Protim leads several programs of Research with strong technology innovation components, financed by contracts specifically assigned to them (ANR, FP7, InterReg IV, Horizon2020, FRM). Our technological developments are mainly conducted on a particular model: spermatogenesis.
As such, the platform is involved in a large-scale program for decrypting the proteome of normal and pathological genital areas (testicles, epididymis, seminal vesicles and prostate). A priority is given to proteins specific to the germ cell lineage that could play a key role in the regulation of spermatogenesis.
A significant part of our work is performed under the Human Proteome Project. As such, we are members of the french initiative Chromosome 14 of c-HPP. We recently teamed up with the Chromosome 2 initiative to characterize a first set of the so-called missing proteins in the human spermatozoa (Jumeau et al., 2015).
Systematic and integrative proteomics
Our work focuses on achieving high throughput analysis of cell extracts and biofluids (Lavigne et al., 2012). We are also interested in improving methods of analyses of the mass spectra and identification of proteins. Current approaches are based on Shotgun and Label-free mass spectrometry.
We have developed an approach to select proteins of interest through integrative proteomics which uses (at least) transcriptomic expression datasets for the search lists of proteins from systematic or differential analysis programs (Com et al., 2014). This approach is particularly relevant, for example, for highlighting biomarkers from biological fluids (Rolland et al., 2013), but equally for the selection of proteins involved in a biological phenomenon of interest (Chalmel/Com et al., 2014). A set of specific tools is being integrated into Galaxy.
Finally, we participate in the e-Biogenouest project. This project aims at integrating and at exploiting at best the data stemming from various technological platforms of Biogenouest with the aim of promoting a systematic approach of the biology.
Imaging mass spectrometry
Our work is focused on developing innovative solutions for toxicoproteomics. They are intended to aid in the understanding of the mechanisms underlying the toxicity of small molecules (environmental toxins, pharmaceutical molecules) within an organ. Our efforts are focused primarily on the co-localization of proteins and small molecules, their in situ quantification (ISAQTM) (Lagarrigue et al., 2014) and the demonstration of their interaction.
Our work also concerns improving the lateral resolution (Lagarrigue et al., 2011) and the development of statistical analysis algorithms for molecular images (Lagarrigue et al., 2012). Finally, Protim is a member of the European consortium 3D-Massomics whose objective is the development of three-dimensional MALDI imaging.
Developments, methodological optimizations and innovations in each of these programs are directly implemented as part of our collaborative activities