cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25403/upresearchdata.29119256.v1
title: DNA extraction from African savanna elephant (Loxodonta africana) blood, skin, and dung samples

description: The aim of this study was to optimise DNA extraction from African savanna elephant blood, skin, and dung samples to obtain DNA of adequate quantity and quality for Oxford Nanopore Sequencing. The effectiveness of non-kit based and kit based DNA extraction and purification methods were investigated. The phenol/chloroform DNA extraction method was of particular interest, and the effect of several modifications to this protocol on the DNA quantity and quality was investigated. Two DNA extraction strategies were investigated for the dung samples, namely: (1) DNA extraction from the surface of the dung, and (2) DNA extraction from membrane filters after performing sequential filtration. This dataset contains information about the date of extraction, sample name, species name, tissue source, amount of tissue, and the DNA extraction or purification method used. NanoDrop spectrophotometry was performed for all samples to obtain the DNA quantity (concentration (ng/µl)) and quality (260/280 and 260/230 ratio). Agarose gel electrophoresis was performed for all samples to determine the presence, intensity, and integrity of the DNA. Qubit fluorometry and TapeStation were done for some samples to determine the DNA concentration (ng/µl) and DNA fragment size, respectively. Polymerase Chain Reaction (PCR) was performed on the DNA extracted from membrane filters after sequential filtration of dung samples. Universal primers were used to detect the presence of bacteria, fungi, plants, nematodes, and vertebrates on each of the filtering levels in the sequential filtration process. The dataset contains the date, sample name, organism to be detected, forward and reverse primer names, expected amplicon size, DNA sample used, PCR reaction, thermocycler conditions, and whether amplification occurred. Agarose gel electrophoresis was performed to determine the presence and size of the amplicons.
DOI: 10.17632/km62h489hb
title: In-situ synchrotron computed tomography images of a tensile test on a carbon fiber-epoxy composite for mechanical damage analysis

description: Using synchrotron computed tomography, we have obtained 3D images of a carbon fiber-epoxy composite laminate loaded under tension. A double-edge notched specimen with a notch section area of ~ 1 mm × 1 mm is cut using waterjet machining from the [904/05]s laminate with 7-µm nominal fiber diameter. It was loaded under continuous tension, with a deformation rate of ~ 1.4 μm/s, and in-situ scanned with a propagation distance of 60 mm, a beam energy of 20 kV, and 1000 projections per scan, each with an exposure time of 9 ms. The magnification was 10×, and the voxel size was 1.1 μm. The test was conducted at the TOMCAT beamline of the Swiss Light Source (SLS) in Villigen, Switzerland. The reconstruction was performed using an absorption-based algorithm provided by SLS. Eight 3D image (out of ~60 images) corresponding to eight loading steps with nearly the same force intervals are selected. These eight steps (Step 0 - 7) are identified on the force-displacement curve that is included in the dataset. The 3D images are overlaid on top of each other (registered), using 3D rigid transform by “Normalized Mutual Information”, and resampled with “Standard” (linear) interpolation, in the commercial software Avizo 2019.1. The empty space around the specimen is cropped out in each image. The eight 3D images are uploaded to this dataset in the folder "Full volumes (no filter)". Moreover, a smaller volume of interest (VOI), with a size of 330 × 580 × 630 μm3, is selected, which is shown with a blue box in the schematics available in the dataset. This volume is copped from the full volume. The eight small VOIs are also uploaded to this dataset in the folder "Cropped VOIs for analysis of damage interaction (non-local means filter)". The image noise in the small VOIs is reduced using a 3D “non-local means” filter with a search window of 10 px and local neighborhood of 3 px, using Avizo 2019.1. These 3D images are used for real-time analysis of mechanical damage in carbon fiber composites. We have performed this using digital image correlation in the reference article "Mehdikhani et al., Digital volume correlation for meso/micro in-situ damage analysis in carbon fiber reinforced composites". Other techniques can be employed to characterize the damage and the evolution of the microstructure in these images.
DOI: 10.17632/rpssgss924
title: Involvement of a variant secretory protein in virulence of emerging Cryptosporidium parvum subtypes

