cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24496210.v1
title: Data for the paper: Plant and soil microbial community assembly processes across urban vacant lots

description: Datasets used to create the main figures and tables in the paper: Plant and soil microbial community assembly processes across urban vacant lots. The file (Plant_spmatrix_all_t.csv, Plant_spmatrix_Native_t.csv, Plant_spmatrix_Exotic_t.csv) is plant community composition (a value in each cell represents species cover) data along each survey transect across urban vacant lots in Yokohama. The file (Plant_name.csv) includes nomenclature and its abbreviation. The files (OTU_table_bacteria.csv, OTU_table_fungi.csv) are bacterial and fungal community composition (a value in each cell represent number of reads) along each survey transect across urban vacant lots in Yokohama (note that presence/absence data for bacteria and fungi was used in the paper). The file (All explanatory variables_vacant lots.csv) is the data of explanatory variables used to explain plant and microbial community composition along each survey transect across urban vacant lots in Yokohama.
DOI: 10.6084/m9.figshare.24835407
title: Data_fig1.zip

description: Supporting data for figure 1 including the point spread function raw data
DOI: 10.6084/m9.figshare.24835458
title: Data_fig2.zip

description: Supporting data for figure 2
DOI: 10.6084/m9.figshare.24910971
title: Data_fig3A.zip

description: Supporting data for fig 3A. Tubulin labeled cells, raw and processed data.
DOI: 10.6084/m9.figshare.24911034
title: Data_fig3Craw.zip

description: Supporting data for fig 3C. ER labeled cells, raw data.
DOI: 10.6084/m9.figshare.24916428
title: Data_fig3Cprocessed.zip

description: Supporting data for fig 3C. ER labeled cells, processed data.
DOI: 10.18739/a2cj87n0j
title: La Perouse Glacier, Alaska air temperature and tree-ring data 2018-2021

description: Reconstructing how biota have responded to fast-paced warming events in the past can help predict their responses to rapid climate changes in the future. Here we suggest that natural communities located near glaciers are useful laboratories for this purpose as they experienced climate changes accentuated by past ice-margin fluctuations. By reconstructing an Alaskan glacier’s position over a 166-year period and measuring the periglacial air temperatures over the last three years, we estimate that the adjacent temperate rainforest episodically cooled and warmed by 0.5-0.7°Celsius / decade. These rates of change exceed most historical warming trends measured elsewhere on Earth and are comparable to the rates of climate warming predicted for the next century. At each station, Pendant Hobo sensors (Onset Corporation) were secured in north-facing, blind holes (5 x 3 x 5 centimeters) drilled into the boles of snags. The ring-width responses of yellow-cedar trees growing at varying distances from the ice edge illustrate the potential for using periglacial ecosystems to predict how forests may respond to rapid warming in the future.
DOI: 10.5281/zenodo.10539250
title: Data & scripts - Estimates on the possible annual seismicity of Venus

description: Data and scripts to reproduce the work in Van Zelst et al. (2024): 'Estimates on the possible annual seismicity of Venus'. See the file 'description_data&scripts.pdf' for more details.
DOI: 10.5281/zenodo.10602517
title: Backscatter tuned laser absorption spectroscopy in additive manufacturing

description: Raw data accompanying our paper 

Backscatter absorption spectroscopy for process monitoring in powder bed fusion
DOI: 10.5281/zenodo.3870925
title: Spherical harmonic model of the planet Venus: VenusTopo719

description: <strong>VenusTopo719.shape</strong> is a spherical harmonic model of the shape of the planet Venus. This model makes use of 4-pi normalized spherical harmonic functions that exclude the Condon-Shortley phase factor of (-1)<sup>m</sup>. The description of how this spherical harmonic model was constructed can be found in Wieczorek (2015).
description: {"references": ["M. A. Wieczorek, Gravity and Topography of the Terrestrial Planets, Treatise on Geophysics, 2nd edition, Oxford, 153-193, doi:10.1016/B978-0-444-53802-4.00169-X, 2015."]}
DOI: 10.5281/zenodo.3928151
title: RealVAD: A Real-world Dataset for Voice Activity Detection

