Discovering potential interactions between rare diseases and COVID-19 by combining mechanistic models of viral infection with statistical modeling.

Recent studies have demonstrated a relevant role of the host genetics in the coronavirus disease 2019 (COVID-19) prognosis. Most of the 7000 rare diseases described to date have a genetic component, typically highly penetrant. However, this vast spectrum of genetic variability remains yet unexplored with respect to possible interactions with COVID-19. Here, a mathematical mechanistic model of the COVID-19 molecular disease mechanism has been used to detect potential interactions between rare disease genes and the COVID-19 infection process and downstream consequences. Out of the 2518 disease genes analyzed, causative of 3854 rare diseases, a total of 254 genes have a direct effect on the COVID-19 molecular disease mechanism and 207 have an indirect effect revealed by a significant strong correlation. This remarkable potential of interaction occurs for >300 rare diseases. Mechanistic modeling of COVID-19 disease map has allowed a holistic systematic analysis of the potential interactions between the loss of function in known rare disease genes and the pathological consequences of COVID-19 infection. The results identify links between disease genes and COVID-19 hallmarks and demonstrate the usefulness of the proposed approach for future preventive measures in some rare diseases.

Proteogenomics in the context of the Human Proteome Project (HPP).

INTRODUCTION: The technological and scientific progress performed in the Human Proteome Project (HPP) has provided to the scientific community a new set of experimental and bioinformatic methods in the challenging field of shotgun and SRM/MRM-based Proteomics. The requirements for a protein to be considered experimentally validated are now well-established, and the information about the human proteome is available in the neXtProt database, while targeted proteomic assays are stored in SRMAtlas. However, the study of the missing proteins continues being an outstanding issue. Areas covered: This review is focused on the implementation of proteogenomic methods designed to improve the detection and validation of the missing proteins. The evolution of the methodological strategies based on the combination of different omic technologies and the use of huge publicly available datasets is shown taking the Chromosome 16 Consortium as reference. Expert commentary: Proteogenomics and other strategies of data analysis implemented within the C-HPP initiative could be used as guidance to complete in a near future the catalog of the human proteins. Besides, in the next years, we will probably witness their use in the B/D-HPP initiative to go a step forward on the implications of the proteins in the human biology and disease.

Inflammasomes in Clinical Practice: A Brief Introduction.

Inflammasomes are multiprotein complexes formed and activated after exposure to pathogenic microbes and host danger signals that control the maturation and production of IL-1ß and IL-18. Their implication in different diseases such as cardiovascular, neurodegenerative, psychiatric, and metabolic diseases opens a door to developing new therapeutic perspectives. However, the rapid increase in the knowledge about inflammasomes is associated with their involvement in clinical practice. Two topics open the way to future lines of research: a clinical trial with the new specific inhibitors and the development of diagnostic tools.

Olive fruit growth and ripening as seen by vibrational spectroscopy.

The aim of this work was to examine the potential of ATR-FTIR and Raman spectroscopies to evaluate changes happening during the development and maturation of olive fruit. To do this, the spectra of the different parts of the olive (skin, flesh and stone) have been measured at different stages of development. The evolution of different spectral bands has been related to the content of olive constituents like triglycerides, water, carotenoids and phenolic compounds. Oil accumulation can be followed using both FTIR and Raman spectroscopy. The increase in bands at 1746 cm(-1) (ATR-FTIR) and 1440 cm(-1) (Raman) correlates well with the oil content in the fruit determined using the standard Soxhlet extraction method. In the case of overripe olives ATR-FTIR does not provide a representative spectrum of the olive flesh due to the accumulation of water on the surface of the ATR crystal. The increase of the content in carotenoids and phenolic compounds during olive growing and their decrease during the ripening phase can be successfully monitored by means of the Raman bands at 1525 and 1605 cm(-1), respectively.

Pharmaceutical powders analysis using FT-Raman spectrometry: simultaneous determination of sulfathiazole and sulfanilamide.

A procedure for rapid quantitative analysis of pharmaceutical powders is described. Powdered samples were measured in a rotating cell in order to avoid sub-sampling problems by increasing the irradiated area. Quantitative determination of sulfathiazole and sulfanilamide, using a simple univariate calibration model is proposed. Even though both antibacterials are of the same chemical family (sulfonamides), the richness of structural information contained in the Raman spectra allowed their determination using the area of two selected bands (1255 and 1629 cm(-1) for sulfathiazole and sulfanilamide, respectively). Relative standard deviation (R.S.D.) values (n=10) of 3.35% and 3.46% for sulfathiazole and sulfanilamide, respectively, demonstrate the good reproducibility of the measurement technique with the rotating cell. The method was successfully applied to the analysis of synthetic mixtures and commercial pharmaceutical powders. The procedure is suitable to be applied to pharmacopoeial uniformity of content testing of batches.

Flow-through sensor with Fourier transform Raman detection for determination of sulfonamides.

A flow-through sensor system with Fourier transform (FT) Raman spectroscopy as detection technique is described. The molecular and structural information contained in Raman spectra together with the selective retention of the species of interest on the sorbent make the proposed methodology highly selective. The flow-through sensor allowed the direct quantitative determination of sulfathiazole and sulfamethoxazole in the presence of other species that are normally encountered with these analytes. The system used Sephadex QAE A-25 resin as packing material of a flow-through cell on which sulfonamides were temporarily retained. Samples were transported by a carrier solution of NaOH 10(-2) mol l(-1) (pH = 12), and 2 ml of a [NaCl (0.10 mol l(-1))/NaOH (10(-2) mol l(-1))] solution was employed as eluent. Using a sample volume of 1 ml, the analytical signal was linear in the range 0.5-7 g l(-1) and 0.5-10 g l(-1), for sulfathiazole and sulfamethoxazole, respectively. RSDs (%) lower than 4% were obtained for both analytes. The sensor was satisfactorily applied to several commercial pharmaceutical preparations for human and animals in different physical presentations, including capsules, syrup, tablets, powders, injectables and suspensions.