cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13020/zf57-z636
title: Data to Accompany the 'Addressing Disparities in Physician Access to Information in Support of Evidence-based Practice' Study

description: Data was gathered for a study that aimed to determine if physicians have access to information resources needed to support Evidence Based Practice (EBP). A survey was distributed to physicians licensed to practice in Minnesota who provided their email address to the Minnesota Board of Medical Practice. A total of 16,689 physicians were included in the licensing board mailing list; 13,726 provided their email address to the board and were contacted to participate in the survey. Of those, 1,188 individuals (8.7%) began the survey (all responses), 925 (6.7%) completed the survey, and 877 (6.4%) were used in the data analysis. The survey included 15 questions. Four short answer questions related to the number of unanswered clinical questions occurring each day when seeing patients, the number of those sought and answered, and the time spent seeking answers to those questions. One question asked physicians about their access to information resources that support EBP. One open-ended optional question asked participants to list additional information resources they use. Two Likert questions asked participants to what extent their information needs were met and the frequency of full-text access. Another open-ended question asked about strategies for accessing full-text books and articles. Finally, seven demographic questions were asked, including one on participant affiliation with either the UMN or the Mayo Clinic. Data collected are included in  MN_physician_survey_dataset.csv  and have value to those seeking to understand physician information seeking needs and behavior in support of EBP.
description: B. Filename: MN_physician_survey_codebook.pdf:
Codebook to accompany dataset that details variables and variable labels, and the associated values and value labels.
description: A. Filename: MN_physician_survey_dataset.csv:      
Data collected to determine Minnesota physicians' access to clinical information from the Survey on the State of Evidence-Based Medicine in Minnesota.
DOI: 10.13020/v2vb-9e61
title:  Indium Oxide Resistance Fluctuation Measurements 

description: For superconducting indium oxide films with higher disorder, a more conventional superconductor-insulator transition is observed.  Low frequency resistance measurements performed on such a film are shown in this dataset.  Contrary to initial expectations there were no significant changes in the noise properties near the quantum critical point.  However, it was found that the noise varied in a way that was consistent with predictions based on a percolation model.  Specifically, the noise properties suggest that the  superconductor-insulator transition can be modeled by p-model percolation.  This model is based on random Josephson junction array models which have been used extensively to explain the properties of granular superconductors.
description: Voltage versus time traces for indium oxide film that undergoes an SIT.  The noise measurement was in a Wheatstone bridge configuration and measured resistance fluctuations.  Resistance versus temperature sweeps are also included.  All data was measured in an Oxford Kelvinox K400 dilution refrigerator.
DOI: 10.13020/7db9-vd97
title:  Proton and amide chemical shift list files of wild-type cAMP-dependent protein kinase a (PKA-C) and the chimeric mutant (PKA-JC) and MATLab scripts for the chemical shift analysis 

description: Proton and amide chemical shift list files of wild-type cAMP-dependent protein kinase a (PKA-C) and the chimeric mutant (PKA-JC) and  MatLab scripts used for the CHESCA and CONCISE analysis. The chemical shift lists were obtained using standard NMR experiments (1H-15N -TROSY-HSQC). The MatLab scripts were used for the CHESCA and CONCISE analysis of the amide chemical shift. These files are part of a publication on Communication biology: "Defective Internal Allosteric Network Imparts Dysfunctional ATP/Substrate Binding Cooperativity in Oncogenic Chimera of Protein Kinase A"
description: Proton and amide chemical shift list files of wild-type cAMP-dependent protein kinase a (PKA-C) and the chimeric mutant (PKA-JC) in the apo form, ATPgN- and ATPgN/PKI-form. The list files were obtained using standard 1H-15N -TROSY-HSQC NMR experiments on uniformly 15N labeled-protein.
The MatLab scripts (coded by Manu) are used for the CHEmical Shift Covariance Analysis(CHESCA) and COordiNated ChemIcal Shifts bEhavior (CONCISE) analysis of the amide chemical shift and their variants like the communtyCHESCA and the communityCONCISE.
DOI: 10.13020/d6kw2d
title: Public-Use Data from the Obstetrics and Periodontal Therapy (OPT) Study, a randomized trial of periodontal therapy to prevent pre-term birth

description: The OPT Study was a multi-center randomized, single-blind (examiners) controlled clinical trial testing whether mechanical periodontal therapy (scaling and planing) in pregnant women at risk for premature birth reduced the extent or severity of premature birth.  OPT found that periodontal therapy does not reduce the number or timing of premature births.  Nonetheless, this public-use dataset is of interest in that it provides natural and clinical histories of the periodontal status of pregnant women with treated and untreated periodontal disease.  