description: <strong>RealVAD: A Real-world Dataset for Voice Activity Detection</strong> The task of automatically detecting “Who is Speaking and When” is broadly named as Voice Activity Detection (VAD). Automatic VAD is a very important task and also the foundation of several domains, e.g., human-human, human-computer/ robot/ virtual-agent interaction analyses, and industrial applications. RealVAD dataset is constructed from a YouTube video composed of a panel discussion lasting approx. 83 minutes. The audio is available from a single channel. There is one static camera capturing all panelists, the moderator and audiences. Particular aspects of RealVAD dataset are: It is composed of panelists with different nationalities (British, Dutch, French, German, Italian, American, Mexican, Columbian, Thai). This aspect allows studying the effect of ethnic origin variety to the automatic VAD. There is a gender balance such that there are four female and five male panelists. The panelists are sitting in two rows and they can be gazing audience, other panelists, their laptop, the moderator or anywhere in the room while speaking or not-speaking. Therefore, they were captured not only from frontal-view but also from side-view varying based on their instant posture and head orientation. The panelists are moving freely and are doing various spontaneous actions (e.g., drinking water, checking their cell phone, using their laptop, etc.), resulting in different postures. The panelists’ body parts are sometimes partially occluded by their/other's body part or belongings (e.g., laptop). There are also natural changes of illumination and shadow rising on the wall behind the panelists in the back row. Especially, for the panelists sitting in the front row, there is sometimes background motion occurring when the person(s) behind them moves. The annotations includes: The upper body detection of nine panelists in bounding box form. Associated VAD ground-truth (speaking, not-speaking) for nine panelists. Acoustic features extracted from the video: MFCC and raw filterbank energies. <em>All info regarding the annotations are given in the ReadMe.txt and Acoustic Features README.txt files.</em> <strong>When using this dataset for your research, please cite the following paper in your publication:</strong> C. Beyan, M. Shahid and V. Murino, "RealVAD: A Real-world Dataset and A Method for Voice Activity Detection by Body Motion Analysis", in IEEE Transactions on Multimedia, 2020.
DOI: 10.5281/zenodo.8118077
title: Georeferenced birthplaces of identified DTA authors

description: The dataset provides geo-coordinates of the birthplaces of more than 900 authors of the German Text Archive. Birthplaces were identified using the services of the German National Library (DNB), but also other sources such as Wikipedia, and then geocoordinated. The dataset was created in the study by Lameli (2018). It is requested to refer to this study when using the dataset: Lameli, Alfred. 2018. The replacement of diminutive suffixes in the New High German Period – A time series analysis in word formation. In: Journal of Historical Linguistics 8(2), 273–316.
description: {"references": ["Lameli, Alfred. 2018. The replacement of diminutive suffixes in the New High German period \u2013 A time series analysis in word formation. In: Journal of Historical Linguistics 8(2), 273\u2013316."]}
DOI: 10.5287/ora-qaywbzaap
title: [Data and analysis] Mode mixing and losses in misaligned microcavities

description: Numerical data used for the manuscript 'Mode moxing and loss in misaligned microcavities', ArXiv 2306.05894, https://doi.org/10.48550/arXiv.2306.05894
DOI: 10.5523/bris.1boq1ta44ocxf2sdv5w11hagg2
title: Data for publication "Pressure-induced reconstructive phase transition in Cd3As2"

description: All data relevant for publication "Pressure-induced reconstructive phase transition in Cd 3 As 2" accepted in Physical Review Materials 2021
DOI: 10.6073/pasta/3094e3e293703580c95e17ddce51af65
title: Summer soil temperature and moisture at the Anaktuvuk River Severely burned site from 2010 to 2013

description: Soil moisture and temperature were recorded at the Anaktuvuk River burn area during the summers from 2010 to 2013. Six sensors were deployed and measured temperature on half-hourly intervals over the summer and into the fall depending on battery function. Sensors were place in a hexagonal shape around a central data logger. Note that over time sensor depths changed due to frost heave and other environmental factors. All data contained should be treated as suspect where sensors may have been at surface. These sensors were removed August 20, 2013, no replacement sensors were installed.
DOI: 10.6073/pasta/627698983259d6963a6083d5251723cc
title: Leaf Area Index every 15 cm of 1m x 1m chamber flux and point frame plots and sites where dataloggers monitored PAR above, within and below S. pulchra and B. nana canopies during the growing season at the Toolik Field Station in AK, Summer 2012.

