cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4793737.v1
title: Supplementary Material for: Genome-Wide Identification and Analysis of the Type-B Authentic Response Regulator Gene Family in Peach (Prunus persica)

description: The type-B authentic response regulator (ARR-B) family members serve as DNA-binding transcriptional regulators, whose activities are probably regulated by phosphorylation/dephosphorylation, resulting in the rapid induction of type-A ARR genes. Type-B ARRs are believed to be involved in many biological processes, including cytokinin signaling, plant growth, and stress responses through a chaperone or by isomerization of proline residues during protein folding. The public availability of complete peach genome sequences allows the identification of 23 ARR-B genes by HMMER and blast analysis. Scaffold locations of these genes in the peach genome were determined, and the protein domain and motif organization of peach type-B ARRs were analyzed. The phylogenetic relationships between peach type-B ARRs were also assessed. The expression profiles of peach ARR-B genes revealed that most of the type-B ARRs showed high expression levels in tissues undergoing rapid cell division and may engage more cytokinins, like half-opened flowers, fruits at expansion stages, and young leaves. These findings not only contribute to a better understanding of the complex regulation of the peach ARR-B gene family, but also provide valuable information for future research in peach functional genomics.
DOI: 10.6084/m9.figshare.7358390.v1
title: Dynamic range extension for photon counting arrays

description: This script is a supplement of the paper: I. M. Antolovic, C. Bruschini, and E. Charbon, “Dynamic range extension for photon counting arrays,” Opt. Express, vol. 26, no. 17, p. 22234-22248, Aug. 2018.<br><br>The first three sections output the F factor described in the paper. The fourth section plots the theoretical response, standard deviation and signal-to-noise ratio for the three recharge mechanisms. <br><br>Measured and detected counts are denoted with m and n, respectively, and normalized to 1/Tdead, where Tdead is the dead time of SPAD imagers. When following the Quanta Image Sensor notation, m/Tdead is the bit density D or electrons, and n/Tdead is the exposure H.<br><br>The fifth section verifies the theoretical curves with simulations results, which are plotted in the last section of the script. The fifth section can be also skipped since *.mat simulation data is provided.<br>
DOI: 10.6084/m9.figshare.7907693.v1
title: Data from 'Critical predictors of functional, phylogenetic, and taxonomic diversity are geographically structured in lichen epiphytic communities'

description: There are two spreadsheets: 'Data' and 'Metadata'. 'Data' contains the raw data used in the structural equation models (SEMs). 'Metadata' includes the description of all the variables and units. All the methodological details can be found in the manuscript (Journal of Ecology).
DOI: 10.17632/55623jkwrp
title: Data Science, Analytics and Machine Learning with R

description: Datasets of the book.
DOI: 10.17632/6k3w5zyj7m
title: Data for : Preoperative Duloxetine to Improve acute pain and quality of recovery in patients undergoing modified radical mastectomy: A dose-ranging randomized controlled trial

description: Preoperative Duloxetine to Improve acute pain and quality of recovery in patients undergoing modified radical mastectomy: A dose-ranging randomized controlled trial Objective: Duloxetine has been recently used as a part of multimodal analgesia in perioperative settings, yet the optimal dose of Duloxetine is not determined. Design: A parallel, randomized, placebo-controlled trial. Setting: Tertiary level oncology center Patients: 88 female patients with breast cancer were subjected to modified radical mastectomy (MRM) with ASA class I and II were recruited. Intervention: Participants were randomly allocated into 4 equal groups received 2 hours preoperatively, placebo (D0, N=22), Duloxetine 30 mg (D30, N=22), Duloxetine 60 mg (D60, N=22) and Duloxetine 90 mg (D90, N=22) tablet. Measurements: The primary outcome; 24 h cumulative postoperative morphine consumption and the secondary outcomes; VAS score of pain intensity, quality of recovery (QoR-40), time to Aldrete 9, and side effects (sedation and vomiting) were measured. Results: The median (IQR) consumption of morphine (mg) in the first postoperative 24 hours was significantly decreased in both (D60 and D90) groups compared to (D0 and D30) groups, P &lt; 0.001(Bonferroni corrected), however, a non-significant reduction was observed between D90 group vs. D60 group and D30 group vs. D0 group, P= 0.595 and P = 0.462 respectively, D60 vs. D0; 0(0-6) vs. 10(9-12), D60 vs. D30; 0(0-6) vs. 9(8-11), D90 vs. D0; 0(0-5) vs. 10(9-12), D90 vs. D30; 0(0-5) vs. 9(8-11), D90 vs. D60; 0(0-5) vs. 0(0-6), D30 vs. D0; 9(8-11) vs. 10(9-12), patients in D90 group took longer time to recover from anesthesia " time to Aldrete 9" and showed an increased level of sedation in comparison with other groups, vomiting was more frequent in the D90 group. Conclusion: Preoperative oral Duloxetine of 60 mg, for patients subjected to MRM is the optimal dose considering its analgesic efficacy and side effects.
DOI: 10.17632/8wx2hd5twc
title: Supplementary Figure I: Clinicopathologic characterization of enfortumab vedotin-associated cutaneous toxicity in patients with urothelial carcinoma