Data include birth outcomes (including gestational age, birthweight, presence of congenital anomalies, and 1 and 5 minute APGAR scores), baseline characteristics (including previous pregnancy outcomes), periodontal therapy and essential dental care delivered as part of the study, maternal conditions during pregnancy, and the following items for three visits between the end of the first trimester and delivery:  clinical periodontal measurements (pocket depth, attachment loss, and bleeding on probing at 6 sites per tooth;  site-specific data and several common person-level summaries), medications, dental plaque levels of 8 bacterial species, levels of serum antibodies for the same 8 bacterial species, and serum levels of 8 inflammatory markers or mediators.  The OPT Study's Manual of Procedures (Version 1) is available as part of this package.  Version changes during the course of the study were rare and affected very few data items (mostly the data describing study periodontal therapy).  The public-use dataset includes the version of these data items used in the main and secondary papers.

The OPT Study team published the main paper in 2006 in the New England Journal of Medicine and has published 8 secondary papers.  The dataset was made available in 2009 but has not previously been available online because the sponsoring agency had no facility for making it available.
description: The primary data is accompanied by the raw periodontal data. These are documented in the Data Dictionary and the Manual of Practice files. Citations using the data are included in a text file.
DOI: 10.13020/d6t38x
title: Maize Mo17 SNPs

description: Genome resequencing of Mo17 was done as part of the bioMAP project (REF). 477 million 100bp paired-end reads were generated for Mo17 giving an average of 95x coverage. Reads were first trimmed by Trimmomatic (Bolger et al. 2014) and mapped to the maize B73 genome AGPv4 (Jiao et al. 2017) using BWA-MEM (Li and Durbin 2010). PCR duplicates were marked and removed using GATK (McKenna et al. 2010). Variants were called by GATK haplotypecaller and filtered using different filters for SNPs: (QD > 2, FS < 60, MQ > 40, MQRankSum > -12.5, ReadPosRankSum > -8, SOR < 4) and for InDels: (QD > 2, FS < 200, ReadPosRankSum > -20, SOR < 10). Moreover, variants located in regions with unusually high coverage (DP > Mean + 2*SD) and heterozygous calls (GT == '0/1') were also removed. The final variant file containing 8.04 million variants with 164 thousand CDS variants was deposited in DRUM.
DOI: 10.13020/d63w22
title: 1968 Twin Cities Land Use Map from the Twin Cities Metropolitan Planning Commission, GIS Data Files

description: High-quality GIS land use maps for the Twin Cities Metropolitan Area for 1968 that were developed from paper maps (no GIS version existed previously).
description: The GIS shapefiles were exported using ArcGIS Quick Import Tool from the Data Interoperability Toolbox. The coverage files was imported into a file geodatabase then exported to a .shp file for long-term use without proprietary software. An example output of the final GIS file is include as a pdf, in addition, a scan of the original 1968 map (held in the UMN Borchert Map Library) is included as a pdf. Metadata was extracted as an xml file. Finally, all associated coverage files and original map scans were zipped into one file for download and reuse.
DOI: 10.13020/d69w9k
title: Fruit Production Per Plant in Long-Term Study of Population Dynamics of Clarkia xantiana ssp. xantiana at 35 Populations in the Kern River Valley, California, USA from 2006 to 2017

description: Documentation of data collected on fruit production per plant in long-term study of population dynamics of Clarkia xantiana ssp. xantiana at 35 populations in the Kern River Valley, California, USA from 2006 to 2017.
description: The dataset (Data File Name: “Datafile_Fruit_Number_per_Plant.csv”) describes the fruit production per plant for up to 150 plants for each of the 35 populations followed in a long-term demographic study of Clarkia xantiana xantiana in Ker Co., CA. 

At each site, in each year, the number of fruits per plant was recorded on up to 150 plants per population. From 2006-2012, fruit number per plant was scored as the sum of undamaged fruits plus the “undamaged fruit equivalents” of damaged fruit. For example, if a plant had 2 damaged fruits, where half of each fruit was missing, the number of undamaged fruit equivalents was scored as 1, and added to the number of undamaged fruits. From 2013-2017, undamaged and damaged fruits were scored separately.
DOI: 10.13020/y78v-sd76
title: Visualizations from a Magnetohydrodynamic Turbulence model of the Intracluster Medium 

