cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7302/qta3-xs67
title: Neotropical snake photographs

description: This dataset includes dorsal and ventral photographs of Neotropical snakes collected in the Peruvian Amazon. These data were collected to survey and examine the diversity in color pattern evolution in Neotropical snakes.
description: All animal-related procedures have been approved by the University of Michigan Institutional Animal Care and Use Committee (Protocols #PRO00006234 and #PRO00008306) and the Peruvian government SERFOR (Servicio Nacional Forestal y de Fauna Silvestre
description: permit numbers: 029-2016-SERFOR-DGGSPFFS, 405-2016-SERFOR-DGGSPFFS, 116-2017-SERFOR-DGGSPFFS). We collected data during five field expeditions in the Amazonian lowlands of Peru from March 2016 to December 2018, at Villa Carmen, Los Amigos, Madre Selva, and Santa Cruz Biological Stations. We captured snakes either in funnel traps or opportunistically during transects, then transported the snakes in fabric bags secured within 20 L lidded buckets back to the station. During capture and handling, all trained personnel were equipped with snake hooks, tongs, venom defender gloves (1-2-1 Products Ltd., Alfreton, UK), and knee-high rubber boots to avoid envenomation.
description: All specimens were photographed using a modified (mirror-removed) Nikon D7200 camera body with a Jenoptik 60mm macro lens attached.
For visible spectrum photographs, the camera was set to a shutter speed of 1/5 s, an F-stop of 20, and an ISO of 200. For ultraviolet photographs, the settings were 5 s shutter speed, F 13, and ISO 200. 
The camera was mounted on a tripod, angled straight downward above the specimen, and positioned at a height that varied with specimen size. 
Rather than using the camera’s built in flash, each specimen was illuminated from multiple angles using fluorescent and UV light bulbs. 
The background of each specimen was a blue PVC mat (Elviros), which was unlikely to reflect wavelengths that overlap with those of the specimen. 
Importantly, each image was framed such that it contained not only the specimen, but also a color standards card (X-rite Colorchecker Passport Pro) and a circular UV standard (40% Spectralon Diffuse Reflectance Standard) that functioned as both a color-calibration tool and an object of known diameter for size calibration.
description: We either vouchered snakes into the University of Michigan Museum of Zoology (UMMZ) or the Museo de Historia Natural in Lima, Peru (MUSM). All vouchered snakes were also weighed for body mass, measured for snout–vent length (SVL) and tail length, and sexed where possible. Field numbers and museum accession numbers (when available) for each individual are reported.
DOI: 10.7302/t8jj-3m49
title: Jamsay-speaking (Dogon, Mali) village photos

description: Images of villages in Mali (and a few in Burkina) in which Jamsay (Dogon family) is the primary language. Each file name contains important information about the photos, and are structured thus: LanguageFamily_Language_IdentificationNumber_GeographicCoordinate_Description_Date_InitialsOfThePhotographer
description: Photography
DOI: 10.7302/z2vh5m1h
title: The ethical and professional use of social media in surgery - A review of the literature

description: The dataset includes the reproducible search strategies for all literature databases searched during the review, the key articles used to generate relevant search terms and test the effectiveness of the searches, the Endnote library that has all citations considered for inclusion, a flow chart describing the screening process, and the screening forms used for inclusion and exclusion. 
description: Comprehensive literature searches were run in Ovid MEDLINE, Ovid MEDLINE In-Process & Other Non-Indexed Citations, Ovid MEDLINE Epub Ahead of Print, Embase.com, and Cochrane Central Register of Controlled Trials in January 2017. All citations were exported to Endnote. Duplicate citations were removed in Endnote using both automated and manual processes. Five pre-identified key articles were used to generate relevant search terms and to test the effectiveness of the searches. 