description: Hirotsu KE, Rana J, Wang JY, Raghavan SS, Rieger KE, Srinivas S, Fan AC, Kwong BY, Novoa RA, Zaba LC, Clinicopathologic characterization of enfortumab-vedotin associated cutaneous toxicity in patients with urothelial carcinoma, Journal of the American Academy of Dermatology (2021) doi: https://doi.org/10.1016/j.jaad.2020.11.067.
DOI: 10.6084/m9.figshare.14717355.v1
title: Water geochemistry in surface and ground water systems

description: Comparative assessment of the relationship between coliform bacteria and water geochemistry in surface and ground water systems
DOI: 10.6084/m9.figshare.19103180.v1
title: Dataset pm25 reduction.xlsx

description: survey data of 250 Korean students on bikeshare intention
DOI: 10.6084/m9.figshare.27268023.v1
title: Impulsivity, cognitive flexibility and loneliness data

description: Adolescent loneliness has been narrowly assessed with impulsivity and cognitive flexibility factors. A model testing the mediation of cognitive flexibility in the relationship between loneliness and impulsivity is lacking in the literature. It is hoped that addressing loneliness, which has devastating effects on adolescent mental health, with various variables will broaden the boundaries of the concept of loneliness, most of which focuses on adults. In addition, it is thought that the results to be obtained as a result of this study will guide school mental health workers and other researchers for group intervention programs to be implemented and will show promising ways to save young people from loneliness. Considering the impact of loneliness on the cognitive, emotional and psychological structures of adolescents, it is seen that this is of vital importance.
DOI: 10.6084/m9.figshare.4902920.v1
title: TARA-RAW-ASSEMBLIES-1000nt

description: Raw assembly results for TARA Oceans metagenomic sets (&gt;1000nt). Assemblies were done using MEGAHIT.
DOI: 10.17632/g67yy3t252
title: Epithelial aPKC deficiency leads to stem cell loss preceding metaplasia in colorectal cancer initiation

description: The early mechanisms of spontaneous tumor initiation that precede the accumulation of cancer mutations are largely unknown. We show that reduced aPKC levels correlate with stem cell loss and the induction of revival and metaplastic programs in serrated- and conventional-initiated pre-neoplastic lesions, which is perpetuated in colorectal cancers (CRC). Acute inactivation of PKC/ in vivo and in organoids is sufficient to stimulate JNK in non-transformed intestinal epithelial cells (IECs), which promotes cell death and the rapid loss of the intestinal stem cells (ISC), including LGR5+ cells. This is followed by the accumulation of revival stem cells (RSC) at the bottom of the crypt and fetal metaplastic cells (FMC) at the top, creating two spatiotemporally distinct cell populations that depend on JNK-induced AP-1 and YAP. These cell lineage changes are maintained during cancer initiation and progression and determine the aggressive phenotype of human CRC irrespective of their serrated or conventional origin.
DOI: 10.6084/m9.figshare.13557827.v1
title: condensed_traits_NCBI v1.2.0

description: The condensed_traits.csv dataset is the first data product from the data merger workflow. It include species and strains, and the raw are in their clean, but raw, form.
DOI: 10.6084/m9.figshare.25066136.v1
title: Patterns of human activity paired with census data for the largest city parks in Toronto, Canada

description: This dataset contains spatial and temporal data on urban parks and their usage in Toronto, Canada. It was used to examine how anonymized mobility data from Mapbox can help identify and reduce inequality in the availability and use of green spaces. The dataset consists of four files:<b>Toronto 2021 Census.shp</b>: A shapefile that contains census data for the park catchments in Toronto, including variables such as housing density and car ownership.<b>greenSpaceActivityWithWeather.csv</b>: A spreadsheet that contains the daily Mapbox activity value for each park, as well as the average temperature and total precipitation from local weather stations.<b>Simplified Large Parks.shp</b>: A shapefile that contains the polygons of the target parks used in the study, which are larger than 10 hectares and have more than 1000 visits per year.<b>Park amenities.csv</b>: A spreadsheet that contains the amenities available in each park, such as sports fields, transportation options, gardens, and playgrounds.The dataset supports a manuscript published in People and Nature titled: “Using anonymized mobility data to reduce inequality in the availability and use of urban parks”. The manuscript presents the methods and results of the analysis, as well as the implications and recommendations for urban planning and policy.
DOI: 10.6084/m9.figshare.27368025.v1
title: Data Package for LLM Vulnerability Detection Study