description: Leaf area index (LAI) measurements were taken with the Delta-T SunScan wand every 15 cm from the ground to above the canopy under both direct and diffuse light. conditions The data includes all outputs from the SunScan wand: time of measurement, transmitted light, spread of PAR sensors, beam fraction, and zenith angle. These measurements were taken for 1m x 1m chamber flux and point frame plots sampled in tall Salix pulchra and Betula nana shrub canopies as well as sites monitored remotely by PAR sensors situated above, within, and below tall shrub canopies at the Toolik Field Station in the summer of 2012.
DOI: 10.6084/m9.figshare.23820534
title: <b>Data and Code for Robust spatial self-organization in crowds of asynchronous pedestrians</b>

description: Data and codes for Robust spatial self-organization in crowds of asynchronous pedestrians.
DOI: 10.6084/m9.figshare.24923781
title: <b>Genome assembly of the milky mangrove </b><b>Excoecaria agallocha</b>

description: The milky mangrove Excoecaria agallocha is a latex-secreting mangrove that are distributed in tropical and subtropical regions. While its poisonous latex is regarded as a potential source of phytochemicals for biomedical applications, the genomic resources of E. agallocha remains limited. Here, we present a chromosomal level genome of E. agallocha, assembled from the combination of PacBio long-read sequencing and Omni-C data. The resulting assembly size is 1,332.45 Mb and has high contiguity and completeness with a scaffold N50 of 58.9 Mb and a BUSCO score of 98.4 %. 73,740 protein-coding genes were also predicted. The milky mangrove genome provides a useful resource for further understanding the biosynthesis of phytochemical compounds in E. agallocha.
DOI: 10.6084/m9.figshare.25311241
title: Supplementary Material for: Low-Level Laser Therapy for Allergic Rhinitis: A Systematic Review and Meta-analysis

description: Background: Allergic rhinitis (AR) is a common allergic disorder that impairs social and physical functioning as well as quality of life. It is characterized by sneezing, rhinorrhea, congestion, and itching which respond sub-optimally to drug therapy. Low-level laser therapy (LLLT) has anti-inflammatory and immunosuppressive properties that have shown promise in some studies.
Objective: We aim to systematically review LLLT’s effectiveness in treating AR and meta-analyze our findings.
Methods: A systematic search of PubMed, Scopus, and Web of Science was conducted on November 24th, 2023. All studies investigating LLLT on AR were included, and a pre-post meta-analysis of nasal symptoms (rhinorrhea, nasal congestion, nasal itching, and sneezing) in the LLLT treated arm was conducted. Rhinoconjuctivitis quality of life questionnaire (RQLQ) scores before and after LLLT were also meta-analyzed alongside a pairwise meta-analysis of LLLT with placebo, acupuncture, steroids/antihistamines, and ultraviolet lasers. A random effects model was used with a conservative pre-post correlation of 0.4 and standardized mean difference as the effect size.
Results: 16 studies were included in this review, and we found that nasal symptoms are alleviated post LLLT in people with AR (SMD: -1.4, 95 CI (-2.07 - -1.13), p-value&lt;0.001). RQLQ scores were also reduced after LLLT (SMD= -0.72, 95 CI (-0.94 - -0.50), p-value&lt;0.001), and very few adverse events were reported. This meta-analysis however, had significant publication bias and heterogeneity. When compared to a placebo, LLLT did not significantly improve nasal symptoms (SMD: -0.69, p-value=0.167), which might mean the post LLLT nasal symptom alleviation is due to a placebo effect. Comparisons to other treatment modalities were too few to deduce anything meaningful, although it does appear that LLLT is less effective than UV lasers.
Conclusion: LLLT is most likely effective at alleviating nasal symptomology and has a low likelihood of adverse events incidence, yet more high quality studies with larger sample sizes are needed to compare LLLT to a placebo to ensure its superiority to the placebo effect, as well as non-inferiority clinical trials to compare it to standard treatments.
DOI: 10.6084/m9.figshare.25680522
title: Supplementary Material for: Transcription Factor ETV4 Activates AURKA to Promote PD-L1 Expression and Mediate Immune Escape in Lung Adenocarcinoma