Once all citations were collected and duplicates removed, the citations were added to DistillerSR for eligibility screening. Two screening forms were created. The first pertained to a title and abstract screen, and the second to a full-text screen of those that passed the first stage. The criteria used to determine eligibility is included. Two reviewers screened all citations during both stages of the review independently. Disagreements were resolved through discussion.
DOI: 10.7302/a0d0-0b51
title: CT Data of UMMP VP 81825, Cantius mckennai right calcaneum

description: Reconstructed CT slices for a right calcaneum of Cantius mckennai (University of Michigan Museum of Paleontology catalog number UMMP VP 81821), as a series of TIFF images. Raw projections are not included in this dataset.
description: Specimen UMMP VP 81825 was scanned with a Nikon XT H 225ST μCT system housed in the Department of Earth and Environmental Sciences at the University of Michigan. Scans were collected with the following settings: energy settings, 110 kV, 80 µA
description: source to object distance, 50.943844 mm
description: scanned with 1570 projections
description: voxel size, x = y = z = 0.018441 mm
description: slice dimension (in pixels),  x = 535, y = 704
description: number of slices, 771 16-bit TIFF images. Additional metadata can be found in the xtek and vgi files.
DOI: 10.7302/7vc9-nd87
title: CT Data of UMMP VP 81831, Cantius mckennai right navicular

description: Reconstructed CT slices for a right navicular of Cantius mckennai (University of Michigan Museum of Paleontology catalog number UMMP VP 81831), as a series of TIFF images. Raw projections are not included in this dataset.
description: Specimen UMMP VP 81831 was scanned with a Nikon XT H 225ST μCT system housed in the Department of Earth and Environmental Sciences at the University of Michigan. Scans were collected with the following settings: energy settings, 110 kV, 80 µA
description: source to object distance, 33.735508 mm
description: scanned with 1570 projections
description: voxel size, x = y = z = 0.012212 mm
description: slice dimension (in pixels),  x = 638, y = 571
description: number of slices, 460 16-bit TIFF images. Additional metadata can be found in the xtek and vgi files.
DOI: 10.7302/pcrt-dj64
title: Modeled transient ionospheric upflow as driven by poleward moving auroral forms observed during the Rocket Experiment for Neutral Upwelling 2 (RENU2) campaign

description: Brightness from an all-sky imager has been used as a spatiotemporal constraint for auroral inputs selected from in situ rocket measurements which are used to drive the ionospheric  model. This method allows for realistic ionospheric forcing that is not captured in traditional "on-off" methods of describing PMAFs. Transient forcing (simulated PMAFs) and steady forcing ("on-off") simulations have been generated for comparison.
description: The Geospace Environment Model of Ion-Neutral Interactions with Transverse Ion Acceleration (GEMINI-TIA) has been used here to simulate poleward moving auroral forms (PMAFs) in the high-latitude ionosphere as observed during the Rocket Experiment for Neutral Upwelling 2 (RENU2) campaign.
DOI: 10.7302/f3jw-2s86
title: [Literature search files] Successful decannulation of patients with traumatic spinal cord injury: A scoping review

description: The dataset includes all citations considered for inclusion in the systematic review. The citations are accessible in Endnote (Clarivate), as well as through the primary citation export files from each database. The literature search strategies are included for reproducibility and transparency purposes. See the published methods for more information.
description: The data in this work include the complete literature searches of several citation databases, including MEDLINE (OvidSP), Embase (Elsevier), Web of Science Sci-Expanded & CPSI-S (Clarivate), CINAHL (EBSCOhost), and Cochrane Central Register of Controlled Trials (Wiley).
DOI: 10.7302/wy95-7p22
title: Data from: Adjuvant Radiation Improves Recurrence-Free Survival and Overall Survival in Adrenocortical Carcinoma

description: Three sensitivity analyses were performed. First, a second matching step was performed in which two controls were selected for each case, where possible using a nearest neighbor and caliper metric.  Controls needed to have propensity scores within 0.1 of the case to be selected. Thirty-eight of the 39 cases had at least one control using this method and for 36 cases two controls could be selected.  The average difference between case and control propensity adjuvant RT was 0.008 (range 0.00003-0.095).
A second sensitivity analysis was performed to guard against immortal time bias. In order to mitigate the possibility of this effect, cases known not to have undergone adjuvant RT have been screened for suitable follow-up without a recurrence (local or regional recurrence, metastatic failure, and/or death) to ensure that if adjuvant RT had been prescribed as part of the multi-modality treatment regimen, that it would have been initiated.  Three months was selected as the mandatory follow-up time.  One to one matching was carried out and all 39 cases were matched to a control.  A third sensitivity analysis was performed to account for stage migration seen in control patients that presented to the University of Michigan with more advanced disease. Patients that underwent adjuvant radiation were matched one to one with control group patients who did not receive adjuvant radiation, and who had the same stage at diagnosis as compared to stage at University of Michigan presentation. 
description: This is a retrospective propensity-matched analysis of patients were seen through the University of Michigan’s Endocrine Oncology program, and all those who underwent RT were treated at the University of Michigan. The data for the primary publication are submitted for a separate publication
description: the data submitted to this repository represents the results of three separate sensitivity analyses for the data.
DOI: 10.7302/fxtv-cg55
title: Pre-Hospital Midazolam for Treatment of Status Epilepticus Before and After the Rapid Anticonvulsant Medication Prior to Arrival Trial (RAMPART): A National Observational Cohort Study