description: The intracluster medium (ICM) is a tenuous plasma between galaxies.  Long parallel strands of strong magnetic fields are seen in the ICM.  These movies show the development of turbulence and the growth of magnetic fields in a numerical model of magnetohydrodynamic (MHD) turbulence.  The computational model was ideal Isothermal MHD.  The flow was computed in a periodic box on a uniform 1024 x 1024 x 1024 mesh.  The velocity field was continually stirred with random long wavelength sine wave accelerations, which mimics the effect of changing gravitational field due to galaxies moving in the cluster.  The B-field was initially uniform and very weak, with the magnetic pressure one million times weaker than gas pressure.  Over the span of the simulation, the magnetic pressure increased to about 5% of the gas pressure and was strong enough to strongly influence the flow.  The numerical simulation was run on the Minnesota Supercomputer Institute’s Mesabi cluster: using 22 compute nodes (two Intel Haswell 12-core Processors per node) for 44 hours.
description: Movies show the development of MHD turbulence in this system in terms of the magnetic and velocity fields.   The magnetic energy density shows regions of strong magnetic field.  The square of the vorticity field (or enstrophy density) shows regions of strong fluid shear such as slip surfaces and vortex tubes.
DOI: 10.13020/d67m2j
title: Investigation on Human Guidance and Control Behavior

description: The flight experiments are conducted in the Interactive Guidance and Control Lab (IGCL) at the University of Minnesota. The data in the flight experiment are collected from human subjects maneuvering miniature rotorcrafts to accomplish a set of tasks. The datasets includes the rotorcraft motion data and operator head movements which are captured using captured using a Vicon motion tracking system (with six MX-40 cameras) sampled at 100Hz. They also include operator eye movements which are recorded using eye tracking glasses (ETG) from Senso-Motoric Instruments (SMI), sampled at 30Hz.
description: Data are organized by tasks, including calibration, hover, step, fitts, circle, guidance, and development. Each task folder includes `raw` (raw log files from motion and eye-tracking systems), `combined` (combining all sensor data), `segmented` (segmented as trials), and results from each step of processing. On top of task folders, there is a file `Listing of Flight Tests.csv' including the dates and tasks that have been performed. See the readme.txt file for more information.
DOI: 10.13020/d66p4p
title: Signature Wood Modifications that Reveal Decomposer Community History

description: Correlating plant litter decay rates with initial tissue traits (e.g. C, N contents) is

common practice, but in woody litter, predictive relationships are often weak. Variability

in predicting wood decomposition is partially due to territorial competition among fungal

decomposers that, in turn, have a range of nutritional strategies (rot types) and

consequences on residues. Given this biotic influence, researchers are increasingly

using culture-independent tools in an attempt to link variability more directly to

decomposer groups. Our goal was to complement these tools by using certain wood

modifications as 'signatures' that provide more functional information about

decomposer dominance than density loss. Specifically, we used dilute alkali solubility

(DAS; higher for brown rot) and lignin:density loss (L:D; higher for white rot) to infer rot

type (binary) and fungal nutritional mode (gradient), respectively. We first determined

strength of pattern among 29 fungi of known rot type by correlating DAS and L:D with

mass loss in birch and pine. Having shown robust relationships for both techniques

above a density loss threshold, we then demonstrated and resolved two issues

relevant to species consortia and field trials, 1) spatial patchiness creating gravimetric

bias (density bias), and 2) brown rot imprints prior or subsequent to white rot

replacement (legacy effects). Finally, we field-tested our methods in a New Zealand

Pinus radiata plantation in a paired-plot comparison. Overall, results validate these lowcost

techniques that measure the collective histories of decomposer dominance in

wood. The L:D measure also showed clear potential in classifying 'rot type' along a

spectrum rather than as a traditional binary type (brown versus white rot), as it places

the nutritional strategies of wood-degrading fungi on a scale (L:D=0-5, in this case).

These information-rich measures of consequence can provide insight into their

biological causes, strengthening the links between traits, structure, and function during

wood decomposition.
DOI: 10.13020/mqze-pw21
title:  Trichome density phenotypic data, image data, candidate genes Nanopore sequencing data (Chapter 4 Lu Yin Ph.D. Thesis 2020) 

description: Two experiments of phenotypic data on trichome density scores and sequencing data in a hybrid grape population (GE1025 family and GE1783 family). The excel file contains this data. Experiment 1 was conducted on greenhouse-maintained GE1025 cuttings in 2018 and 2019 and on field-grown leaves of GE1025 in 2019 (3 environments). Experiment 2 was conducted on GE1783 field-grown leaves in 2019 (1 environment). Experiment 1 was conducted under a dissecting scope. The images were where the trichome scores were obtained in Experiment 2. Nanopore sequencing data was part of Experiment 2.
It is released now because it is under review for publication and it is needed to derive the conclusion for the fine mapped trichome region on chromosome 1 of hybrid grapes (Lu Yin's Ph.D. thesis in 2020 Chapter 4). This study on trichome offers information for hybrid grape breeding programs for a minor role in foliar phylloxera resistance.
description: The Excel file contains phenotypic trichome scores.
The images were where the phenotypic trichome scores in Experiment 2 derived from.
The Nanopore sequencing data provides information on sequenced trichome candidate genes.
DOI: 10.13020/d6gt1d
title: Accelerating self-consistent field theory of block polymers in a variable unit cell

