PERCEPTRON: an open-source GPU-accelerated proteoform identification pipeline for top-down proteomics.

PERCEPTRON is a next-generation freely available web-based proteoform identification and characterization platform for top-down proteomics (TDP). PERCEPTRON search pipeline brings together algorithms for (i) intact protein mass tuning, (ii) de novo sequence tags-based filtering, (iii) characterization of terminal as well as post-translational modifications, (iv) identification of truncated proteoforms, (v) in silico spectral comparison, and (vi) weight-based candidate protein scoring. High-throughput performance is achieved through the execution of optimized code via multiple threads in parallel, on graphics processing units (GPUs) using NVidia Compute Unified Device Architecture (CUDA) framework. An intuitive graphical web interface allows for setting up of search parameters as well as for visualization of results. The accuracy and performance of the tool have been validated on several TDP datasets and against available TDP software. Specifically, results obtained from searching two published TDP datasets demonstrate that PERCEPTRON outperforms all other tools by up to 135% in terms of reported proteins and 10-fold in terms of runtime. In conclusion, the proposed tool significantly enhances the state-of-the-art in TDP search software and is publicly available at https://perceptron.lums.edu.pk. Users can also create in-house deployments of the tool by building code available on the GitHub repository (http://github.com/BIRL/Perceptron).

In vitro biological screening of the stem of Desmodium elegans.

OBJECTIVE: To explore the medicinal importance of the stem of Desmodium elegans, methanolic extract, and its different solvent fractions were evaluated for brine shrimp lethality, insecticidal and phytotoxicity, antifungal, and antibacterial activities. METHODS: The methanolic extract and its solvent fractions were tested for cytotoxic, phytotoxic, insecticidal, antifungal, and antibacterial effects using our previous published protocols. RESULTS: The methanolic, DCM, ethyl acetate and n-butanol fractions exhibited insecticidal effect against Callosobruchus analis and Rhyzopertha dominic. The methanolic extract, n-hexane, DCM ethyl acetate and n-butanol showed 75, 85, 85, 65 and 5% phytotoxicity at the tested concentration of 500 µg/mL respectively. The solvent fractions (DCM and ethyl acetate) were effective against F. solani (10% and 20% inhibition respectively). All the tested samples were devoid of cytotoxic and antibacterial effects. CONCLUSION: It was concluded that this plant can be practiced for control of weeds and insects.

Family planning practice in central Sudan.

Community and hospital based studies were conducted to assess the major factors related to the practice of family planning during 1989 and 1990 in Central Sudan. The mothers of 1592 births in the community and 1357 births in the hospital were interviewed by trained study workers. Prevalence of contraceptive use prior to current pregnancy was 13.0% and knowledge of a family planning method was 43.0% among hospital women and 51.0% among community women. The major predictors of use of a family planning method were parity, socioeconomic status, knowledge of source of service and maternal age. The average completed family size was 7.7 children and with the exception of a lengthy breast feeding duration, the factors examined favored a high fertility. Women preferred and apparently practiced behaviors conducive to spacing rather than limiting the number of their children. The results between the hospital, the community, and the Sudan Demographic and Health Survey 1989/1990 were consistent suggesting a minimal effect of selection bias and increasing the validity of these findings. Accessible and available family planning services coupled with wider information on family planning through health personnel and the media are needed. In particular, special efforts should be made to reach women of low socioeconomic status.

Morbidity patterns in a new paediatric hospital in Juba, Sudan.

A study of morbidity patterns in a new paediatric hospital in Juba, Sudan, showed malaria, gastroenteritis, pneumonia, dysentery and infections of the eye, ear, and skin to be the commonest conditions. During the entire period of the study, these conditions constituted more than 90% of the outpatient load. In a group of inpatients interviewed, immunization coverage was 22%, 46% of the mothers had been enrolled in school at some time, and only 17% of the families had a latrine at home. The mean number of living children per family was four and of those not surviving was two. These findings are related to an inadequate environment, lack of public health information, and low socioeconomic status. Immediate and long-term strategies are necessary to provide safe water, adequate latrines, better immunization coverage, income-generating practices, increase in female education, and general health education of females, children and youth.