cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.vqv2v2
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Coccyzus euleri Cabanis, 1873"
 ]
}

 The dataset includes 38 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013296-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/5tkdw2p4y7
title: Supplementary material for A study of ultra-low dose rituximab as adjuvant to standard of care in treatment of significant and extensive pemphigus vulgaris: a case series

description: Supplementary material contains two figures. Figure 1 shows recruitment data for the study and figure 2 depicts graph showing absolute CD19 cell count before and after rituximab therapy. Text after the figures explains PDAI-classification of pemphigus vulgaris disease severity.
DOI: 10.6084/m9.figshare.12636713.v1
title: SI_Table_litterfall.xlsx

description: Supplementary dataset to <i>Ecosystem-level carbon stocks and sequestration rates in mangroves in the Cananéia-Iguape lagoon estuarine system, southeastern Brazil</i>, by Rovai et al. in Forest Ecology and Management<br><br>
DOI: 10.6084/m9.figshare.27685629.v2
title: Brain-in-the-Loop Learning for Intelligent Vehicle Decision-Making

description: <br>The inflexible human-autonomy relationship within autonomous driving scenarios still has not realized deep intelligent synergy, therefore unable to provide adaptive and context-sensitive decision-making and sometimes leading to violation of human preferences or even hazards. In this paper, we utilize functional near-infrared spectroscopy (fNIRS) signals as real-time human risk-perception feedback to establish a brain-in-the-loop (BiTL) trained artificial intelligence algorithm for decision-making. The proposed algorithm uses the result of driving risk reasoning as one input of reinforcement learning combining fNIRS-based risk and driving safety field model-based risk, realizing integrating human brain activity into the reinforcement learning scheme, then overcoming the disadvantage of machine-oriented intelligence that could violate human intentions. To achieve policy learning within limited BiTL training periods, we add two modification features to the proposed algorithm based on TD3. The experiment involving twenty participants has been conducted, and the results show that in continuously high-risk driving scenarios, compared to traditional reinforcement learning algorithms without human participation, the proposed algorithm can maintain a cautious driving policy and avoid potential collisions, validated with both proximal surrogate indicators and success rates. This repository contains the experimental dataset and Python code to reproduce the experimental results used in our research on 'Brain-in-the-Loop Learning for Intelligent Vehicle Decision-Making'. Both human subject studies, control groups and ablation studies data are included in this repository. Detailed description of file organization, data structures, requirements could be found in the README.md document.
DOI: 10.6084/m9.figshare.29085125.v1
title: Appendix

description: This study explores the underlying mechanisms by which individual innovative characteristics and the perceived team innovation atmosphere affect employees’ innovative use (IU) of enterprise information systems. At the individual level, the model examines the impact of five variables on IU, namely, personal innovativeness of information technology (PIIT), innovative ability (IA), perceived team identity (PTI), and perceived job autonomy (PJA). Data were collected through scenario experiments and questionnaire surveys. A total of 409 volunteers from the Yunnan and Sichuan provinces in China were randomly divided into 133 work teams (with three to four people in each team) and asked to complete a specific task using one or more specific functions of Excel or SPSS within a given work time. After excluding teams that left the experiment for personal reasons and 34 invalid questionnaires, a regression analysis was conducted on 329 valid questionnaires to explore the interrelationships between variables. The findings demonstrate that PIIT and IA have a significant positive impact on IU. PTI and PJA partially mediate the relationship between PIIT and IU, whereas they fully mediate the relationship between IA and IU. The findings have improved our understanding of the role of individual innovative characteristics and team innovation climate in affecting individual behavior and could provide guidance for managers who hope to train employees and reform teams’ innovative support environments.
DOI: 10.6084/m9.figshare.5547814.v1
title: Trifinio_PA_Impact_Governance_Manag_capacity.xlsx