description: We present the SAS code used to conduct the data manipulation and analysis for our research on pre-hospital midazolam use before and after RAMPART.
description: Using the National Emergency Medical Services Information System (NEMSIS) dataset, we identified all patient care events involving adult and pediatric patients who were treated with benzodiazepines for presumed status epilepticus in the pre-hospital setting, from January 1, 2010, through December 31, 2014. 

We conducted data manipulation and analysis with SAS (v. 9.4, SAS Institute, Cary, NC).

Data are available from NEMSIS.
DOI: 10.7302/mwy1-v326
title: CRRES Plasmapause Data

description: A new empirical model of the plasmapause location has been developed using density data from the plasma wave receiver onboard the CRRES spacecraft for nearly 1000 orbits. The “plasmapause” is identified here as the innermost sharp gradient in density (change of a factor of 5 in <0.5 L). Such a sharp gradient was observed on 73% of the CRRES inbound and outbound orbits that returned data. The plasmapause location is expressed as a linear function of Kp (previous 12 hour maximum) and local time. The model gives the linear best fit location of the plasmapause as well as the standard deviations of the model parameters. 
description: The CRRES density database was examined orbit by orbit for sharp density drops indicative of the plasmapause. This was done both visually and with a computer algorithm that located the innermost sharp density gradient of at least a factor of 5 within a radial distance of 0.5 L. This is the same selection criterion used by Carpenter and Anderson [1992]. The use of this criterion creates a database of ‘‘sharp’’ plasmapauses that are often indicative of newly formed plasmapause. Carpenter, D. L., and R. R. Anderson, An ISEE/whistler model of equatorial electron density in the magnetosphere, J. Geophys. Res., 97, 1097, 1992. https://doi.org/10.1029/91JA01548.
DOI: 10.7302/7g4v-2837
title: Mombo-speaking (Dogon, Mali) village photos

description: images of villages in Mali in which Mombo (Dogon family) is the primary language. Each file name contains important information about the photos, and are structured thus: LanguageFamily_Language_IdentificationNumber_GeographicCoordinate_Description_Date_InitialsOfThePhotographer
description: Photography
DOI: 10.7302/z23b5x3k
title: A Video-Based Intervention to Improve Belt Fit

description: This study evaluated the performance of a video-based intervention for improving the belt fit obtained by drivers. Previous laboratory studies have demonstrated that some drivers position their seat belts suboptimally. Specifically, the lap portion of the belt may be higher and farther forward relative to the pelvis than best practice, and the shoulder portion of the belt may be outboard or inboard of mid-shoulder. 
A video was developed to present the most important aspects of belt fit best practices, with emphasis on the lap belt. The video demonstrated how a seat belt should be routed with respect to an individual’s anatomy to ensure a proper fit. The three key belt fit concepts conveyed in the video were: 
1)	Lap belt low on hips, touching the thighs.
2)	Shoulder belt crossing middle of collarbone.
3)	Belt snug, as close to bones as possible. 
Additional context about the ability to achieve to good belt fit, such as opening a heavy coat or adjusting the height adjusters on the B-pillar behind the windows, were also presented.

