Find research datasets worth reusing

opencc-by-4.0Jun 2021View details →

Quality and Trackability of Author Indicated Software Citations (NEST Case Study)

This dataset contains a randomly selected minimal sample of 471 NEST software citations, which were provided by authors and published on the NEST software page as a publication list. The software citations were analyzed on their quality and trackability. The data was collected in 2020 for a PhD thesis on research data and software (re)use indications in scholarly works.

opencc-by-4.0Jun 2021View details →

Virtually recreating a Renaissance library: the case of Pico della Mirandola

Paper presented on Friday 11 June 2021 at the Digital Medievalist Global Symposium The past, present, and future of Digital Medieval Studies for the Asia & Oceania Panel, in the session Virtual Reconstructions.

MWCC: A Corpus of Malawi Criminal Cases - Extract

This is an extract of a corpus of Malawi Criminal Cases annotated with legal citations.

opencc-by-4.0Mar 2021View details →

"COVID toes": a meta-analysis of case and observational studies on clinical, histopathological and laboratory findings.

Background: Coronavirus disease (COVID-19) is related to several extrapulmonary disorders; however, little is known about the clinical, laboratory and histopathological characteristics of pernio-like skin lesions associated with COVID-19 infection. Objective: To evaluate and summarize the clinical, laboratory and histopathological characteristics of pernio-like lesions reported in the literature. Methods: We conducted a search of the PubMed, SciELO and ScienceDirect databases for articles published between 1 January 2020 and 30 November 2020, following the PRISMA recommendations (PROSPERO registration ID: CRD42020225055). The target population was individuals with suspected or laboratory-confirmed COVID-19 with pernio-like lesions. Observational studies, research letters and case/series reports were all eligible for inclusion. Observational studies were evaluated using a random-effects model to calculate the weighted mean prevalence, overall mean and 95% confidence interval. We evaluated case studies using the chi-square test for dichotomous variables and the Mann-Whitney test for continuous variables. Results: A total of 187 patients from case reports and 715 patients from 18 observational studies were included. The mean age of patients was 16.6 (14.5–18.8) years. Feet were affected in 91.4% (87.0–94.4%) of patients in observational studies. The proportion of patients with a positive RT-PCR test was less than 15%. Lesion topography and morphology were associated with age. Conclusion: Lesions mostly occurred in pediatric patients, and the morphological characteristics tended to differ between pediatric and non-pediatric populations. There is a possible multifactorial component in lesion pathophysiology. The non-positivity of laboratory tests does not exclude an association with COVID-19. Chilblain-like lesions may be a late manifestation of COVID-19.

Dataset: Recruitment of pioneer trees with physically dormant seeds under climate change conditions: the case of Vachellia pennatula (Fabaceae) in semiarid environments of Mexico

This repository contains the files associated with the following article: Sandoval-Martínez J, JA Flores-Cano and EI Badano. Recruitment of pioneer trees with physically dormant seeds under climate change conditions: the case of Vachellia pennatula (Fabaceae) in semiarid environments of Mexico. Journal of Plant Research, 135, pp. 453-463. <a href="https://doi.org/10.1007/s10265-022-01383-y">https://doi.org/10.1007/s10265-022-01383-y</a> The first Microsoft Excel file contains six sheets with the microclimatic data (photosynthetic photon flux density, air temperature, relative humidity, soil temperature, rainfall and soil moisture) measured at controls under the current climate and climate change simulation plots located at each experimental site (Rio Bagres and Cañada Grande). The second Microsoft Excel file contains a single sheet with the data used to estimate the seedling emergence and survival rates from scarified and unscarified seeds of Vachellia pennatula in controls and climate change simulation plots at each experimental site (Rio Bagres and Cañada Grande).

opencc-by-4.0Mar 2020View details →

A case report on intensive, robot-assisted rehabilitation program for brainstem radionecrosis