description: Study site is the Trifinio Region of Central America. Forest PAs (12) in Trifinio are classified into two management restriction levels following the IUCN classification system—strict (Categories I-II) and multiple-use (Categories III-IV). PA classifications based on level of decentralization and management capacity is based on interview primary data. Medium resolution remotely sensed Landsat images (30 m pixels) were acquired to develop least-cloud, NDVI values over 30 years in seven epochs, spaced at approximately five-year intervals, starting in 1986 and ending in 2016, during the dry season (between January and March). Two dependent variables were developed with these data: (1) mean NDVI value for 1986-2016, averaging NDVI values across all seven epochs, and (2) annual change of NDVI values between 1986-2016. A number of spatial variables expected to be correlated with designation as a PA and greenness values were sampled for each pixel in the data set. These include baseline NDVI, elevation, slope, and distance to roads, municipality capitals and country capitals.
DOI: 10.17632/f2jg98mn4x
title: Social Integration and Salivary Cortisol in Chinese Older Adults in Shanghai

description: Dataset of findings reported in a manuscript submitted to the International Journal of Molecular Sciences. The paper aims to examine the potential mediating effect of social embeddedness on the relationship between the motivation to cultivate social ties (Network Cultivation) and Cortisol Dynamic Range in a sample of Chinese older adults in Shanghai.
DOI: 10.6084/m9.figshare.12284387.v1
title: Re-evaluating Consensus in New Zealand Election Reform

description: Replication code and data for the article 'Re-evaluating Consensus in New Zealand Election Reform.' Dataset of proposed and passed election laws in New Zealand, 1957-2020.
DOI: 10.6084/m9.figshare.1588793.v2
title: Patient C

description: R workspace format. Variable "series" is the multivariate time series with time, scalp and FOE activity. The first column corresponds to time<br>(in minutes). The following 16 channels correspond to scalp electrodes (2:9 left scalp electrodes and 10:17 right scalp electrodes). The remaining columns correspond to FOE, left and right respectively. The variable "onset" determines the time of seizure onset (in minutes). Sampling frequency=200 Hz. # of channels 28 (8 + 8 scalp and 6 + 6 FOE).
DOI: 10.6084/m9.figshare.19397699.v1
title: Table_S2_Specific_Common_GAG_Partners_R1

description: Common and specific glycosaminoglycan-binding proteins<br>
DOI: 10.6084/m9.figshare.21946637.v1
title: Microplastics in permanent soil observation

description: Within this data repository we stored the research data of a recent manuscript entiteld: <br> <strong>"Microplastics in permanent soil observation samples: Spatial hotspots and temporal variability in soils"</strong> <br> <em>by C.J. Weber, J.E. Bastijans, K. Lügger and C. Heller (2023)</em> <br> <em><strong>More information can be found in the abstract provided below.</strong></em> <br> You fill find two .csv datsets containing sampling area information and microplastic (&gt;300 µm) concentrations. Sample material from permanent soil observation (PSO) areas have been provided by the Hessian State Agency for Nature Conservation, Environment and Geology Boden-Dauerbeobachtung (hlnug.de). <br> Coordinates (Gauß-Krüger, zone 3) of sampling site locations are available as a .txt file. Please note that coorinates have been zeroed in last digit due to data protection of property owners! <br> <strong>Manuscript abstract</strong> <br> <em>Microplastic (MP) contamination of soils has been reported globally and entail a bundle of negative effects on soil functions. However, spatial representative and temporal MP data considering different soils and land uses is lacking globally so far. We used archived topsoil samples from a public authority permanent soil observation programme to investigate spatio-temporal trends of MP contamination on the example of the federal state Hesse (Germany). Within samples covering a time span of maximum 16 years (2003/2004-2014/2015 and 2019), we found widespread MP (&gt;300 µm) contamination (mean 34.66±24.08 p kg-1) from mainly PE and synthetic rubber polymers. Our results show highest MP concentrations in grassland and forest soils against cropland soils. Furthermore, archived soil samples from permanent soil observation programmes enable the identification of spatial contamination hotspots in rural areas and a high variability of MP concentrations over time. No significant temporal trend within MP concentrations could be found. Given the spatial representativeness and independency against MP sources, our results suggest a ubiquitous and independent MP contamination of topsoils, leading to a rough and conservative estimation of 5.92*109 MP particles entailed in agricultural soils in Germany. Based on our results we recommend the usage of archived soil samples for soil related MP research and a treading of current gaps of underrepresented grassland and forest soils.</em>
DOI: 10.6084/m9.figshare.25523677.v1
title: <b>MAMV products</b>.zip