description: To develop the short, video-based intervention, an inter-disciplinary team of experts were consulted, including automotive safety experts, injury biomechanics researchers, behavior psychologists, communication, and video production specialists.  Multiple revisions of the script for the video-based intervention were undertaken and reviewed by the experts.  A pilot evaluation was conducted to assess terminology for the anatomical reference of the belt position, and to evaluate the video tutorial script and proposed graphics.  A convenience sample of twenty-four community participants provided feedback that was incorporated into the video script. The final video was 100 seconds in duration.
DOI: 10.7302/3qz8-tw22
title: Dataset related to 'Effects of Metamorphism and Metasomatism on Manganese Mineralogy: Examples from the Transvaal Supergroup'

description: Manganese in the sedimentary record has been interpreted by many as a powerful redox proxy for paleoenvironments, and yet very little work has been done to ensure that the manganese-rich minerals in the rock record are actually recording primary signals.  In the accompanying manuscript, we present an in-depth characterization of the manganese mineralogy from two correlated regions recording the Transvaal Supergroup in South Africa with markedly different alteration histories to investigate if there can be post-depositional emplacement of manganese-rich minerals. The data uploaded here are X-ray absorption spectra of (1) manganese standard minerals that were useful in our analyses and (2) minerals from an important well-characterized sample that may be useful as comparative standards in future studies. 
description: X-ray absorption spectroscopy (XAS) data was collected on manganese standards at beam line 4-1 at the Stanford Synchrotron Radiation Lightsource (SSRL). Data collection and analysis is described in detail in the accompanying manuscript and in the ReadMe file associated with this dataset.
DOI: 10.7302/r8q1-g224
title: Rotary spectra of surface kinetic energy in drifters and high-resolution global ocean models

description: For Drifters, HYCOM, MITgcm: Spectra and kinetic energy files. Please see readme.txt for a description of all data and code contained here.;- Compare kinetic energies (KE) of high-resolution global ocean models estimated from rotary spectra to KE in surface drifter observations.
- Near-inertial KE is closer to drifter observations in models with frequently updated wind forcing
- Internal tide KE is closer to drifter observations in models with topographic wave drag


description: The data are rotary spectra computed from the HYCOM and MITgcm (LLC4320) simulations subsampled to 1/4 degree. FOr each model, time series are generated based on the zonal (u) and meridional velocities (u) for a full year. These time series are split into 11 segments of 60 days each overlapping by 50%. 1D discrete Fourier transform of u + iv is computed. The Fourier coefficients are mutliplied by their complex conjugates and averaged over spegments to produce spectra. These spectra are integrated over defined frequency bands to produce kinetic energy values.
DOI: 10.7302/wje7-t560
title: S’Urachi Site-Based Archaeological Survey 2016-2017

description: Included here are 1) a detailed description of each of the dataset’s components, 2) a database of finds from the survey, 3) databases of the faunal bone studied by specialist Damià Ramis, 4) notes and documentation made in the field, 5)  excavation photographs 6) artifact photographs. 
description: This data was produced by the site-based archaeological survey at the nuraghe S'Urachi in west-central Sardinia (San Vero Milis, Oristano, Sardinia). The survey was carried out from 2015-2017 as a part of the ongoing Progetto S'Urachi, an archaeological project that aims to understand daily life around the monumental Bronze Age tower of S'Urachi during the later occupation of the landscape over the course of the 1st millennium BCE. This dataset includes data collected in 2016-2017, when we excavated a series of test trenches across the archaeological site in order to ground truth the results of the surface survey conducted in 2015. We excavated 5 small trenches in areas of archaeological interest, which were identified on the basis of surface collection of archaeological materials and geophysical survey results. These were called Test Trench 1, 2, 3, 4, and Area F. Each trench was excavated stratigraphically and all finds were collected and studied in the laboratory.
DOI: 10.7302/z25718z0
title: Appendix6

description: Pathway data from mi2004 mutants.
description: Methods are described in the dissertation, "Regulation of Müller Stem Cell Properties: Insights From a Zebrafish Model".
DOI: 10.7302/1tmt-nx27
title: Physical properties and magnetic susceptibility for SPR0901-04BC

description: This dataset includes core physical properties (e.g., bulk density, porosity, P-wave velocity) and magnetic susceptibility data for SPR0901-04BC (34.2816°N, 120.0415°W, 588 m water depth) measured on the multisensor track (MST). SPR0901-04BC was collected by the research vessel R/V Sproul off Southern California in 2009.1. The study is supported by NSF OCE-0752093.
description: The box core SPR0901-04BC only has one section. Multisensor track (MST) and magnetic susceptibility measurements were made every 0.5 cm on the Geotek MSCL (multisensor core logger) at the LacCore Facility, University of Minnesota in 2010.
DOI: 10.7302/1mfw-df60
title: Plaque microbiome in caries-active and caries-free teeth by dentition: ASV Data Table