Radiotherapy is a valid treatment option for nasopharyngeal carcinoma. However, complications can occur following irradiation of the closest anatomical structures, including brainstem radionecrosis (BRN). The rehabilitation is poorly described in patients with BRN, despite its usefulness in improving functional independence in patients with brain tumors. We aimed at testing the usefulness of intensive, robot-assisted neurorehabilitation program to improve functional independence in a 57-year-old male with BRN. Patient concerns:  A 57-year-old male diagnosed with a nasopharyngeal carcinoma, received a radiation total dose of 72 Gy. Owing to the appearance of a severe symptomatology characterized by dysphagia, hearing loss, and left sided hemiparesis, the patient was hospitalized to be provided with intensive pharmacological and neurorehabilitation treatment. Diagnosis:  Follow-up brain magnetic resonance imaging disclosed no residual cancer, but some brainstem lesions compatible with BRN areas were appreciable. Intervention:  The patient underwent a 2-month conventional, respiratory, and speech therapy. Given that the patient only mildly improved, he was provided with intensive robot-aided upper limb and gait training and virtual reality-based cognitive rehabilitation for other 2 months. Outcomes:  The patient reported a significant improvement in functional independence, spasticity, cognitive impairment degree, and balance. Conclusion:  Our case suggests the usefulness of neurorobotic intensive rehabilitation in BRN to reduce functional disability. Future studies should investigate whether an earlier, even multidisciplinary rehabilitative treatment could lead to better functional outcome in patients with BRN.

opencc-by-4.0May 2019View details →

Improving neuropsychiatric symptoms following stroke using virtual reality: A case report

Post-stroke cognitive impairment occurs frequently in patients with stroke, with a 20% to 80% prevalence. Anxiety is common after stroke, and is associated with a poorer quality of life. The use of standard relaxation techniques in treating anxiety in patients undergoing post-stroke rehabilitation have shown some positive effects, whereas virtual reality seems to have a role in the treatment of anxiety disorders, especially when associated to neurological damage. A 50-year-old woman, smokers, affected by hypertension and right ischemic stroke in the chronic phase (i.e., after 12 months by cerebrovascular event), came to our observation for a severe anxiety state and a mild cognitive deficit, mainly involving attention and visuo-executive processes, besides a mild left hemiparesis. Anxiety in a patient with ischemic stroke. Standard relaxation techniques alone in a common clinical setting or the same psychological approach in an immersive virtual environment (i.e., Computer Assisted Rehabilitation Environment – CAREN). The patient's cognitive and psychological profile, with regard to attention processes, mood, anxiety, and coping strategies, were evaluated before and after the 2 different trainings. A significant improvement in the functional and behavioral outcomes were observed only at the end of the combined approach.The immersive virtual reality environment CAREN might be useful to improve cognitive and psychological status, with regard to anxiety symptoms, in post-stroke individuals.

opencc-by-4.0Jul 2020View details →

A Case of Psychogenic Myoclonus Responding to a Novel Transcranial Magnetic Stimulation Approach: Rationale, Feasibility, and Possible Neurophysiological Basis

Repetitive transcranial magnetic stimulation (rTMS) can relieve motor symptoms related to psychogenic movement disorders (PMDs), but the subtending neurophysiological basis is unclear. We report on a 50-year-old woman with a diagnosis of psychogenic myoclonus in the right lower limb, who was treated with a daily session (in the late morning/early afternoon) of 1 Hz rTMS over the left premotor cortex (PMC), five times a week for 6 weeks. Clinical data and EEG at rest were collected before and immediately and 2-month after the rTMS protocol completion. The patient reported a significant reduction of involuntary movement frequency and intensity and the related disability burden up to the follow-up. In parallel, any abnormality in terms of source current density within and connectivity between the frontal and parietal areas was reset. The short follow–up period, the lack of extensive neurophysiological measures, and the lack of control treatment represent the main limitation of the study. However, low-frequency rTMS over PMC seems a safe and promising approach for the management of psychogenic myoclonus owing to the combination of cortical neuromodulation and non-specific mechanisms suggesting cognitive-behavioral effects.

Open-Source Software Product Line Extraction Processes: the ArgoUML-SPL and Phaser Cases

Collection of datasets and analysis scripts supporting the information provided in the text. There are two compressed files, one for the ArgoUML data and one for the Phaser data. Each compressed file contains a README describing important information.

Dataset to: The efficiency of retention measures in continuous-cover forestry for conserving epiphytic cryptogams: A case study on Abies alba

The file contains data used in the paper mentioned aboved. Abbreviations of variables, species etc. please see Table 1 and Appendix S5 in the publication, respectively. The variables dbh and ele (elevation) are already transformed. The sheets "Ordination_Epiphytes_spec" and "Ordination_Epiphytes_env" were also used for detecting significant associations of species to the tree types (HT vs. AT).

