Science Research Weekly

Get ready for deep-ocean oxidation dates, no giant impact for Jupiter’s core, common meds making antibiotic resistance worse, arsenic-mineralizing marine worms, the July 2025 Top 40 new CRAN packages, a plea for PyPAN: the Python Package Archive Network, and a grant on aging mammalian tissues in vitro. Science On. References: * Mid-Devonian ocean oxygenation enabled the expansion of animals into deeper-water habitats [https://www.pnas.org/doi/10.1073/pnas.2501342122] * No dilute core produced in simulations of giant impacts on to Jupiter [https://academic.oup.com/mnras/article/542/2/947/8238119] * The effect of commonly used non-antibiotic medications on antimicrobial resistance development in Escherichia coli [https://www.nature.com/articles/s44259-025-00144-w] * A deep-sea hydrothermal vent worm detoxifies arsenic and sulfur by intracellular biomineralization of orpiment (As2S3) [https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3003291] * July 2025 Top 40 New CRAN Packages [https://www.r-bloggers.com/2025/08/july-2025-top-40-new-cran-packages/] * How many parameters does GPT-5 have? [https://www.r-bloggers.com/2025/08/how-many-parameters-does-gpt-5-have/] * Python needs its CRAN [https://www.r-bloggers.com/2025/08/python-needs-its-cran/] * The European Bioconductor Conference [https://eurobioc2025.bioconductor.org/] * NIH: Aging Mammalian Tissues In Vitro [https://www.grants.gov/search-results-detail/359723] * NIH: Stephen I. Katz Early Stage Investigator Research Project Grant (non-clinical trial) [https://www.grants.gov/search-results-detail/358879] * NIH: Stephen I. Katz Early Stage Investigator Research Project Grant (human subjects) [https://www.grants.gov/search-results-detail/358880] R Packages: * ham: Healthcare Analysis Methods * multideploy: Deploy File Changes Across Multiple 'GitHub' Repositories * SampleSizeCalculator: Sample Size Calculator under Complex Survey Design * tidypopgen: Tidy Population Genetics * mlspatial: Machine Learning and Mapping for Spatial Epidemiology * gwas2crispr: GWAS-to-CRISPR Data Pipeline for High-Throughput SNP Target Extraction * ggdiceplot: Dice Plot Visualization for 'ggplot2'

Get ready for a potential cancer vaccine, a carbon ring stabilized by smaller rings, Uranus’ newest tiny moon, absurd conversions in R, and funding from the American Lung Association. Science On. References: * Sensitization of tumours to immunotherapy by boosting early type-I interferon responses enables epitope spreading [https://www.nature.com/articles/s41551-025-01380-1] * Solution-phase stabilization of a cyclocarbon by catenane formation [https://www.science.org/doi/10.1126/science.ady6054] * SwRI-led Webb Telescope survey discovers new moon orbiting Uranus [https://www.swri.org/newsroom/press-releases/swri-led-webb-telescope-survey-discovers-new-moon-orbiting-uranus] * Python Developers Survey 2024 Results [https://lp.jetbrains.com/python-developers-survey-2024/#] * Handling Missing Data in R: A Comprehensive Guide [https://www.r-bloggers.com/2025/08/handling-missing-data-in-r-a-comprehensive-guide/] * Learning Antimicrobial Resistance (AMR) genes with Bioconductor [https://www.r-bloggers.com/2025/08/learning-antimicrobial-resistance-amr-genes-with-bioconductor/] * Little useless-useful R functions – Absurd converter with Markdown report [https://www.r-bloggers.com/2025/08/little-useless-useful-r-functions-absurd-converter-with-markdown-report/] * American Lung Association: Awards and Grants Opportunities [https://www.lung.org/research/awards-and-grants-opportunities] R Packages: * Nematode: Ecological Indices Calculator for Nematode Communities * confidenceCurves: Frequentist Confidence Analysis for Clinical Trials * ggdiagram: Object-Oriented Diagram Plots with 'ggplot2' * csdb: An Abstracted System for Easily Working with Databases with Large Datasets * gtregression: Tools for Creating Publication-Ready Regression Tables

