The IPDGC/GP2 Hackathon - an open science event for training in data science, genomics, and collaboration using Parkinson’s disease data

Open science and collaboration are necessary to facilitate the advancement of Parkinson's disease (PD) research. Hackathons are collaborative events that bring together people with different skill sets and backgrounds to generate resources and creative solutions to problems. These events can be used as training and networking opportunities, thus we coordinated a virtual 3-day hackathon event, during which 49 early-career scientists from 12 countries built tools and pipelines with a focus on PD. Resources were created with the goal of helping scientists accelerate their own research by having access to the necessary code and tools. Each team was allocated one of nine different projects, each with a different goal. These included developing post-genome-wide association studies (GWAS) analysis pipelines, downstream analysis of genetic variation pipelines, and various visualization tools. Hackathons are a valuable approach to inspire creative thinking, supplement training in data science, and foster collaborative scientific relationships, which are foundational practices for early-career researchers. The resources generated can be used to accelerate research on the genetics of PD

The IPDGC/GP2 Hackathon - an open science event for training in data science, genomics, and collaboration using Parkinson's disease data

Open science and collaboration are necessary to facilitate the advancement of Parkinson's disease (PD) research. Hackathons are collaborative events that bring together people with different skill sets and backgrounds to generate resources and creative solutions to problems. These events can be used as training and networking opportunities, thus we coordinated a virtual 3-day hackathon event, during which 49 early-career scientists from 12 countries built tools and pipelines with a focus on PD. Resources were created with the goal of helping scientists accelerate their own research by having access to the necessary code and tools. Each team was allocated one of nine different projects, each with a different goal. These included developing post-genome-wide association studies (GWAS) analysis pipelines, downstream analysis of genetic variation pipelines, and various visualization tools. Hackathons are a valuable approach to inspire creative thinking, supplement training in data science, and foster collaborative scientific relationships, which are foundational practices for early-career researchers. The resources generated can be used to accelerate research on the genetics of PD.This project was supported by the Global Parkinson’s Genetics Program (GP2). GP2 is funded by the Aligning Science Against Parkinson’s (ASAP) initiative and implemented by The Michael J. Fox Foundation for Parkinson’s Research (https://gp2.org).Open Access funding provided by the National Institutes of Health (NIH).This research was supported in part by the Intramural Research Program of the NIH, National Institute on Aging (NIA), National Institutes of Health, Department of Health and Human Services; project numbers ZO1 AG000535 and ZO1 AG000949, as well as the National Institute of Neurological Disorders and StrokePeer reviewe

Mapping the Diverse and Inclusive Future of Parkinson’s Disease Genetics and Its Widespread Impact

Over the last decades, genetics has been the engine that has pushed us along on our voyage to understand the etiology of Parkinson’s disease (PD). Although a large number of risk loci and causative mutations for PD have been identified, it is clear that much more needs to be done to solve the missing heritability mystery. Despite remarkable efforts, as a field, we have failed in terms of diversity and inclusivity. The vast majority of genetic studies in PD have focused on individuals of European ancestry, leading to a gap of knowledge on the existing genetic differences across populations and PD as a whole. As we move forward, shedding light on the genetic architecture contributing to PD in non-European populations is essential, and will provide novel insight into the generalized genetic map of the disease. In this review, we discuss how better representation of understudied ancestral groups in PD genetics research requires addressing and resolving all the challenges that hinder the inclusion of these populations. We further provide an overview of PD genetics in the clinics, covering the current challenges and limitations of genetic testing and counseling. Finally, we describe the impact of worldwide collaborative initiatives in the field, shaping the future of the new era of PD genetics as we advance in our understanding of the genetic architecture of PD

Green Synthesis of Nano Zinc Oxide/Nanohydroxyapatite Composites Using Date Palm Pits Extract and Eggshells: Adsorption and Photocatalytic Degradation of Methylene Blue

In this study, zinc oxide nanoparticles (ZnO) and nanohydroxyapatite (NHAP) were prepared in the presence of date palm pits extract (DPPE) and eggshells, respectively. Another four nanocomposites were prepared from ZnO and NHAP in different ratios (ZP13, ZP14, ZP15, and ZP16). DPPE and all nanomaterials were characterized using GC-MS, zeta potentials, particle size distributions, XRD, TEM, EDX, FTIR, and pHPZC. The characterization techniques confirmed the good distribution of ZnO nanoparticles on the surface of NHAP in the prepared composites. Particles were found to be in the size range of 42.3–66.1 nm. The DPPE analysis confirmed the presence of various natural chemical compounds which act as capping agents for nanoparticles. All the prepared samples were applied in the adsorption and photocatalytic degradation of methylene blue under different conditions. ZP14 exhibited the maximum adsorption capacity (596.1 mg/g) at pH 8, with 1.8 g/L as the adsorbent dosage, after 24 h of shaking time, and the static adsorption kinetic process followed a PSO kinetic model. The photocatalytic activity of ZP14 reached 91% after 100 min of illumination at a lower MB concentration (20 mg/L), at pH 8, using 1.5 g/L as the photocatalyst dosage, at 25 °C. The photocatalytic degradation of MB obeyed the Langmuir–Hinshelwood first-order kinetic model, and the photocatalyst reusability exhibited a slight loss in activity (~4%) after five cycles of application