description: Paper is under review.
DOI: 10.17632/29n2z5r5ph
title: Mars et al, IBS multi-omics

description: metagenomics taxa tables, source data for metabolomics, human transcriptome and cytokine measurements
DOI: 10.17632/4rs7c52x9t
title: Data for: Financial Frictions and Changing Macroeconomic Volatility

description: Data used in estimation of model.
DOI: 10.17632/sn4cx4sbtr
title: Data for: The uncertain brain: A co-ordinate based meta-analysis of the neural signatures supporting uncertainty during different contexts

description: Co-ordinate based meta-analysis data.
DOI: 10.17632/vk79s2hfk3
title: Mechanisms of Colon Toxicity Induced by Long-Term Perfluorooctanoic Acid Exposure in Mice

description: Sequencing results, data analysis results, and WB results
DOI: 10.6084/m9.figshare.13383197.v2
title: ADHD vs Control two Flash Average Dataset

description: Average of DWT parameters at two flash strengths for ADHD and control participants in an expanded control group
DOI: 10.6084/m9.figshare.28174331.v1
title: The codes and data for "A Graph Convolutional Neural Network-based Method for Predicting Computational Intensity of Geocomputation"

description: The codes and data for "A Graph Convolutional Neural Network-based Method for Predicting Computational Intensity of Geocomputation"
DOI: 10.6084/m9.figshare.5128711.v1
title: Supplementary Material for: Effects of Recombinant Human Leptin (Metreleptin) on Nocturnal Luteinizing Hormone Secretion in Lipodystrophy Patients

description: <b><i>Background:</i></b> Leptin replacement in patients with leptin gene mutations improves hypogonadotropic hypogonadism. The effects of leptin replacement on luteinizing hormone (LH) secretion in patients with lipodystrophy are unknown. <b><i>Aim:</i></b> We examined nocturnal LH secretory dynamics on and off exogenous leptin therapy using a 2-period, nonrandomized study that included leptin-naïve and leptin-treated subjects with lipodystrophy. <b><i>Methods:</i></b> In period 1 (5 days) the leptin-treated group (n = 4) continued leptin; leptin was then withdrawn for the next 14 days (period 2). Leptin-naïve subjects (n = 8) were studied without leptin in period 1 and with leptin replacement in period 2. LH secretory dynamics were assessed (23:00-07:00 h, sampling every 10 min, analyzed by multiparameter deconvolution algorithm) at the end of each period. <b><i>Results:</i></b> Mean (on vs. off: 5.0 ± 3.1 vs. 3.2 ± 1.3 IU/l, p = 0.04) and integrated LH concentrations (2,403 ± 1,495 vs. 1,534 ± 642 IU × l<sup>-1</sup> × min<sup>-1</sup>, p = 0.04) were higher on leptin therapy. Leptin treatment increased burst mass (9.7± 15.4 vs. 7.0 ± 11.2 IU/l, p = 0.03) and tended to nonsignificantly increase LH burst frequency (0.77 ± 0.26 vs. 0.67 ± 0.24 h<sup>-1</sup>, p = 0.08). Consequently, leptin therapy increased the pulsatile production rate (64 ± 101 vs. 57 ± 73 IU × l<sup>-1</sup> × 8 h<sup>-1</sup>, p = 0.01). On leptin, testosterone (507 ± 286 vs. 360 ± 174 ng/dl, p = 0.09) and estradiol levels (74 ± 36 vs. 29 ± 24 pg/ml, p = 0.01) were higher in males and females, respectively. <b><i>Conclusions:</i></b> Leptin increases spontaneous nocturnal LH secretion in patients with lipodystrophy. This is consistent with rodent and in vitro studies showing a direct stimulatory effect (hypothalamic, pituitary or both) of leptin on LH secretion. These novel findings may explicate some of the salutary effects of leptin therapy on the hypothalamic-pituitary-gonadal axis in lipodystrophy.
DOI: 10.6084/m9.figshare.5436136.v10
title: 1000 Empirical Time series

