cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7281/t1/vwq4j3
title: Data associated with the 2020 JAMA Network Open publication entitled: ‘Effect of intensivist communication in a simulated setting on interpretation of prognosis among family members of patients at high risk of intensive care unit admission: A randomized trial'

description: Importance: Intensivist-surrogate discordance about prognosis is common in the intensive care unit (ICU). Empowering families to make informed decisions about their loved one’s care is important, but it is unclear how best to communicate prognostic information to vulnerable surrogates when a patient is expected to die. Objective: To test the hypothesis that family members interpret intensivists as being more optimistic when their questions about prognosis are answered indirectly. Design: Between September 27 and October 17, 2019 we conducted a web-based randomized trial of video vignettes depicting an intensivist answering a standardized question about the prognosis of a patient at high risk for death on ICU day 3. Setting: Web-based simulation Participants: National sample of adult children, spouses/partners, or siblings of patients with COPD on long term oxygen therapy. Participants were excluded if they had worked as a doctor, nurse, or advanced practice provider. Intervention: Participants were randomized to view one of 4 intensivist communication styles in response to the question “What do you think is most likely to happen?”: 1) a direct response (control), 2) an indirect response comparing the patient’s condition to other patients, 3) an indirect response describing physiology, or 4) redirection to a discussion of patient values and goals. Main Outcomes and Measures: Participant responses to two questions: 1) “If you had to guess, what do you think the doctor thinks is the chance that your loved one will survive this hospitalization?” and 2) “What do you think are the chances that your loved one will survive this hospitalization?” answered using a 0%-100% probability scale. Results: 302 participants completed the trial, of whom 204 (68%) were female and 165 (55%) were adult children of the patient. Compared to a direct response, participants perceived the intensivist to have a significantly more optimistic prognostic estimate when viewing an indirect response referencing other patients (β=10 [95% confidence interval (CI) 1, 19]; p = 0.03), physiology (β=10 [95% CI 0, 19]; p = 0.04), or redirection to a discussion of patient values and goals (β=19 [95% CI 10, 28]; p &lt; 0.0001). Conclusions and Relevance: Family members interpret indirect responses to questions about prognosis in the ICU setting as more optimistic than direct responses.
DOI: 10.7281/t1/zpjzjc
title: Data associated with the publication: Influence of simplified microbial community biofilms on bacterial retention in porous media under conditions of stormwater biofiltration

description: Porous media filters are used widely to remove bacteria from contaminated water, such as stormwater run-off. Biofilms that colonize filter media during normal function can significantly alter performance, but it is not clear how characteristics of individual populations colonizing porous media combine to affect bacterial retention. We assess how four bacterial strains isolated from stormwater and a laboratory strain, Pseudomonas aeruginosa PAO1, alter Escherichia coli retention in experimental sand columns under conditions of stormwater filtration relative to a clean-bed control. Our results demonstrate that these strains differentially affect E. coli retention, as was previously shown for a model colloid. To determine whether E. coli retention could be influenced by changes in relative abundance of strains within a microbial community, we selected two pairs of biofilm strains with the largest observed differences in E. coli retention and tested how changes in relative abundance of strain pairs in the biofilm affected E. coli retention. The results demonstrate that E. coli retention efficiency is influenced by the retention characteristics of the strains within biofilm microbial community, but individual strain characteristics influence retention in a manner that cannot be determined from changes in their relative abundance alone. This study demonstrates that changes in the relative abundance of specific members of a biofilm community can significantly alter filter performance, but these changes are not a simple function of strain-specific retention and the relative abundance. Our results suggest that the microbial community composition of biofilms should be considered when evaluating factors that influence filter performance.
DOI: 10.7281/t11ian9n
title: Data and code associated with the publication: Monitoring HIV antiretroviral therapy via aptamer-based measurements in preclinical animal models and in human plasma