description: MAMV products of FY4B/GHI
DOI: 10.6084/m9.figshare.26084182.v1
title: !! GC1 NIST Molecules for figshare.xlsx

description: Comparison of mass spectra from SAM TMAH 1 experiment on GC1 to likely molecules in NIST database
DOI: 10.6084/m9.figshare.28883798.v2
title: Cardiac Histology after 2 weeks of low calorie diet and after 3 months refeeding.

description: <i>Effect of severe food restriction (sFR) on cardiac pathology</i>.<br><i>Effect of severe food restriction (sFR) on cardiac pathology after ischaemia–reperfusion (I/R).</i>
DOI: 10.6084/m9.figshare.5504989.v1
title: Supplementary Material for: Improvement and Aggravation of Spontaneous Unruptured Vertebral Artery Dissection

description: <b><i>Background:</i></b> Intracranial vertebral artery dissection (VAD) is a well-recognized cause of stroke in young and middle-aged individuals, especially in Asian populations. However, a long-term natural course remains unclear. We investigated the long-term time course of VAD using imaging findings to examine the rate and predisposing factors for improvement. <b><i>Methods:</i></b> We registered 56 consecutive patients (40 males; mean age, 51.8 ± 10.7 years) with acute spontaneous VAD and retrospectively investigated neuroimaging and clinical course within 1 month and at 3 months ± 2 weeks, 6 months ± 2 weeks, and 12 months ± 2 weeks after onset to ascertain predisposing factors and time course for improvement. <b><i>Results:</i></b> The most common presenting symptoms were headache and/or posterior neck pain, seen in 41 patients (73%). Magnetic resonance imaging showed brainstem and/or cerebellum infarction in only 32 patients (57%). Of the 56 VADs, 16 (28%) presented with pearl and string sign, 5 (9%) with pearl sign, 15 (27%) with string sign, and 20 (36%) with occlusion sign. VAD occurred on the dominant side in 20 patients and on the nondominant side in the other 36 patients. The pearl and string sign was more frequently noted on the dominant side than on the nondominant side (50 vs. 17%, <i>p</i> = 0.008). On the other hand, occlusion occurred more often on the nondominant side than on the dominant side (47 vs. 15%, <i>p</i> = 0.016). Furthermore, the pearl and string sign was more frequently seen in the improvement group (41 vs. 15%, <i>p</i> = 0.028), whereas the occlusion sign was evident more frequently in the nonimprovement group (21 vs. 52%, <i>p</i> = 0.015). Follow-up neuroimaging evaluation was performed at 1 and 3 months in 91% each, and at 6 and 12 months in 82% each. VAD aggravation was identified within 1 month after onset in 14%, while VAD improvement was seen in 14, 38, 50, and 52% at each period, mainly within 6 months after onset. Older patients and current smoking were negatively associated with VAD improvement. <b><i>Conclusions:</i></b> VAD improvement primarily occurs within 6 months after onset, and VAD aggravation within 1 month. It seems that older patients and current smoking are negative predictors of VAD improvement as risk factors, and as image findings, the pearl and string sign is a positive predictor and occlusion a negative predictor.
DOI: 10.17632/8dvx3vvvk9
title: A dataset of stem reflectance spectra for standing dead Scots pine trees

description: The methods used to collect and preprocess this dataset have been reported in detail in Juola J., Hovi A., Rautiainen M., 2022. A spectral analysis of stem bark for boreal and temperate tree species. Ecology and Evolution. DOI:10.1002/ece3.8718