description: Introduction: The occurrence and progression of lung adenocarcinoma (LUAD) impair T-cell immune responses, causing immune escape and subsequently affecting the efficacy of immunotherapy in patients. Aurora kinase A (AURKA) is upregulated in varying cancers, but its role in LUAD immune escape is elusive. This work attempted to explore molecular mechanisms of AURKA regulation in LUAD immune escape.
Methods: Through bioinformatics analysis, AURKA level in LUAD was evaluated, and potential upstream transcription factors of AURKA were predicted using hTFtarget. ETS variant transcription factor 4 (ETV4) expression in LUAD was analyzed through The Cancer Genome Atlas (TCGA). Pearson correlation analysis was then utilized to test correlation between AURKA and ETV4. Interaction and binding between AURKA and ETV4 were validated through dual-luciferase assay and chromatin immunoprecipitation. qRT-PCR tested relative mRNA expression of AURKA and ETV4 in LUAD cells, Cell Counting Kit-8 assayed cell viability, and western blot analysis was conducted to determine protein level of programmed death-ligand 1 (PD-L1). Co-culture of LUAD cells with activated CD8+ T cells was carried out, and LDH assay was used to assess cytotoxicity of CD8+ T cells against LUAD cells. Interferon-γ (IFN-γ), Interleukin-2 (IL-2), and tumor necrosis factor-α (TNF-α) levels in the co-culture system were assessed by enzyme-linked immunosorbent assay (ELISA). Western blot assessed protein levels of JAK2, p-JAK2, STAT3, and p-STAT3.
Results: Compared to normal tissues, AURKA and ETV4 were upregulated in tumor tissues, and AURKA presented a negative association with CD8+ T cell immune infiltration but a positive association with PD-L1. qRT-PCR unveiled significantly upregulated mRNA of AURKA and ETV4 in LUAD cells compared to normal lung epithelial cells. Knockdown of AURKA significantly decreased cell viability and PD-L1 protein level in LUAD cells, enhanced cytotoxicity of CD8+ T cells against LUAD cells and IFN-γ, IL-2, and TNF-α expression, while overexpression of AURKA yielded opposite results. Furthermore, knockdown of ETV4 could reverse the oncogenic characteristics of cells caused by AURKA overexpression.
Conclusion: Our study illustrated that ETV4/AURKA axis promoted PD-L1 expression, suppressed CD8+ T cell activity, and mediated immune escape in LUAD by regulating the JAK2/STAT3 signaling pathway.
DOI: 10.6084/m9.figshare.25690593
title: Supplementary Material for: Topical corticosteroid phobia among Danish pharmacy staff

description: Background: Topical corticosteroid (TCS) phobia may negatively impact treatment adherence. Currently, there are few studies exploring trust and knowledge of TCS use among pharmacy staff.
Objective: To examine TCS knowledge and possible phobia among Danish pharmacy staff.
Methods: A questionnaire, based on Topical Corticosteroid Phobia (TOPICOP©) questionnaire, was developed and rephrased to fit pharmacy staff. The questions were Likert scales and numerical rating scales (NRS) (0-10). In October/November 2021, 64 pharmacies were invited. If the pharma-cies agreed to participate, a researcher visited the pharmacies and distributed the questionnaires. 
Results: A total of 244 pharmacy workers from 59 pharmacies participated. The majority (95.4%) responded that they were aware of side effects of TCS, however misconceptions regarding side ef-fects was found in up to 34% of participants. Regarding TCS use, 40% sometimes advised the pa-tients to wait as long as possible before initiating treatment with TCS. Confidence in dispensing TCS to patients was high with a mean of 8.45 (NRS). 
Conclusion: Danish pharmacy staff generally reported high confidence in TCS use. Misconcep-tions regarding side effects were common, and there was a tendency to giving advices on TCS treatment that may indicate low confidence in TCS. Thorough education of pharmacy staff is needed to improve the knowledge of TCS.
DOI: 10.6084/m9.figshare.25755447
title: Supplementary Material for: Development and Validation of a Novel Machine Learning Model to predict the Survival of Patients with Gastrointestinal Neuroendocrine Neoplasms

description: Introduction: Well-calibrated models for personalized prognostication of patients with gastrointestinal neuroendocrine neoplasms (GINENs) are limited. This study aimed to develop and validate a machine-learning model to predict the survival of patients with GINENs. Methods: oblique random survival forest (ORSF) model, Cox proportional hazard risk model, Cox model with least absolute shrinkage and selection operator penalization, CoxBoost, Survival Gradient Boosting Machine, Extreme Gradient Boosting survival regression, DeepHit, DeepSurv, DNNSurv, Logistic-Hazard model, and PC-Hazard model were compared. We further tuned hyperparameters and selected variables for the best-performing ORSF. Then, the final ORSF model was validated. Results: 43444 patients with GINENs were included. The median (interquartile range) survival time was 53 (19-102) months. The ORSF model performed best, in which age, histology, M stage, tumor size, primary tumor site, sex, tumor number, surgery, lymph nodes removed, N stage, race, and grade were ranked as important variables. However, chemotherapy and radiotherapy were not necessary for the ORSF model. The ORSF model had an overall C-index of 0.86 (95% confidence interval, 0.85-0.87). The area under the receiver operation curves at 1-, 3-, 5-, and 10-year were 0.91, 0.89, 0.87, and 0.80, respectively. The decision curve analysis showed superior clinical usefulness of the ORSF model than the American Joint Committee on Cancer Stage. A nomogram and an online tool were given. Conclusion: The machine-learning ORSF model could precisely predict the survival of patients with GINENs, with the ability to identify patients at high risk for death and probably guide clinical practice.
DOI: 10.6084/m9.figshare.23703681
title: trichogramma.zip