Get ready for Antarctic submarine canyons, a medicated gel for diabetic wound healing, rapid electronic detection of infectious and chronic diseases, SAS and R in tandem, and several grants from private foundations. Science On. References: The geomorphometry of Antarctic submarine canyons [https://www.sciencedirect.com/science/article/pii/S0025322725001331?via%3Dihub] Engineered sEVs encapsulated in GelMA facilitated diabetic wound healing by promoting angiogenesis via targeting thrombospondin-1 [https://academic.oup.com/burnstrauma/advance-article/doi/10.1093/burnst/tkaf036/8161322] Nanoparticle-Supported, Rapid, and Electronic Detection of SARS-CoV-2 Antibodies and Antigens at the Subfemtomolar Level [https://pubs.acs.org/doi/10.1021/acsnano.5c12083] Building seamless data pipelines across multiple languages: A life sciences and healthcare use case leveraging R and SAS [https://blogs.sas.com/content/sgf/2025/08/07/building-seamless-data-pipelines-across-multiple-languages/] Gateway for Cancer Research Grant Program [https://gatewaycr.smapply.org/] IAFNS Cognitive Health Committee Request for Proposals [https://iafns.org/wp-content/uploads/2025/07/RFP-IAFNS-Cognitive-Health-Nutrients-for-Brain-Health-FINAL.pdf] Simons Collaborations in Ecology and Evolution [https://www.simonsfoundation.org/grant/simons-collaborations-in-ecology-and-evolution/]

Get ready for the power of iNaturalist in biodiversity research, mechanisms behind lightning strikes, multi-region brain organoids, programmable chromosome engineering, an idealized double-slit experiment, why hardware may need a new foundation, animated maps in R, and a grant from PepsiCo on novel proteins. Science On. * References: * iNaturalist accelerates biodiversity research [https://academic.oup.com/bioscience/advance-article/doi/10.1093/biosci/biaf104/8185761] * Photoelectric Effect in Air Explains Lightning Initiation and Terrestrial Gamma Ray Flashes [https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2025JD043897] * Multi-Region Brain Organoids Integrating Cerebral, Mid-Hindbrain, and Endothelial Systems [https://advanced.onlinelibrary.wiley.com/doi/10.1002/advs.202503768] * Iterative recombinase technologies for efficient and precise genome engineering across kilobase to megabase scales [https://www.cell.com/cell/abstract/S0092-8674(25)00800-1?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0092867425008001%3Fshowall%3Dtrue] * Inhibition of the minor spliceosome restricts the growth of a broad spectrum of cancers [https://www.embopress.org/doi/full/10.1038/s44319-025-00511-8] * Coherent and Incoherent Light Scattering by Single-Atom Wave Packets [https://journals.aps.org/prl/abstract/10.1103/zwhd-1k2t] * Einstein was wrong: MIT just settled a 100-year quantum debate [https://www.sciencedaily.com/releases/2025/07/250729044705.htm] * Surfactants Steer Supraparticle Structure [https://www.advancedsciencenews.com/surfactants-steer-supraparticle-structure/] * Journal of Statistical Software Volume 113 [https://www.jstatsoft.org/issue/view/v113] * Why Hardware Needs a New Foundation [https://juliahub.com/blog/why-hardware-needs-a-new-foundation] * 3 ways to estimate parameters when fitting a distribution to data [https://blogs.sas.com/content/iml/2025/08/06/param-est-distribution.html] * Introduction to Generalised Linear Models with Prussian Horse Kicks [https://www.r-bloggers.com/2025/08/introduction-to-generalised-linear-models-with-prussian-horse-kicks/] * Animated Maps with {ggplot2} and {gganimate} [https://www.r-bloggers.com/2025/07/animated-maps-with-ggplot2-and-gganimate/] * Novel proteins, peptides and amino acids with health benefits [https://www.halo.science/request_for_solutions/novel-proteins-peptides-and-amino-acids-with-health-benefits]

Get ready for radiation-hardened data chips, a universal Deepfake detector, plant virus cancer immunotherapy, June’s top 40 new CRAN packages, and a grant from the NSF on Future Computing Research. Science On. References: * A Radiation-Hard 8-Channel 15-Bit 40-MSPS ADC for the ATLAS Liquid Argon Calorimeter Readout [https://ieeexplore.ieee.org/document/11017335] * Towards a Universal Synthetic Video Detector: From Face or Background Manipulations to Fully AI-Generated Content [https://arxiv.org/pdf/2412.12278] * Comparative analyses for plant virus-based cancer immunotherapy drug development [https://www.cell.com/cell-biomaterials/fulltext/S3050-5623(25)00086-8?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS3050562325000868%3Fshowall%3Dtrue] * June 2025 Top 40 New CRAN Packages [https://www.r-bloggers.com/2025/07/june-2025-top-40-new-cran-packages/] * NSF Computer and Information Science and Engineering (CISE): Future Computing Research [https://www.grants.gov/search-results-detail/360149] R Packages: * ggdibbler: Add Uncertainty to Data Visualisations * simIC: Simulate and Analyze Interval- and Mixed-Censored Survival Data * suRface.analytics: Statistical Analysis and Visualization of Surface-Engineered Material Properties * staninside: Facilitating the Use of 'Stan' Within Packages * ggcorrheatmap: Make Flexible 'ggplot2' Correlation Heatmaps