The dataset includes stem reflectance spectra of standing dead trees for the species of Scots pine (Pinus sylvestris L.). We measured hemispherical-directional reflectance factors (HDRF) of stem samples. The data were measured using a Specim IQ imaging spectrometer. The measurements were taken from the northern side of the stem at breast height (1.3 m), and the image acquisition distance was 20 cm. The imaging spectrometer operates in the visible and near-infrared wavelength region (400–1000 nm). The measurements were made in the municipality of Rovaniemi, Finland. We measured 13 standing dead Scots pine trees, accounting to a total of 13 unique stem samples. One sample refers to a hyperspectral reflectance image taken of a single standing dead tree stem (at 1.3 m height). The 13 mean spectral signatures (presented in this dataset) were calculated for each sample by averaging the HDRF values over all pixels per wavelength. The measurements were conducted in the beginning of August 2022. All measurements were made under diffuse illumination conditions and the images were taken in perpendicular view-angle to the standing stem. The dataset includes 1) one tabular file that contains all 13 mean reflectance spectra, and 2) a supportive document that has images of the individual standing dead trees and RGB visualizations of the measured hyperspectral reflectance images.

The spreadsheet (.csv) is organized as follows: first two rows that start with hashtag (#) contain comments for citing, first column "tree_species" (standing_dead_tree_pinus_sylvestris) indicates the standing dead tree species, second column "id" (K1-K13) indicates the unique stem id's for which images can be found in the supportive document, and the subsequent columns "wl397.32"-"wl1003.58" indicate the measured HDRF value at that wavelength. The encoding of the csv file is UTF-8. 

The supportive document (.pdf) contains the dataset description given here, but also images of the standing dead trees taken in the forest and their corresponding RGB visualizations of the measured hyperspectral reflectance images. The Diameter at Breast Height (DBH) are given for each stem in the figure descriptions.

If you use this dataset, please cite:
Juola, J., Rautiainen, M., 2022. A dataset of standing dead tree stem reflectance spectra for Scots pine. Mendeley Data, V1, doi: 10.17632/8dvx3vvvk9.1

Funding: Academy of Finland (ARTISDIG, grant number: 348152)

Acknowledgments: We thank Veli Juola and Erkki Tuovinen for assistance in the field campaign.
DOI: 10.17632/9kgt46cpdh
title: Mycobacterium tuberculosis Strain SIT745/EAI1-MYS

description: Data of Complete genome assembly of M.tuberculosis SIT745/EAI1-MYS
DOI: 10.17632/jkzsh6pcv4
title: Fundus Image Myopia Development (FIMD) dataset

description: Fundus Image Myopia Development (FIMD) dataset contains 70 retinal image pairs, in which, there is obvious myopia development between each pair of images. In addition, each pair of retinal images has a large overlap area, and there is no other retinopathy. In order to perform a reliable quantitative evaluation of registration results, we follow the annotation method of Fundus Image Registration (FIRE) dataset [1] to label control points between the pair of retinal images with the help of experienced ophthalmologists. Each image pair is labeled with 12 pairs of widely and uniformly distributed control points, which are mainly located at the bifurcation and crossing of blood vessels. FIMD also records the corresponding vision screening data of each image, including age, gender and uncorrected visual acuity. It should be noted that the time interval between two images is relatively long (one to five years), and the fundus cameras are different, which leads to different resolution, brightness, contrast and field of vision between two images. 
Moreover, the structure of our FIMD dataset is shown in "FIMD-dataset-structure.txt". You can conduct registration studies on image pairs in the dataset, and then evaluate the registration effect through annotated control points. In addition, we also record the age, gender, and uncorrected visual acuity for each image, so related study on the development of myopia may also be performed on this dataset. It depends on your own thinking. 