description: Data of Movie S2 and S3
DOI: 10.5281/zenodo.7993599
title: Data of Semi-Arid Climate and Environment Observatory Station of Lanzhou University (SACOL) (2019.12.09-2021.12.31)

description: <strong>Data Description</strong> The PM<sub>2.5</sub> mass concentrations were observed by using a tapered element oscillating microbalance machine (TEOM, Model RP-1400A, Thermo Scientific, USA) with a temporal resolution of 1 minute. An aethalometer (Model AE31, Magee Scientific, USA) with a PM<sub>2.5</sub> inlet was used to measure the aerosol light absorption coefficients at 370, 470, 520, 590, 660, 880, and 950 nm. Aerosol scattering coefficients of PM<sub>2.5</sub> at 450, 550, and 700 nm wavelengths were observed by using an integrating nephelometer (Model 3563, TSI, USA) with a time resolution of 10 seconds. The micro-pulse lidar was installed approximately 50 m north of the tethered balloon observation site and used to observe atmospheric echoes within 20 km vertically and then invert parameters such as the aerosol σ and aerosol optical depth. The detailed parameters of lidar are shown in Table 1. A tethered balloon (volume: 10 m<sup>3</sup>; payload: 8 kg) was used to carry the following equipment: (1) MA200 micro-aethalometer (Magee Scientific, USA), (2) TSI 9306 optical particle counter (OPC, TSI, USA), (3) KZXLT-II sounding system from the Institute of Atmospheric Physics, and (4) GPSMAP 639sc GPS (GARMIN, USA). Sounding observations were made at 02:00, 08:00, 11:00, 14:00, 17:00, and 20:00 each day from December 9 to 31, 2019. A total of 91 vertical profiles were obtained for each of the available absorbing aerosols, particle number concentrations, and meteorological parameters. The MA200 measures light absorption at 5 wavelengths (375, 470, 528, 625 and 880 nm), and a dual-spot® compensation for loading effect correction is available. The MA200 observations have been converted to 550 nm in this data based on the AAE during the observation period. OPC was used to measure the particle number concentrations and particle number size distribution in the 0–10 μm size range. The temporal resolutions of MA200 and OPC were ~ 10 s, and their vertical resolutions were ~ 10 m. KZXLT-II sounding system was used to measure the vertical distribution of meteorological elements. GPS was used to measure real-time altitude. <strong>Table 1.</strong> Main parameters of micro-pulse lidar Projects Parameters Detector Avalanche laser APD, photon counting model Observation band 532 nm Pulse frequency 2500 Hz Pulse energy 3~4 µJ Maximum observation range 15 km Time resolution 1 min Vertical Resolution 30 m
DOI: 10.6073/pasta/17302da4bd951a9dc4140187f03fae24
title: Summary of three different Leaf Area Index (LAI) methodologies of 19 1m x 1m point frame plots sampled near the LTER Shrub plots at Toolik Field Station in AK the summer of 2012.

description: Summary of three methods used to estimate the Leaf Area Index (LAI) of 19 1m x 1m plots sampled with a point frame near the LTER Shrub plots at the Toolik Field Station in AK the summer of 2012. The methods used were: (1) exponential relationship between LAI and Normalized Leaf Index (NDVI) as measured above the canopy with a Unispec spectroradiometer; (2) Delta-T SunScan canopy analyzer held at 5 cm above the ground under both direct and diffuse light conditions; (3) pin-drop point frame technique. Where values have been averaged (such as for the NDVI and SunScan measurements), the standard deviation is given. Raw data are available upon request for the Unispec data; the raw SunScan data is available under the file "PF_SunScan_LAI".
DOI: 10.15468/dl.7uqs9k
title: Occurrence Download

description: A dataset containing 3554 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Landoltia punctata (G.Mey.) Les & D.J.Crawford"
 ]
}

 The dataset includes 3554 records from 131 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049626-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.