description: Several divergent Cryptosporidium parvum subtypes have emerged in humans in recent years but their infectivity, pathogenicity and genetic characteristics are unclear. In the present study, IFN-γ knockout C57BL/6 (GKO) mice were infected with the novel IIoA15G1 and IIpA11 subtypes of C. parvum and compared with the common IIaA17G2R1 subtype. The genomes of these isolates were sequenced and compared with each other. Further gene tagging and deletion were performed on the virulence-associated polymorphic cgd8_5420 gene encoding a secretory protein using the CRISPR/Cas9 technology. IIpA11 and IIoA15G1 were highly infectious in GKO mice, with an ID50 of 2.4 and 3.6 oocysts, respectively. The duration of oocyst shedding for IIpA11 (&gt; 58.0 ± 1.4 days) and IIoA15G1 (&gt; 57.5 ± 0.9 days) was significantly longer than for IIaA17G2R1 (5.5 ± 0.9 days; P &lt; 0.001). The genomes of IIaA17G2R1, IIoA15G1, and IIpA11 had 203, 46,839, and 47,122 single nucleotide polymorphisms, respectively, compared to C. parvum IOWA II. In contrast, minor sequence differences were found between IIoA15G1 and IIpA11, mainly in several genes encoding invasion-associated mucin glycoproteins and cgd8_5420 encoding a secretory protein. The latter is mainly expressed in trophozoites, merozoites, and macrogamonts. Deletion of this gene reduced the intensity of IIpA11 infection and increased the survival of infected mice. The emerging IIoA15G1 and IIpA11 subtypes have divergent genomes and are highly infectious and pathogenic in GKO mice. Several secretory proteins, including a variant protein encoded by the subtelomeric cgd8_5420 gene, are associated with differences in virulence between the two subtypes.
DOI: 10.6084/m9.figshare.12770660.v1
title: Supplementary Material for: Twin-Twin Transfusion Syndrome Complicated by Proximate Placental Cord Insertion Sites: Endoscopic Clip-Assisted Laser Occlusion

description: <b><i>Introduction:</i></b> Severe twin-twin transfusion syndrome (TTTS) with a large vascular communication between proximate placental cord insertion sites is a therapeutic dilemma because laser ablation may cause thermal injury to the cord roots and subsequent fetal demise. <b><i>Case Presentation:</i></b> Stage IV TTTS with placental cord insertion sites 1.3 cm apart and with an intervening large arterio-arterial (AA) anastomosis presented for treatment. The application of endoclips onto the large AA anastomosis between the cord roots allowed for successful laser occlusion using minimal energy. Both the donor and recipient twins were alive and well at 6 months of age. <b><i>Conclusion:</i></b> Endoscopic clip-assisted laser occlusion of a placental vessel is technically feasible and may be a useful therapeutic option in select cases.
DOI: 10.6084/m9.figshare.21968660.v3
title: Data for `Forecast U.S. Covid-19 Numbers by Open SIR Model with Testing'

description: All mfiles starting with 'Run_*' can be run on Matlab without any pre-loaded variables or data. <br> The three files in the root directory consist of the only input data to all program mfiles. Of which, SICM.m is the mathematical model, Input_Matched_InitialsAndParameters.mat contains initial conditions and parameter values for each day from day 50 to day 590, 30 best-fitted values for each day, ranked from the best to worst fit. The third csv file is the US cases and deaths data from CDC. <br> The order in which to generate the output data files is to run all Run_* mfiles in folders (1) Build_Real_Data (2) Build_Solution_Book (3) Build_Forecast_Book (4) Plot_Output <br> When you reach the Plot_Output folder, you have build all data files for plotting and annimation. <br> Run "Run_Plot_Output" will generate the first batch of output plots. <br> Note: It requires zero knowledge to verify the result. All one needs is the model SICM.m and the initial values and parameters provided to explore the dynamics of the model, and to analyze the fit of the model to the data, with the parameter and initial values provided from the data file `Input_Matched_InitialsAndParameters.mat'. All the remaining folders contain Matlab programs to present the fit and the forecast presented in the manuscript `Forecast U.S. Covid-19 Numbers by Open SIR Model with Testing'. <br>
DOI: 10.6084/m9.figshare.28636160.v2
title: Palm kernel cake impact on ruminant physiology, feeding behavior, and muscle physicochemical traits: A meta-analysis

description: Palm kernel cake impact on ruminant physiology, feeding behavior, and muscle physicochemical traits: A meta-analysis
DOI: 10.17632/7rzyx7np4y
title: Soil texture and vegetation data for the desert loess transition zone

description: Vegetation surveys were carried out in July 2022. Eleven plots are located on the loess hill and twenty-three plots are located on the sandy soil. Five soil cores were selected randomly from each plot.This data includes data on vegetation, soil physico-chemical properties and soil texture in the desert loess transition zone.
DOI: 10.17632/7tsw22y96w
title: Static gestures of Indian Sign Language (ISL) for English Alphabet, Hindi Vowels and Numerals 