Dataset and Code for "A case study of space-time performance comparison of wind turbines on a wind farm"

This is the computer code and partial dataset for producing the results in the paper, Ding, Kumar, Prakash, Kio, Liu, Liu, and Li, 2021, “A case study of space-time performance comparison of wind turbines on a wind farm,” Renewable Energy, Vol. 171, pp. 735-746 . [Note 1: In the Reproducibility Report, The table numbers are off by one, namely that Table 2 should be Table 3, and Table 3 should be Table 4.] [Note 2: The results in Table 4 included in the paper were produced by the DSWE version 1.3.4. Those results are still reproducible if using the same version of DSWE.  Since then, DSWE went through some changes and updates.  When using DSWE 1.5.1 version (the latest version as of May 10, 2022) and setting the optimization method to 'L-BFGS-B' (because version 1.3.4’s default optimization setting was 'L-BFGS-B'), the results corresponding to the second row in Table 4 are somewhat different.  For the specific results using DSWE 1.5.1, please see the note section at the end of the <a href="https://aml.engr.tamu.edu/wp-content/uploads/sites/164/2022/05/J77_Reproducibility_Report_v2.pdf">updated Reproducibility Report</a>.]

opencc-zeroSep 2021View details →

dryad36/100

Combined palaeohistological and isotopic inferences of thermometabolism in extinct Neosuchia, using Goniopholis and Dyrosaurus (Pseudosuchia: Crocodylomorpha) as case studies

The evolution of thermometabolism in pseudosuchians (Late Triassic to the present) remains a partly unsolved issue: extant taxa (crocodilians) are ectothermic, but the clade was inferred ancestrally endothermic. Here we inferred the thermometabolic regime of two neosuchian groups, Goniopholididae (Early Jurassic to Late Cretaceous) and Dyrosauridae (Middle Cretaceous to Late Eocene), close relatives of extant crocodilians, in order to elucidate the evolutionary pattern across Metasuchia (Early Jurassic to the present), a clade comprising Neosuchia (Early Jurassic to the present) and Notosuchia (Middle Jurassic until Late Miocene). We propose a new integrative approach combining geochemical analyses to infer body temperature from the stable oxygen isotope composition of tooth phosphate and palaeohistology and phylogenetic comparative methods to infer resting metabolic rates (RMR) and red blood cells dimensions. †Dyrosaurus and †Goniopholis share with extant crocodilians similar lifestyles, body forms, bone tissue organization, body temperatures (Tb), metabolic rates and red blood cells dimensions. Consistently, we infer ectothermy for †Dyrosaurus and †Goniopholis with the parsimonious implication of neosuchians and metasuchians as being primitively ectothermic.

Unique laboratory: a case of HD 40759

HD 40659 is a known magnetic CP star in Orion OB1 association. Multiple observations of the star with the 6-m telescope of SAO show the magnetic field varying from zero to 2.5 kG. The period of variability remained unknown until the new observations of TESS became available. Analysis of TESS data uncovered the intricate nature of the star which turned out to be an eclipsing system of two stars with SPB pulsations and a magnetic possibly pulsating CP component. Here we report the first results of an elaborate analysis of all components of HD 40759.

opencc-zeroOct 2021View details →

dryad36/100

Integrating socio-ecological suitability with human-wildlife conflict risk: Case study for translocation of a large ungulate

1. Translocations are essential for reestablishing wildlife populations. As they sometimes fail, it is critical to assess factors that influence their success pre-translocation. 2. Socio-ecological suitability models (SESMs) integrate social acceptance and ecological suitability to enable identification of areas where wildlife populations will expand, which makes it likely that SESMs will also be useful for predicting translocation success. 3. To inform site-selection for potential elk (Cervus canadensis) reintroduction to northeastern Minnesota, USA, we developed broad-scale maps of social acceptance from surveys of local residents and landowners, animal use equivalence (AUE) from forage measured in the field, and empirical conflict risk from geospatial data. Resulting SESMs integrated social acceptance favorability scores, AUE, and conflict risk, and weighted SESMs showed the relative influences of acceptance and conflict. 4. Social acceptance was positive for local residents and landowners (mean ≥ 5.4; scale of 1 to 7). AUE (scaled to an elk home range) ranged between 1 and 9 elk/16 km2 during winter, and from 14 to 83 elk/16 km2 during summer. Human-elk conflict risk was low (mean ≤ 0.10; scaled 0 to 1), increasing from north to south. Geographical distributions differed for social acceptance, AUE, and conflict risk, and weighted SESMs revealed unsuitable areas that were otherwise obscured. 5. Synthesis and applications. Integrating human-wildlife conflict risk into SESMs shows where social acceptance of translocated species is likely to erode, even where viewed favorably pre-translocation, to inform translocation planning by highlighting interactions between key factors. Such integrated models supplement existing reintroduction biology frameworks by supporting decision-making and knowledge development. In northeastern Minnesota, natural resource managers who are considering elk reintroductions are using SESMs reported here to identify where human-elk conflict is likely to result in an isolated elk population and where addressing concerns for area residents about conflict risk is essential.