description: A diverse selection of 1000 empirical time series, along with results of an <i>hctsa</i> feature extraction, using v1.06 of <i>hctsa</i> and Matlab 2019b, computed on a server at The University of Sydney.<br>The results of the computation are in the <i>hctsa</i> file, <b>HCTSA_Empirical1000.mat</b> for use in Matlab using v1.06 of <i>hctsa</i>.<br><b><br></b>The same data is also provided in <b>.csv</b> format for the <b>hctsa_datamatrix.csv</b> (results of feature computation), with information about rows (time series) in <b>hctsa_timeseries-info.csv</b>, information about columns (features) in <b>hctsa_features.csv</b> (and corresponding <i>hctsa</i> code used to compute each feature in <b>hctsa_masterfeatures.csv</b>), and the data of individual time series (each line a time series, for time series described in <b>hctsa_timeseries-info.csv</b>) is in <b>hctsa_timeseries-data.csv</b>. <br><br>These .csv files were produced by running <b>&gt;&gt;OutputToCSV(HCTSA_Empirical1000.mat,true,true);</b> in <i>hctsa</i>.<b><br></b>The input file, <b>INP_Empirical1000.mat</b>,<b> </b>is for use with <i>hctsa</i>, and contains the time-series data and metadata for the 1000 time series. For example, massive feature extraction from these data on the user's machine, using <i>hctsa</i>, can proceed as<b>&gt;&gt; TS_Init('INP_Empirical1000.mat');</b><br>Some visualizations of the dataset are in <b>CarpetPlot.png </b>(first 1000 samples of all time series as a carpet (color) plot) and <b>150TS-250samples.png</b> (conventional time-series plots of the first 250 samples of a sample of 150 time series from the dataset). More visualizations can be performed by the user using <b>TS_PlotTimeSeries</b> from the <i>hctsa</i> package.<br><br>See links in references for more comprehensive documentation for performing methodological comparison using this dataset, and on how to download and use v1.06 of <i>hctsa</i>.
DOI: 10.17632/7w87xy5pwj
title: CAISO MEF/AEF 2019-2020

description: This data repository is accompanied by the manuscript titled "A data-driven framework for quantifying consumption-based monthly and hourly marginal emissions factors" submitted to the Journal of Cleaner Production. The dataset covers the regression results for the average emissions factors (AEF) and marginal emissions factors (MEF) for the California ISO grid for the years 2019 and 2020. MEFs and AEFs are reported for different regressed demand levels, as well as at month-hour levels independently for each year. Statistical values such as number of datapoints, coefficients of determination (R squared), and P values are reported as well. For methodology details and applications, please refer to the manuscript.
DOI: 10.17632/98r43m8f9f
title: POTLIB2Math: A Mathematica interface to the potential energy surface library for chemical systems

description: Abstract The theoretical description of molecular dynamics proceeds from the specification of an appropriate Born–Oppenheimer potential energy surface (PES) or surfaces. For many chemical systems, such surfaces are incorporated within a repository of standardized FORTRAN codes known as POTLIB. The present work describes a Mathematica package that uses a MathLink interface to interactively call POTLIB subroutines from within a Mathematica session. This allows for rapid prototyping and deployment of new... Title of program: POTLIB2Math Catalogue Id: AEQJ_v1_0 Nature of problem POTLIB [1, 2] is a collection of FORTRAN subprograms that calculate potential energy surfaces and gradients for various chemical systems as a function of molecular geometry. The objective of this work is to develop an interface that allows users to interactively execute POTLIB subprograms from within a Mathematica session. Versions of this program held in the CPC repository in Mendeley Data AEQJ_v1_0; POTLIB2Math; 10.1016/j.cpc.2013.08.011 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2019)
DOI: 10.17632/p3r9nmtvyj
title: Ikeda two-dimensional cylinders

description: This data has been collected with manual digitalization from the following paper: [1] Ikeda, Y., 1978. On eddy making component of roll damping force on naked hull. University of Osaka Prefacture, Department of Naval Architecture, Japan, Report No. 00403, Published in: Journal of Society of Naval Architects of Japan, Volume 142. The data can be used to predict ship eddy damping. Nomenclature: row number: same as in Table 1 [1] phi_a : roll amplitude [rad] B_star_hat omega_hat model : section model name B_W+B_F : Obtained value from plots B_E_star_hat L_pp : length of section [m] beam : section beam [m] T : section draught [m] Disp : section displacement [m^3] H0 : half beam to draught ratio sigma : section area coefficient OG/d : centre of rotation R : bilge radius [m] B_E0_HAT : eddy damping C_r : eddy damping coefficient a_1 : lewis section coefficient a_3 : lewis section coefficient
DOI: 10.6084/m9.figshare.20151260.v1
title: ERA5