Reference: [1] Hernandez-Matas C, Zabulis X, Triantafyllou A, et al. FIRE: fundus image registration dataset[J]. Modeling and Artificial Intelligence in Ophthalmology, 2017, 1(4): 16-28.
DOI: 10.6084/m9.figshare.16862647.v1
title: Improved group sequential Holm procedures for testing multiple correlated hypotheses over time

description: Clinical trials can typically feature two different types of multiple inference: testing of more than one null hypothesis and testing at multiple time points. These modes of multiplicity are closely related mathematically but distinct statistically and philosophically. Regulatory agencies require strong control of the family-wise error rate (FWER), the risk of falsely rejecting any null hypothesis at any analysis. The correlations between test statistics at interim analyses and the final analysis are therefore routinely used in group sequential designs to achieve less conservative critical values. However, the same type of correlations between different comparisons, endpoints or sub-populations are less commonly used. As a result, FWER is in practice often controlled conservatively for commonly applied procedures. Repeated testing of the same null hypothesis may give changing results, when the hypothesis is rejected at an interim but accepted at the final analysis. The mathematically correct overall rejection is at odds with an inference theoretic approach and with common sense. We discuss these two issues, of incorporating correlations and how to interpret time-changing conclusions, and provide case studies where power can be increased while adhering to sound statistical principles.
DOI: 10.6084/m9.figshare.29172113.v1
title: Dataset for "Prompt Engineering with Requirements in GitHub Copilot"

description: <pre>Practices within requirements engineering are essential for the success of software projects. In particular, document analysis enables the elicitation of requirements without engaging directly with the stakeholders. This thesis presents a method of scraping documents from English open-source software repositories hosted on GitHub and extracting requirements from these documents. This is done in order to supply GitHub Copilot with more context when prompting it to repay self-admitted technical debt expressed through TODO comments. Three different prompt templates were created to evaluate this approach. The first template had no requirements in the prompt, the second template had some relevant requirements, and the third one had all the relevant requirements. After prompting Copilot, prompts from the first template were shown to the best at repaying debt -- amounting to a repayment rate of 72%. However, they also accounted for the most repayments that did not conform to all the requirements. While prompts from the third template showed the best results in regard to this, they displayed a lower debt repayment rate of 64%. Finally, it is noted that self-admitted debt is not truly repaid unless done in a way that conforms to the relevant requirements. As such, there is a need for future research to expand upon this particular problem through the development of a robust framework.<br></pre>
DOI: 10.6084/m9.figshare.5122474.v1
title: Supplementary Material for: Altered Phenotype of Blood Dendritic Cells in Patients with Acute Pneumonia

description: <i>Background:</i> Dendritic cells (DCs) play a key role in the host defence against inhaled pathogens. However, the phenotype of blood DCs in patients with acute respiratory infections is unknown. <i>Objective:</i> To investigate the number and the expression of function-associated molecules of blood DCs in patients with acute infectious pneumonia. <i>Methods:</i> Sixteen patients with acute pneumonia and 19 controls without pneumonia were included in the study. The number as well as the expression of function-associated molecules of myeloid DCs (mDCs) and plasmacytoid DCs (pDCs) were analysed in peripheral blood using four-colour flow cytometry. <i>Results:</i> Elevated concentrations of procalcitonin (median: 0.55 ng/ml) and the rapid response to antibiotic treatment suggested a bacterial origin of the pneumonia in the patients. Total mDC (median: 27% of the controls) and pDC counts (median: 53% of the controls) were markedly reduced in patients with pneumonia, as compared to the controls. Percentages of blood mDCs, but not pDCs, were negatively correlated with serum concentrations of C-reactive protein. Patients with pneumonia were characterised by a significantly increased expression of Fc gamma receptors (CD32 and CD64) on mDCs and the Toll-like receptor 9 (TLR9) on pDCs. <i>Conclusions:</i> Circulating DCs are markedly reduced in patients with pneumonia, and characterised by an up-regulation of molecules recognising pathogen-associated molecular patterns and opsonised antigens.