CS16: Policy for sustainable development ( development of "Croatian Case Study - Legumes: their potential role in Croatian agricultural production")

(i)The main aim is to develop a document that will gave an overview of current situation regarding legumes consumption and production in Croatia and also to develope a reccomendations for policy makers.   (ii) Purpose of this Case Study and the whole project implementation is to raise awareness about consumption and production of legumes both for human consumption and animal feed. (iii) April 2019.- September 2019.  (iv) Species - N.A.  (v) PIRED facilities (vi) Following different methodological tools was applied like: desk research, analysis of available quantitative historical data, interviews with key regional retailers and company managers, focus groups, benchmarking, expert analysis and expert drafting (vii)  detection of number of producers, utilized areas,  processing infrastructure and development of recommendations for policy makers and local decision makers.  (viii) in progress (ix) This document will have significant impact on policy, mainly on local level ( for local decision makers) because developed recommendations will gave an directions, guideline and examples of good practice.

CS16: Policy for sustainable development ( development of "Croatian Case Study - Legumes: their potential role in Croatian agricultural production")

(i)The main aim is to develop a document that will gave an overview of current situation regarding legumes consumption and production in Croatia and also to develop recommendations for policy makers.   (ii) Purpose of this Case Study and the whole project implementation is to raise awareness about consumption and production of legumes both for human consumption and animal feed. (iii) April 2019.- September 2019.  (iv) Species - N.A.  (v) PIRED facilities

The Complicated Case of δ Scuti Pulsations and Rotation in KIC 6951642; a long-orbit Single-lined Spectroscopic Binary Star

Abstract: More than four years of HERMES observations have confirmed KIC 6951642 is a very long orbit (≈1770 d) single-lined spectroscopic binary (F0-type) with a fast-rotating companion (vsin i = 123±3 Km/s). The Fourier spectrum of its four-year photometric observations includes plenty of significant frequencies (594) in low- and high-frequency regions. The high-frequency modes appear with various time-delay patterns. We detected several rotationally split 𝛿 Scuti pulsations centered at 13.96 per day (and average frequency spacing of Δ𝑓= 0.723±0.006 per day) for KIC 6951642. The detailed study of all significant low frequencies, extended from 0.72 to 3.60 per day, revealed that the two most dominant frequencies (with the same amplitude and larger than of p-modes) are a combina3on the lowest-frequency modes (𝑓3 = 𝑓< 0.17 per day), i.e. 𝑓orhrm + 𝑚𝑓orhrm (𝑚 = 12,14). We suggest the lowest-frequency modes are very large harmonics (orders of 10) of orbital frequency (≈0.0006 per day). We verified the other most dominant low-frequencies as harmonics of rotation frequency 0.721 per day and its combinations. Finally, we reject the probability of hybrid pulsations in the fast-rotating companion of KIC 6951642. We introduce it as a 𝛿 Scuti pulsator with a candidate rotation frequency of 0.721 per day.