description: This cross-sectional analysis included 584 participants in the Center for Oral Health Research in Appalachia cohort 1 (COHRA1). We sequenced the V4 region of the 16S rRNA of supragingival plaque from 185 caries-active and 565 caries-free teeth using the Illumina MiSeq platform. Sequences were filtered using the R DADA2 package and assigned taxonomy using the Human Oral Microbiome Database (http://www.homd.org/). 
description: *DNA extraction and Sequencing*
DNA was extracted from thawed samples.  If no liquid was present in the stored plaque sample following thawing, 300ul of cell lysis solution (Promega) was added. 100ul of plaque-containing liquid was added to an enzyme mastermix containing lysozyme (15mg/ml), mutanolysin (375U/ml), RNase A (150ug/ml), and lysostaphin (240ug/ml) (all from Sigma Aldrich). DNA was extracted using a Qiagen Qicube enzymatic lysis and DNA extraction protocol. DNA was quality control checked using a NanoDrop2000 (Thermo Scientific™). The V4 region of the 16s rRNA gene was sequenced using the Illumina MiSeq platform, with a dual indexing sequencing strategy (JJ et al. 2013). The library preparation kit was MiSeq Reagent Kit V2 500 cycles (Illumina cat# MS102-2003). Each plate of samples was submitted with a positive mock community control, a DNA extraction kit control, and a negative water control. Both positive and negative controls were sequenced simultaneously. Sequences have been submitted to the NCBI Sequence Read Archive.
description: *Bioinformatics*
We filtered sequences using the DADA2 package in R and assigned taxonomy using the Human Oral Microbiome Database (HOMD) reference database (Escapa et al. 2020). Briefly, DADA2 uses a naïve Bayesian classifier method to assign taxonomy to the sequence variants (Callahan et al. 2016). We removed amplicon sequence variants (ASVs) which were not bacterial and collapsed ASVs assigned to the same species together. ASVs of unknown species were given their assigned ASV number from the DADA2 package. After quality filtering, there were 13,932,494 reads (1,125 to 60,402 per sample), with an average read count of 18,284, and our sequencing was sufficiently deep to detect most of the taxonomic diversity. We identified 188 bacterial ASVs.
description: Files Contained Here:
-This file contains the raw ASV counts for our 188 bacterial ASVs, which were assigned to the species level with the HOMD database. Each row represents a de-identified sample and each column represents a different bacterial species.
DOI: 10.7302/pa3f-4w30
title: Battery test data - fast formation study

description: The goal of this research is to investigate the impact of fast formation protocol on battery lifetime. 

The dataset has also been used to explore data-driven approaches in battery lifetime estimation (manuscript under review). Source code used to generate the results for this work has been included.

The file contents contain a detailed README.md file which describes the organization of the files.
description: Forty prismatic lithium-ion pouch cells were built at the University of Michigan Battery Laboratory. The cells have a nominal capacity of 2.36Ah and comprise a NCM111 cathode and graphite anode.

Cells were formed using two different formation protocols: "fast formation" and "baseline formation".

After formation, cells were put under cycle life testing at room temperature and 45degC. Cells were cycled until the discharge capacities dropped below 50% of the initial capacities.

Data was collected by the cycler equipment (Maccor) during both the formation process as well as during the cycling test. Data was processed in the Voltaiq software and subsequently exported as .csv files.
DOI: 10.7302/1cd7-st82
title: Lexical spreadsheets Bangime language of Mali

description: The work on the Bangime language, spoken by the Bangande people, was carried out as part of a larger linguistic fieldwork project focused on Dogon languages. Bangime is confirmed as a language isolate with no demonstrable linguistic relatives—possibly the only such isolate in West Africa. 
description: Lexical elicitation, enriched by lexicon extracted from texts. The presentation separates nouns, adjectives, numerals, other, and verbs to permit customized formats for each category. Each class has its own worksheet in the xlsx spreadsheet, and its own document in the csv series.