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1. Interpreting and reporting 40Ar/39Ar geochronologic data

   https://doi.org/10.1130/B35560.1  

   Schaen, Allen J.; Jicha, Brian R.; Hodges, Kip V.; Vermeesch, Pieter; Stelten, Mark E.; Mercer, Cameron M.; Phillips, David; Rivera, Tiffany A.; Jourdan, Fred; Matchan, Erin L.; et al (July 2020, GSA Bulletin)

   null (Ed.)

   Abstract The 40Ar/39Ar dating method is among the most versatile of geochronometers, having the potential to date a broad variety of K-bearing materials spanning from the time of Earth’s formation into the historical realm. Measurements using modern noble-gas mass spectrometers are now producing 40Ar/39Ar dates with analytical uncertainties of ∼0.1%, thereby providing precise time constraints for a wide range of geologic and extraterrestrial processes. Analyses of increasingly smaller subsamples have revealed age dispersion in many materials, including some minerals used as neutron fluence monitors. Accordingly, interpretive strategies are evolving to address observed dispersion in dates from a single sample. Moreover, inferring a geologically meaningful “age” from a measured “date” or set of dates is dependent on the geological problem being addressed and the salient assumptions associated with each set of data. We highlight requirements for collateral information that will better constrain the interpretation of 40Ar/39Ar data sets, including those associated with single-crystal fusion analyses, incremental heating experiments, and in situ analyses of microsampled domains. To ensure the utility and viability of published results, we emphasize previous recommendations for reporting 40Ar/39Ar data and the related essential metadata, with the amendment that data conform to evolving standards of being findable, accessible, interoperable, and reusable (FAIR) by both humans and computers. Our examples provide guidance for the presentation and interpretation of 40Ar/39Ar dates to maximize their interdisciplinary usage, reproducibility, and longevity. 

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2. Thunor: visualization and analysis of high-throughput dose–response datasets

   https://doi.org/10.1093/nar/gkab424  

   Lubbock, Alexander L; Harris, Leonard A; Quaranta, Vito; Tyson, Darren R; Lopez, Carlos F (May 2021, Nucleic Acids Research)

   Abstract High-throughput cell proliferation assays to quantify drug-response are becoming increasingly common and powerful with the emergence of improved automation and multi-time point analysis methods. However, pipelines for analysis of these datasets that provide reproducible, efficient, and interactive visualization and interpretation are sorely lacking. To address this need, we introduce Thunor, an open-source software platform to manage, analyze, and visualize large, dose-dependent cell proliferation datasets. Thunor supports both end-point and time-based proliferation assays as input. It provides a simple, user-friendly interface with interactive plots and publication-quality images of cell proliferation time courses, dose–response curves, and derived dose–response metrics, e.g. IC50, including across datasets or grouped by tags. Tags are categorical labels for cell lines and drugs, used for aggregation, visualization and statistical analysis, e.g. cell line mutation or drug class/target pathway. A graphical plate map tool is included to facilitate plate annotation with cell lines, drugs and concentrations upon data upload. Datasets can be shared with other users via point-and-click access control. We demonstrate the utility of Thunor to examine and gain insight from two large drug response datasets: a large, publicly available cell viability database and an in-house, high-throughput proliferation rate dataset. Thunor is available from www.thunor.net. 

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3. Oral tradition as emplacement: Ancestral Blackfoot memories of the Rocky Mountain Front

   https://doi.org/10.1177/14696053211019837  

   Zedeño, María Nieves; Pickering, Evelyn; Lanoë, François (October 2021, Journal of Social Archaeology)

   We highlight the significance of process, event, and context of human practice in Indigenous Creation traditions to integrate Blackfoot “Napi” origin stories with environmental, geological, and archaeological information pertaining to the peopling of the Northwestern Plains, where the northern Rocky Mountain Front may have played a prominent role. First, we discuss the potential and limitations of origin stories generally, and Napi stories specifically, for complementing the fragmentary records of early human presence in the Blackfoot homeland. Second, we demonstrate the intimate connection among processes, events, place-making practices, and stories. Last, we aim to expand multivocality in the interpretation of the deep past through an archaeological practice that considers Indigenous philosophies and stories to be as valid as non-Indigenous ones. 

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4. DP2-Pub: Differentially Private High-Dimensional Data Publication With Invariant Post Randomization

   https://doi.org/10.1109/TKDE.2023.3265605  

   Jiang, Honglu; Yu, Haotian; Cheng, Xiuzhen; Pei, Jian; Pless, Robert; Yu, Jiguo (April 2023, IEEE transactions on knowledge and data engineering)

   A large amount of high-dimensional and heterogeneous data appear in practical applications, which are often published to third parties for data analysis, recommendations, targeted advertising, and reliable predictions. However, publishing these data may disclose personal sensitive information, resulting in an increasing concern on privacy violations. Privacy-preserving data publishing has received considerable attention in recent years. Unfortunately, the differentially private publication of high dimensional data remains a challenging problem. In this paper, we propose a differentially private high-dimensional data publication mechanism (DP2-Pub) that runs in two phases: a Markov-blanket-based attribute clustering phase and an invariant post randomization (PRAM) phase. Specifically, splitting attributes into several low-dimensional clusters with high intra-cluster cohesion and low inter-cluster coupling helps obtain a reasonable allocation of privacy budget, while a double-perturbation mechanism satisfying local differential privacy facilitates an invariant PRAM to ensure no loss of statistical information and thus significantly preserves data utility. We also extend our DP2-Pub mechanism to the scenario with a semi-honest server which satisfies local differential privacy. We conduct extensive experiments on four real-world datasets and the experimental results demonstrate that our mechanism can significantly improve the data utility of the published data while satisfying differential privacy. 

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5. Assessing the state of research data publication in hydrology: A perspective from the Consortium of Universities for the Advancement of Hydrologic Science, Incorporated

   https://doi.org/10.1002/wat2.1422  

   Horsburgh, Jeffery S.; Hooper, Richard P.; Bales, Jerad; Hedstrom, Margaret; Imker, Heidi J.; Lehnert, Kerstin A.; Shanley, Lea A.; Stall, Shelley (March 2020, WIREs Water)

   Abstract Many have argued that datasets resulting from scientific research should be part of the scholarly record as first class research products. Data sharing mandates from funding agencies and scientific journal publishers along with calls from the scientific community to better support transparency and reproducibility of scientific research have increased demand for tools and support for publishing datasets. Hydrology domain‐specific data publication services have been developed alongside more general purpose and even commercial data repositories. Prominent among these are the Hydrologic Information System (HIS) and HydroShare repositories developed by the Consortium of Universities for the Advancement of Hydrologic Science, Inc. (CUAHSI). More broadly, however, multiple organizations have been involved in the practice of data publication in the hydrology domain, each having different roles that have shaped data publication and reuse. Bibliographic and archival approaches to data publication have been advanced, but both have limitations with respect to hydrologic data. Specific recommendations for improving data publication infrastructure, support, and practices to move beyond existing limitations and enable more effective data publication in support of scientific research in the hydrology domain include: improving support for journal article‐based data access and data citation, considering the workflow for data publication, enhancing support for reproducible science, encouraging publication of curated reference data collections, advancing interoperability standards for sharing data and metadata among repositories, developing partnerships with university libraries offering data services, and developing more specific data management plans. While presented in the context of CUAHSI's data repositories and experience, these recommendations are broadly applicable to other domains. This article is categorized under:Science of Water > Methods 

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