description: Monitoring the concentration of antiretroviral drugs is critical to ensuring patient adherence to HIV treatment and prevention regimens, which is crucial for drug efficacy. These tools may also be useful for screening samples at blood donation centers to avert potential new infections. The current benchmark method to support antiretroviral drug monitoring, liquid chromatography coupled to mass spectrometry (LC-MS), requires centralized facilities with costly instrumentation, and has blood-to-result turnaround times of days to weeks, making it impractical for effective drug monitoring. Seeking to overcome this issue, we developed an aptamer for the antiretroviral drug emtricitabine, which is present in most antiretroviral combination therapies in the market and used for both infection management and prevention. The aptamer has clinically relevant sensitivity in biofluids and is highly selective relative to close analogues such as cytosine, cytidine, fluorocytidine and lamivudine (a.k.a. 3TC). Using this aptamer, we developed two analytical assays, one for continuous, in-vivo emtricitabine monitoring in rodent research models, and one for rapid and high-throughput screening of emtricitabine levels in human plasma. Through blinded analytical validation, our clinical assay achieved an 86.9% positive and 100% negative correlation, with an overall agreement rate of 95% relative to the benchmark LC-MS method.
DOI: 10.7281/t17lhbof
title: Data and code associated with the publication: In vivo fundus imaging and computational refocusing with a diffuser-based fundus camera

description: This dataset contains the point spread functions (PSFs) used in the manuscript “In vivo fundus imaging and computational refocusing with a diffuser-based fundus camera.” It also contains relevant MATLAB code for image reconstruction with the diffuser-based fundus camera. The version of code used in the paper is included (as of Jan. 14, 2025) also be available and may be updated in an online repository.
DOI: 10.7281/t1j10120
title: Data and code for the report: Ferguson, Gray, and Davis: an analysis of recorded crime incidents and arrests in Baltimore City, March 2010 through December 2015"

description: This collection includes: (1) the report and its appendices, (2) raw data files from the Baltimore Police Department downloaded from the Open Baltimore portal on February 3, 2016, and (3) an R project with associated analysis code that reproduces the key results of the report included herein: Morgan, Stephen L. and Joel A. Pally. "Ferguson, Gray, and Davis: An Analysis of Recorded Crime Incidents and Arrests in Baltimore City, March 2010 through December 2015." A Report Prepared for the 21st Century Cities Initiative at Johns Hopkins University. Baltimore, MD: Johns Hopkins University, 2016.
DOI: 10.34976/0akr-3648
title: PMA2020 Ghana Round 1 Household Female Survey (2013)

description: Ghana Round 1 Household and Female (HQFQ) survey used a two-stage cluster design with urban and rural, major ecological zones as the strata. A sample of 100 enumeration areas (EAs) was drawn by the Ghana Statistical Service from its master sampling frame. For each EA, 42 households were randomly selected using a random number generator. Occupants in selected households were enumerated and eligible females of reproductive age (15-49) were contacted and consented for interview. Data collection was conducted between September and October, 2013. The final sample of completed households included 3,536 households in 99 EAs and 3,708 completed female interviews. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/b88s-zx32
DOI: 10.34976/nk7n-rs08
title: PMA Ethiopia 2021 Cross-section Service Delivery Point Survey

description: PMA Ethiopia Service Delivery Point (SDP) 2021 Cross-sectional survey used a two-stage cluster design with urban-rural, major regions as strata. A total of 265 enumeration areas (EAs) selected from the master sample frame of the Central Statistical Agency. For each EA, all public SDPs that served the EA and up to 3 private facilities were selected. The final sample included 742 SDPs which completed the interview. Data collection was conducted between November 2021 and January 2022. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/xbrr-m897
DOI: 10.34976/xbrr-m897
title: PMA Ethiopia (2019-2024) Service Delivery Point Master Codebook

description: PMA Ethiopia (2019-2024) Service Delivery Point Survey Master Codebook contains Service Delivery Point Cross-sectional surveys conducted between 2019 and 2024 as part of the PMA Ethiopia grant.
DOI: 10.7281/t1/4aj8y1
title: Data associated with the PLoS ONE publications 'A Brief Intervention for Preparing ICU Families to be Proxies: A Phase I Study' and 'More than one in three proxies do not know their loved one’s current code status: An Observational Study in a Maryland ICU'