The role of diffusion-weighted magnetic resonance imaging in T staging and grading of urinary bladder cancer

Purpose: To evaluate the ability of diffusion-weighted imaging (DWI) in T staging of urinary bladder cancer and the correlation between the apparent diffusion coefficient (ADC) and tumor grading. Patients and methods: This study included 40 patients with bladder mass diagnosed by ultrasonography. MR imaging sequences included, T2WI, DWI, ADC and T1 postcontrast MRI were done. The correlation between magnetic resonance findings and histopathological results was done. Results: Of all forty patients, 14 patients (35%) were T1, 18 (45%) patients were T2, and 8 (20%) patients were T3. The overall accuracy of T2WI, DWI and postcontrast imaging sequences in differentiating superficial from invasive tumor was 60%, 85% and 75% respectively. The overall accuracy of T2WI, DWI and postcontrast imaging sequences in differentiating organ confined from non-organ confined tumor was 80%, 90% and 70% respectively. The mean ADC value was 0.95 ± 0.13 × 10–3 mm2/s in low grade tumors and 0.69 ± 0.12 × 10–3 mm2/s in high grade tumors. Conclusion: DWI has a higher overall accuracy compared to both T2WI and postcontrast T1WI in T staging of bladder cancer, and also ADC value can predict the tumor grade. So, DWI can be recommended as promising MRI sequence in urinary bladder T staging and grading

Properties of Cu(In,Ga,Al)Se² Thin Films Fabricated By Magnetron Sputtering

Cu (In,Ga,Al)Se2 (CIGAS) thin films were studied as an alternative absorber layer material to Cu(InxGa1-x)Se2. CIGAS thin films with varying Al content were prepared by magnetron sputtering on Si(100) and soda-lime glass substrates at 350 °C, followed by postdeposition annealing at 520 °C for 5 h in vacuum. The film composition was measured by an electron probe microanalyzer while the elemental depth profiles were determined by secondary ion mass spectrometry. X-ray diffraction studies indicated that CIGAS films are single phase with chalcopyrite structure and that the (112) peak clearly shifts to higher 2θ values with increasing Al content. Scanning electron microscopy images revealed dense and well-defined grains, as well as sharp CIGAS/Si(100) interfaces for all films. Atomic force microscopy analysis indicated that the roughness of CIGAS films decreases with increasing Al content. The bandgap of CIGAS films was determined from the optical transmittance and reflectance spectra and was found to increase as Al content increased

Zinc Oxide Nanoparticles and Fe-Modified Activated Carbon Affecting the In Vitro Growth of Date Palm Plantlets cv. Medjool

The survival and growth of in vitro plantlets are still problematic for the date palm; thus, the application of nanotechnology may provide date palm plantlets that develop faster with enhanced growth and biochemical parameters. Moreover, the usage of Fe-modified activated carbon (Fe-AC) prepared from date palm pits instead of activated charcoal (AC) in tissue culture media during the current investigation can be considered an innovative approach. Furthermore, the effect of zinc oxide nanoparticles (ZnO-NPs) and bulk particles (ZnO-BPs) on the rooting and growth of date palm plantlets and on some physiological indices was also investigated. X-ray diffraction, dynamic light scattering, scanning electron microscopy, and transmission electron microscopy were used to characterize Fe-AC and ZnO-NPs. As detected from the characterization, the particle size was 720 nm for Fe-AC and 60 nm for ZnO-NPs. The obtained results indicated that AC significantly enhanced plantlet growth, plantlet height, number of leaves/plantlet, root length, number of roots/plantlet, and the concentrations of IAA, chlorophyll a and chlorophyll b compared with Fe-AC. On the other hand, sugars and phenols concentrations, and POD and PAL activities were highly increased with Fe-AC. There was no significant difference in terms of plant fresh weight (FW), leaf length, leaf width, protein, amino acids, and carotenoids. ZnO nanoparticles significantly improved plant height, leaf length, leaf width, root length, and the concentrations of IAA, chlorophylls a and b, and carotenoids; in contrast, the bulk form increased roots/plantlet, amino acids, and total sugars. Supplying the MS medium with combinations of ZnO-NPs or ZnO-BPs and AC or Fe-AC significantly increased all growth and physiological parameters. Plant height, leaf length, leaf width, root length, and the concentrations of IAA, protein, and chlorophylls a and b significantly increased when ZnO-NPs were combined with AC. Amino acids, total sugars, carotenoids, and phenols concentrations and the activities of POD and PAL increased when ZnO-BPs and Fe-AC were added together