description: The data contain the results of all the SCFT calculations used to demonstrate the performance of the new algorithm that we devised in our paper: https://doi.org/10.1063/1.4986643
description: Input files that are required to perform the SCFT calculations using the open source package called PSCF (Polymer Self-Consistent Field Theory) available at http://pscf.cems.umn.edu/. It also contains the output converged files of all the simulation tests that we ran using PSCF. More information about PSCF, including links to the user manual and source code, is available at https://morse.cems.umn.edu/morse/code/pscf/home.php.html.
DOI: 10.13020/f0pj-0j55
title: Data for Order and Disorder in ABCA′ Tetrablock Terpolymers

description: Self-consistent field theory calculations appearing in the paper, along with scripts for generating the plots of those data using Polymer Self Consistent Field (PSCF) code.
DOI: 10.13020/csvf-0w22
title: Advertisement call length preferences of female Cope's gray treefrogs (Hyla chrysoscelis) in two-alternative choice tests

description: Female Hyla chrysoscelis collected from the wild during the breeding season were tested in two-alternative choice tests for their preference between two synthetic calls, modeled closely after wild male calls, differing in their call length. This experiment was designed to examine whether females exhibit proportional processing (e.g., Weber's Law) of the acoustic signal. The data are being released along with the publication based upon them.
description: A .csv file containing the experimental data, with one row for each experimental trial; and a .docx file containing methodological information and a description of the column names in the data file.
DOI: 10.13020/bgd2-q762
title:  Femtosecond stimulated Raman spectroscopy – guided library mining leads to efficient singlet fission in rubrene derivatives
DOI: 10.13020/kdqb-3023
title: A mechanistic-empirical model of central metabolism, signaling, and the reactor environment for bioprocesses

description: This model was built and optimized to reproduce the variability inherent to many industrial cell-culture processes. Classically, fed-batch Chinese Hamster Ovary (CHO) cell cultures will initially produce lactate in the early phase of culture before switching to lactate consumption. However, some processes may revert to lactate production in the late stage of culture, driving up osmolarity while reducing viable cell density, and ultimately lowering process performance. This phenomenon may occur in only some runs of a manufacturing processes and even may differ among runs with similar initial conditions and trajectories, leading to longstanding questions about the mechanisms driving this switch. By simulating cultures which were exposed to different amounts of stress before the production bioreactor we show that similar starting conditions in the bioreactor environment can lead to variability in metabolic shift. We provide this model as a tool to demonstrate this metabolic variability and provide a platform for hypothesis testing, in silico bioprocess optimization, and simulation of reactor scale-up and scale-down.
DOI: 10.13020/d69k5z
title: State Regulations on Minimum Stocking Requirements for Special Supplemental Nutrition Program for Women, Infants, and Children (WIC)–Authorized Retailers: United States, 2017

description: We obtained minimum stocking requirements for 50 states and the District of Columbia in 2017 from WIC Web pages or e-mail from the state WIC agency. We developed a coding protocol to compare minimum quantities and varieties required for 12 food and beverage categories and published the results in the American Journal of Public Health (2017). We are making the extracted text, coding protocol, and coded values of the state requirements available here as a resource to other researchers and practitioners.
description: In the 24 states that established different requirements based on store size, type, or location (e.g., number of cash registers, rural vs urban), the lowest requirement was coded. When a state’s requirement included separate components with multiple units of measurement (e.g., a minimum dollar value and minimum number of items) or a single component that could be expressed in multiple units (e.g., five 16-oz packages), we coded the requirement under both measures. We calculated the median, range, and interquartile range of each measure across all states. We included in the data record both a comma separated values file and an Excel file for readability and formatting purposes.
DOI: 10.13020/d1g7-c676
title:  Fortran code for modeling the propagation of ULF waves in a 3-dimensional dipole magnetosphere 

description: This code allows for the modeling of Ultra-Low-Frequency (ULF) waves in the Earth's magnetosphere. It has been used in a number of publications and presentations at conferences. It takes a prescribed driver in the form of a compression at the outer boundary and follows the propagation of the waves through the magnetosphere and to the ground. The output consists of files each containing snapshots of one component of the electromagnetic field at all points in the simulation volume at an instant of time, in addition to files containing background information such as the Alfven speed profile throughout the simulation.
description: This code allows for the modeling of Ultra-Low-Frequency (ULF) waves in the Earth's magnetosphere.  It has been used in a number of publications and presentations at conferences.  It takes a prescribed driver in the form of a compression at the outer boundary and follows the propagation of the waves through the magnetosphere and to the ground.  The output consists of files each containing snapshots of one component of the electromagnetic field at all points in the simulation volume at an instant of time, in addition to files containing background information such as the Alfven speed profile throughout the simulation.
description: Fortran source code for numerical modeling of ULF waves in the magnetosphere