description: Rationale: The majority of ICU patients lack decision-making capacity at some point during their ICU stay. However the extent to which proxy decision-makers are engaged in decisions about their patient’s care is challenging to quantify. Objectives: To assess 1) whether proxies know their patient’s actual code status as recorded in the electronic medical record (EMR), and 2) whether code status orders reflect ICU patient preferences as reported by proxy decision-makers. Methods: We interviewed proxy decision-makers for 111 consecutively admitted adult ICU patients. Proxies were asked about the patient’s goals of care, preferred code status, and actual code status. Responses were compared to code status orders in the EMR at the time of interview. Characteristics of patients and proxies who correctly vs incorrectly identified actual code status were compared, as were characteristics of proxies who reported a preferred code status that did vs did not match actual code status. Measurements and Main Results: A total of 42 proxies (36%) were incorrect or unsure about the patient’s actual code status and those who were correct vs. incorrect or unsure were similar in age, race, and years of education (P&gt;0.20 for all comparisons). Thirty-five proxies (29%) reported a preferred code status that did not match the patient’s code status in the EMR. Matching preferred and actual code status was not associated with a patient’s age, gender, income, admission diagnosis, or subsequent in-hospital mortality or with proxy age, gender, race, education level, or relation to the patient (P&gt;0.20 for all comparisons). Conclusions: More than 1 in 3 proxies is incorrect or unsure about their patient’s actual code status and more than 1 in 4 proxies reported that a preferred code status that did not match orders in the EMR. Proxy age, race, gender and education level were not associated with understanding or code status concordance.
DOI: 10.7281/t1/j8uwfu
title: Data associated with the publication: Auditory discrimination learning differentially modulates neural representation in auditory cortex subregions and inter-areal connectivity

description: Wide-field imaging data of the mice left auditory cortex during a tone discrimination task. Behavioral data, processed data, and scripts for analysis and generating figures are also included.
DOI: 10.7281/t1/lw2h2f
title: Data associated with A Comprehensive Snapshot of Tuberculosis Transmission in an Urban Ugandan Community (STOMP-TB Study)

description: Lack of access to health facilities may be a barrier to initiating and completing tuberculosis (TB) treatment. We aimed to evaluate whether distance from residence to health facility is associated with treatment outcomes. We conducted a retrospective cohort study of all patients initiating TB treatment at six health facilities in Kampala from 2014-2016. Six facilities (one public and five private) whose catchment areas include the parishes of Kisugu and Wabigalo were selected and data from all patients receiving treatment at these facilities were abstracted from routinely used TB registers. This data was used to investigate associations between distance to treating facility and unfavorable TB treatment outcomes.
DOI: 10.7281/t1/sq6fo9
title: Land cover map of the Ethiopian Blue Nile River Basin

description: This dataset is a land cover map of the Ethiopian portion of the Blue Nile Basin, called the Abay Basin in Ethiopia. It was generated using remotely sensed data to classify land cover into eight broad classes: agriculture, grassland, woodland/shrub, forest, bare ground, urban/impervious surfaces, water, and seasonal water/marsh areas. We used data from Landsat spectral bands from 2000 to 2011, the Normalized Difference Vegetation Index (NDVI) and its temporal mean and variance, together with a digital elevation model, all at 30-m spatial resolution, as inputs to a supervised classifier. A Support Vector Machines algorithm (SVM) was chosen to deal with the size, variability and non-parametric nature of these data stacks. In post-processing, an image segmentation algorithm with a minimum mapping unit of about 0.5 hectares was used to convert per pixel classification results into an object based final map.
DOI: 10.7281/t1/vzzojb
title: Data associated with the publication: Clumped-isotope geothermometry and carbonate U–Pb geochronology of the Alta stock metamorphic aureole, Utah, USA: Insights on the kinetics of metamorphism in carbonates