Dataset about discretionary damages of mental suffering in fatal car accident cases in Taiwan

We use the Taiwan Judicial Yuan Law and Regulations Retrieving System to search and collect the judgments from 2006 to 2020 in Taiwan Taichung District Court, and then we delete the irrelevant judgments such as judgments against the plaintiff (without assessing the mental suffering damages). Furthermore, this dataset only focuses on the judgments with one victim and one defendant, excluding the judgments with more than one victim or defendant. Next, we take one plaintiff as one data unit, and we extract the legal factors from the judgments and take them as features in the dataset. Apart from the legal factors which judges considered while assessing the mental suffering damages, we add some extra features which we think important and relevant to the assessment of mental suffering dam- ages. For example, we add some features that might affect the discretionary damages, including the total number of plaintiffs who are victim’s parents in the same case, the total number of plaintiffs who are victim’s children in the same case, and the total number of plaintiffs in the same case. Besides, we extract the discretionary damages from the judgments and take them as the target values (𝑦 vector) in the dataset. Finally, there are some features in the dataset lacking the unified unit, so we need to determine the unified unit for those feature columns. To sum up, the dataset contains 483 observations and 34 features

opencc-zeroOct 2021View details →

dryad36/100

Ancient volcanos as species pumps: A case study of freshwater amphipods in Northeast Asia

Volcano-tectonic processes have been viewed as primary divers in the formation of present-day diversity. Volcanos associated with mountain uplifts drives allopatric speciation through vicariance and may impact the surrounding areas like species pump or species attractor. However, the application of these hypotheses to aquatic fauna has rarely been tested explicitly. We conducted this research in the Changbai Mountains (Mts), which are one of the most typical, active volcanic ranges in Northeast (NE) Asia with a long and turbulent geological history. The Gammarus nekkensis species complex of amphipod crustaceans, widely distributed throughout NE Asia with poor dispersal abilities and a long evolutionary history, is a suitable model for testing these hypotheses. Phylogenetic and ancestral range reconstructions demonstrated that the studied amphipod originated from the Changbai Mts approximately 27 Ma and diverged into eastern (Clade I) and western (Clade II) clades, which corresponds well with the initial volcanic eruption of the Changbai Mts in the Late Oligocene. The subsequent diversifications of subclades CI-3, CII-1a and CII-2a were likely driven by second and third eruptions of the Changbai Mts during the Miocene. In particular, the Changbai lineages had spread to the Russian Far East multiple times since the Early Miocene, and widely colonized the region during the Pleistocene. Our discoveries suggest that the ancient volcanos of the Changbai Mts act as species pumps in NE Asia, resulted in burst of diversification around the Changbai Mts and subsequent dispersals into adjacent regions.

CStone paper: Case study 1 - simulated data

Summary cDNA libraries from fruit fly, leopard, rat and canary were downloaded from Ensembl [1]. For each ≈10 million read pairs, of length 200 nt, insert size 300 nt and containing no read error, were generated from transcripts that ranged in length from 300 to 5000 nt in a manner that reflects uniform coverage. Further details are described in our manuscript: "<a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009631">CStone: A de novo transcriptome assembler for short-read data that identifies non-chimeric contigs based on underlying graph structure</a>" [2]. Use of such simulated data allows for the comparison of the assembled contigs to the sequences from which the reads were derived, while excluding the effects of unknown variation; including that of sequencing error and poor coverage. The CStone project page is located at: https://sourceforge.net/projects/cstone/ Related software to this project are: 1. <a href="http://sourceforge.net/projects/cstone/">CStone</a> < 2. <a href="http://sourceforge.net/projects/csreadgen/">CSReadGen</a> 3. <a href="https://sourceforge.net/projects/cview/">CView</a> 4. <a href="https://sourceforge.net/projects/chimsim/">ChimSim</a> 5. <a href="https://sourceforge.net/projects/tvscript/">TVScript</a> A related poster discussing the the identification of chimerism during assembly is available <a href="https://doi.org/10.5281/zenodo.6022493">here</a> and one discussing the effects of chimerism is available <a href="https://doi.org/10.5281/zenodo.6023170">here</a>. General details of the project are available <a href="https://cibio.up.pt/en/projects/de-novo-based-sequence-assembly-of-next-generation-sequence-data-without-chimeras-improved-annotation-gene-expression-profiles-and-haplotype-br-reconstruction/">here</a>.   References 1. Yates AD, Achuthan P, Akanni W, Allen J, Allen J, Alvarez-Jarreta J, et al. Ensembl 2020. Nucleic Acids Res. 2020;48: D682–D688. doi:10.1093/NAR/GKZ966 2. Linheiro R, Archer J. CStone: A de novo transcriptome assembler for short-read data that identifies non-chimeric contigs based on underlying graph structure. PLOS Comput Biol. 2021;17: e1009631.