyssié D, Lesne J, Locard-Paulet M, Albigot R, Burlet-Schiltz O, Marcoux J. Bioinformatics. 2019 Jul 9. pii: btz550. doi: 10.1093/bioinformatics/btz550. With the advent of fully automated sample preparation robots for Hydrogen–Deuterium eXchange coupled to Mass...
In-vivo and in-vitro produced bacteriocin samples were analyzed by Top-Down MS to characterize the thioether bridge arrangement of a new class of sactipeptides produced by the gut symbiont. This original structure confers activity against pathogenic Clostridia and other multidrug-resistant strains and have no toxicity towards eukaryotic cells. This bacteriocin should be considered as a valuable candidate for drug development.
Integrative multi-OMICS analyses unveil STAT1 as a potential modifier gene in mevalonate kinase deficiency
We provide a proteogenomics analysis pipeline that takes advantage of subject-specific genomic and transcriptomic information to improve protein identification and hence advance individualised medicine.
R2TP is an HSP90 co-chaperone that assembles important macro-molecular machineries. It is composed of an RPAP3-PIH1D1 heterodimer, which binds the two essential AAA+ATPases RUVBL1/RUVBL2.
This new web application offers a user-friendly interface for dynamic inspection and direct comparison of topdown proteomics data.
With their huge DNA genomes packed in amphora-shaped particles of bacterium-like dimension, the Acanthamoeba-infecting Pandoraviridae remained the most spectacular and intriguing viruses since their 1st description in 2013.
IL-33 is a mediator of allergic inflammation and is localized in mucosal tissues to respond rapidly to environmental insults. These include allergens themselves, which can directly activate IL-33 through their intrinsic proteolytic activity. We used mass spectrometry to characterize maturation processes induced by allergens, involved in activation of IL-33 and asthma.
Mass-spectrometry based proteomics combined with N-terminal chemical labelling using TMPP allows the characterization of proteolytic cleavage sites of Persephone by microbial proteases
The MS Top 3-ID-DIA method allows global Host Cell Proteins (HCP) profiling and absolute quantification of key HCP within a single analysis, and therefore constitutes a promising alternative to classical ELISA kits to support bioprocess development.
In the context of the C-HPP worldwide effort, ProFI as a partner of the French-Swiss consortium, contributed to the targeted search of 38 theoretically detectable missing proteins (MPs) from chromosomes 2 and 14 various sperm fractions from a total of 15 healthy donors.