description: This supporting information includes text detailing the specifics of thermal and clumped-isotope reordering models. Figures include a comparison of clumped-isotope data collected in different laboratories, field photos of outcrops within the forsterite zone, electron dispersive X-ray images and spectra for dated samples, and additional plots of clumped-isotope re-equilibration modeling, including replication of Figure 6 from main text for calcite, burial and exhumation kinetic modeling in the absence of contact metamorphism, results for “disordered” model of Hemingway and Henkes (2020), and Monte Carlo simulations of dolomite clumped-isotope re-equilibration kinetic parameters. Tables provide complete analytical data for clumped-isotope measurements, thermal model input parameters, and inter-laboratory comparison clumped-isotope data. The data set provides data for U–Pb analysis.
DOI: 10.7281/t15q4t12
title: Data associated with publication “Walking dynamics are symmetric (enough)”

description: Data files and source code associated with the statistical methods and plots from the publication. From the publication abstract: Many biological phenomena such as locomotion, circadian cycles and breathing are rhythmic in nature and can be modelled as rhythmic dynamical systems. Dynamical systems modelling often involves neglecting certain characteristics of a physical system as a modelling convenience. For example, human locomotion is frequently treated as symmetric about the sagittal plane. In this work, we test this assumption by examining human walking dynamics around the steady state (limit-cycle). Here, we adapt statistical cross-validation in order to examine whether there are statistically significant asymmetries and, even if so, test the consequences of assuming bilateral symmetry anyway. Indeed, we identify significant asymmetries in the dynamics of human walking, but nevertheless show that ignoring these asymmetries results in a more consistent and predictive model. In general, neglecting evident characteristics of a system can be more than a modelling convenience—it can produce a better model.
DOI: 10.7281/t1orkdly
title: The Economist Intelligence Unit (EIU) CityData

description: EIU’s CityData contains pricing information on over 160 products and services in 140 cities worldwide, gathered from the EIU Worldwide Cost of Living Survey. More than 50,000 individual prices are collected by field correspondents in each survey. Prices are given for various stores: supermarkets, mid-priced stores, and higher-priced specialty outlets. Prices cover: National economic indicators; Food and drink; Household supplies; Personal care; Tobacco; Clothing; Utilities; Domestic help; Recreation; Transport; Office and residential rents; Schools, health and sports; Business trip costs; Salaries and disposable incomes. Prices correspond to the price the customer is charged, not recommended retail prices or manufacturers’ costs. Use CityData to support your market entry strategy, assess international pricing for a specific product(s), analyze historical pricing patterns for goods and services since 1990, compare the cost of doing business worldwide, and perform city-to-city pricing comparisons. EIU CityData provides the most complete picture of global price levels. More information is available at EIU CityData Information.
DOI: 10.34976/3pke-s443
title: PMA Kenya Phase 2 Service Delivery Point Survey (2020)

description: PMA Kenya Phase 2 (KEP2) Client Exit Interview Baseline Survey includes 308 enumeration areas (EAs) of selected counties. The EAs were drawn using the multi-stage cluster design with urban-rural strata by the Kenya Bureau of Statistics following the pre-existing sampling frame used for PMA2020. The results are national and county-level representative. The final sample included 4,846 clients which completed the interview. Data collection was conducted between November and December 2020. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/f0vf-qd73
DOI: 10.34976/4j3d-5d51
title: PMA2020 Burkina Faso Round 3 Household Female Survey (2016)

description: Burkina Round 3 Household and Female (HQFQ) survey used a two-stage cluster design with urban and rural strata. A sample, which increased to 83 enumeration areas (EAs) for this round, was drawn from the INSD master sampling frame. Each EA was listed and mapped; 35 households were randomly selected. Occupants in selected households were enumerated and eligible females of reproductive age (15-49) were contacted and consented for interview. Data collection was conducted between March and May, 2016. The final sample size is 2,803 households and 3,356 females. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/b88s-zx32
DOI: 10.34976/5ckj-g463
title: PMA2020 Nigeria Round 4 Service Delivery Point Survey (2017)