description: ERA5 atmospheric reanalysis zonal and meridional wind speed at 10m <br> Weddell Gyre: 60S-70S, 30W-30E <br> 1981-2020 <br>
DOI: 10.6084/m9.figshare.5554609.v1
title: Experiment HaLT-SubjectG-160412-6States

description: Experiment in which subject performed 6 imageries of left and right hand motion, left and right leg motion, tongue motion, and a passive state.
DOI: 10.17632/47tvch8fmg
title: Data for: Testing Public Interventions for Flash Flood Evacuation through Environmental and Social Cues: The Merit of Virtual Reality Experiments

description: This includes data and codes of STATA.
DOI: 10.17632/482j99rfpz
title: [Database] Advancements in Agricultural Ground Robots for Specialty Crops: An Overview of Innovations, Challenges, and Prospects

description: Robotic technologies are bringing opportunities to revolutionize the production of specialty crops, offering the potential to automate tasks and save inputs such as labor, fertilizer, and pesticides. Considering the prominence of agricultural robots and their recent expansion into specialty crops, we aimed to develop a state-of-the-art review to scientifically contribute to the understanding of: i) the primary areas of robots’ application for specialty crops; ii) the specific benefits they offer; iii) their current limitations; and iv) opportunities for future investigation. We formulated a comprehensive search strategy, leveraging Scopus® and Web of ScienceTM as databases, and selecting "robot" and "specialty crops" as the main keywords. To follow a critical screening process, only peer-reviewed papers and original research were considered, resulting in the inclusion of 907 papers covering the period from 1988 to 2024. Each paper was thoroughly evaluated based on its title, abstract, keywords, methods, conclusions, and declarations. Our analysis revealed that interest in agricultural robots for specialty crops has significantly increased over the past decade, driven by advancements in vision and recognition systems. Harvesting robots have arisen as the primary focus. Robots for spraying, pruning, weed control, pollination, transplanting, and fertilizing are emerging subjects to be addressed in further research and development strategies. Ultimately, our findings serve to reveal the dynamics of agricultural robots in the world of specialty crops, while supporting suitable practices for more sustainable and resilient agriculture, indicating a new era of innovation and efficiency in agriculture.
DOI: 10.17632/8d939wvc7r
title: Dataset for the evaluation of tongue alterations in ALS by sonographic and 3T-MRI imaging

description: This dataset contains cross-sectional and longitudinal tongue images and assessments obtained from 206 ALS patients and 104 age- and sex-matched controls that underwent high-resolution ultrasound (HRUS) and 3T MRI. In each image, the tongue is delineated in an additional region of interest (ROI) file provided for each of the coronal cross-sections acquired via HRUS and the midsagittal slices from the sagittal cerebral 3D-MPRAGE 3T MRI of the head. For these ROIs size and mean intensity markers are calculated. From the MRI images quantitative parameters for the shape and relative position of the tongue are derived. For each individual in the dataset these obtained markers are provided along with demographic and disease specific information in accompanying lists. The dataset can be combined with other data to increase statistical power or to extend the analysis with more advanced algorithms to implement and study additional markers for size, shape or texture of the tongue in ALS patients and controls.
DOI: 10.17632/vk6pgckhyx
title: Valorization of dairy wastewaters: large biomass and hydrogen production using an alga-bacterium consortium

description: The microalgae Chlamydomonas reinhardtii and the bacterium Microbacterium forte have been successfully cultivated as a consortium for the bioremediation of simulated dairy wastewater (sDWW) and raw DWW with high organic loads (Chemical Oxygen Demand (COD) of 12,000 and 7,346 mg·L-1, respectively). The coculture allowed the obtaining of large amounts of biomass (up to 11.27 g·L-1/ 1.25 g·L-1·d-1) and the production of biohydrogen (up to 185.8 mL·L-1 after 14 days) when cultivated in sDWW. Moreover, the use of cocultures reduced CO2 emissions (71-89%) compared to sole bacterial cultures. Supplementation with trace elements was sufficient to allow the consortium to grow in DWW without requiring other major nutrients such as carbon, nitrogen or phosphorus. Illumination at 120 µmol photon·m-2·s-1 and no agitation were identified as optimal growth conditions. Chlamydomonas and M. forte established a mutualistic relationship that facilitated substantial growth of both the bacteria and the alga. The proteolytic activity of M. forte and the subsequent release of ammonium, along with the excretion of acetic acid by the bacterium, represent the core of the mutualistic relationship that enabled significant mixotrophic growth of Chlamydomonas. This study presents potential solutions for the bioremediation and valorization of DWW with high organic loads, where the use of pre-treatment methods is not feasible on an industrial scale.