description: Nigeria (National) Round 4 Service Delivery Point (SQ) survey used a three-stage sampling approach within a sample of seven states - Anambra, Kaduna, Kano, Lagos, Nasarawa, Rivers, Taraba. One state per zone was selected using probability proportional to size from among each of Nigeria’s six zones. The seventh state (Kaduna) was allocated to the northwest zone. A total of 284 clusters of enumeration areas (EAs) were drawn from the National Population Commission’s master sampling frame. In each cluster of EAs, households and private health facilities were listed and mapped; public facilities were included if a selected EA fell within the catchment area. Private facilities were included if they fell within the boundaries of the EA. The final sample included 718 SDPs. Data collection was conducted between April and May 2016 in all states. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/vfbp-bz42
DOI: 10.34976/h971-e365
title: PMA Uganda Phase 1 Service Delivery Point Survey (2020)

description: PMA Uganda Phase 1 Service Delivery Point Baseline Survey includes 122 enumeration areas (EAs) selected using a multi-stage stratified cluster design with urban-rural and region strata. The results are representative at the national level and within urban/rural strata. The final sample included 349 facilities which completed the interview. Data collection was conducted between September and October 2020. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/f0vf-qd73
DOI: 10.34976/sa8k-0c05
title: PMA2020 Uganda Round 5 Service Delivery Point Survey (2017)

description: Uganda Round 5 Service Delivery Point (SQ) survey used a two-stage cluster design with urban-rural and region as strata. For this survey round, a new set of 110 enumeration areas (EAs) were selected, adjacent to EAs used in the previous four rounds, drawn by the Uganda Bureau of Statistics from its master sampling frame. Each EA was listed and mapped. Public facilities were included if a selected EA fell within the catchment area. Private facilities were included if they fell within the boundaries of the EA. Data collection was conducted between April and May, 2017. The final completed sample included 335 SDPs. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/vfbp-bz42
DOI: 10.34976/vza7-7e43
title: PMA2020 Niger (Niamey) Round 1 Service Delivery Point Survey (2015)

description: Niger (Niamey) Round 1 Service Delivery Point (SQ) survey used a two-stage cluster design with Niamey, urban areas outside of Niamey, and rural areas as the strata. A sample of 33 enumeration areas (EAs) was drawn by Niger’s National Statistics Institute (INS) from its master sampling frame. Each EA was listed and mapped. Public facilities were included if a selected EA fell within the catchment area. Private facilities were included if they fell within the boundaries of the EA. Data collection was conducted between July and August 2015. The final completed sample was 31 SDPs. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/vfbp-bz42
DOI: 10.7281/t1/1mqmfc
title: Data associated with the publication: Relation among absorbance shifts, mineralization morphology, and electronic conductivity of π-peptide aggregates with different amino acid residues

description: This file contains original instrument data for material conductivities, scanning electron microscopy, atomic force microscopy, ultraviolet spectroscopy, and x-ray diffraction. Additional images of chemical structures and proposed assemblies are given. Files are labelled according to the core-peptide compound being co-assembled with the mineral.
DOI: 10.7281/t1/2dkjb2
title: Data associated with the publication: Ion channel selectivity through ion modulated changes of selectivity filter pKa values

description: This dataset contains simulations and parameter files associated with the publication "Ion channel selectivity through ion modulated changes of selectivity filter pKa values." Simulation files are in NetCDF format and parameter files are in parm7 format. See README document for more details.
DOI: 10.7281/t1/6i0kpp
title: Data associated with publication: Evidence for the late arrival of hot Jupiters in systems with high host-star obliquities

description: In the associated publication, we homogeneously derive photospheric stellar parameters from photometry and then run stellar models in MESA to derive convective envelope masses. This data archive includes a machine-readable table containing the input and output data for the isochrone analysis as well as the surface convective envelope masses we derived using MESA models. The data archive also includes directories for each star containing the MESA configuration files for each star and the MESA output files for each star.