description: This dataset consists of static hand gestures and lips movement for each character in the English alphabet, eight Hindi Vowels and ten Numerals as represented in Indian sign language (ISL). The dataset consists of 1,02,470 images of subjects from different age groups presenting static gestures under varied backgrounds and illumination conditions. The dataset is structured into three folders namely Kids, Teenagers and Adults. Each folder consists of sub-folders namely Full Sleeves and Half Sleeves indicating the type of clothing that the subject has worn at the time of image acquisition. In each sub-folders, images for the English alphabet, Hindi Vowels and Numerals are stored respectively in the sub-folders named with that specific character. However, for the English alphabet 'E' and Numeral '9' we have captured two different signs for each (that are used interchangeably), and it is contained in the folder namely E1 and E2 for alphabet 'E' and 9a and 9b for Numeral '9'. For the English alphabet, wherever a character is represented by a dynamic sign, the last frame of the sign is captured. For example, this is typically a case with English characters like 'J', 'H' and 'Y'. The images are stored in .jpeg format and have resolutions varying from 300 x 500 to 800 x 600, and the size is less than 100KB. The dataset is captured by a team pursuing research at Chandigarh College of Engineering and Technology, Chandigarh. The subjects have been informed about the research and Informed Participant Consent has been obtained prior to image acquisition. This dataset can be used only for research purposes either as it is or after cropping the static gestures from the image after duly referencing it. Any other use of the dataset is strictly prohibited and any illegal use is subject to the Indian court of law.
DOI: 10.6084/m9.figshare.26721111.v1
title: Additional file 10 of Combining germline, tissue and liquid biopsy analysis by comprehensive genomic profiling to improve the yield of actionable variants in a real-world cancer cohort

description: Additional file 10. The somatic alterations (VAF ≥ 0.1% and VAF ≥ 0.5% for SNVs/MNVs and InDels, respectively) found in the 23 circulating-free DNAs analyzed in the study. The somatic alterations (coding/nonsynonymous), detected with a VAF ≥ 0.1% for SNVs/MNVs and VAF ≥ 0.5% for InDels, in the 16 tumor tumors analyzed by the TruSight™ Oncology 500 ctDNA panel are shown. For each patient, the somatic alterations were annotated.
DOI: 10.17632/4j596hvg43
title: Data set SCAPS 1D: solar cell ITO_CdS_Sb2S3_Pt

description: Here you can find the file where the results obtained from SCAPS 1D in work in OriginLab.
DOI: 10.6084/m9.figshare.24474484.v5
title: Gene expression of coral larvae in response to elevated temperature and acidification

description: This dataset is comprised of 16 samples collected from four treatments. These samples were collected randomly, resulting in a highly unique and valuable gene expression dataset. In combination with preciously published datasets, this new transcriptomic resource will facilitate detailed investigation of the effects of elevated temperature and acidification on coral larvae, and the potential to translate aspects of this biology to understand symbiosis.
DOI: 10.6084/m9.figshare.24847521.v1
title: Results of physical and mental health outcomes before and during the exercise program

description: Results of physical and mental health outcomes before and during the exercise program
DOI: 10.17632/jkkbg4d49g
title: Image-based Data on Strain Fields of Microstructures with Porosity Defects_2

description: This dataset is one of the three datasets that are utilized in the research, 'Predicting elastic strain fields in defective microstructures using image colorization algorithms' submitted for publication in the Computational Material Science Journal. This is a part of supplementary data for the Data in Brief article co-submitted alongside the aforementioned paper in Computational Material Science Journal. The data file is a MATLAB Binary Data Compressed file (.mat) that contains images of microstructures and their respective strain fields represented as two-dimensional arrays. This data is utilized for training a convolutional neural network to predict strain fields within a microstructure, through image colorization algorithm. This data contains image data of two sets of 10 microstructures with circular porosity defects and their strain fields, for each of the two experiments described in the aforementioned research article.
DOI: 10.6084/m9.figshare.19307639.v1
title: Simulated data for ANN.csv

description: Simulated THz-TDS data sets used to train the ANN, normalised and produced by the included matlab script.
DOI: 10.6084/m9.figshare.24424534.v1
title: <b>Supplementary Material – </b><b>Exploring the diversity of ferns and lycophytes in the Jardim Botânico do Rio de Janeiro</b>

description: <b>Table S1 – </b><b>List of the ferns and lycophytes in the Jardim Botânico do Rio de Janeiro</b>
DOI: 10.6084/m9.figshare.28350314.v1
title: <b>A Comprehensive </b><b>Strategy</b><b> for Identifying Multiple Palmitoylation Sites in Proteins-Original Sequence Results</b>

description: We optimized protocols for efficient multi-site mutagenesis of plasmids, reducing the time required from months to just one to two weeks while increasing the mutagenesis success rate for four distinct sites from approximately 33% to 67%.
DOI: 10.6084/m9.figshare.3558573.v1
title: Test-retest Reliability Data.zip

description: The patient and healthy control data sets have been included. They are organized according to task, and within each task folder is the patient and healthy control folders. The subject folders are available there including their 3dvolume scan and two runs repeated for each task. Timing files have been included (txt) as well as the master script used to calculate reliability metrics.
DOI: 10.17632/249yhxbcvj
title: Pilot Testings Water Treatment (Comparison of Water Minimization Strategies for Recirculating Evaporative Cooling Towers)

description: This data is the raw dataset, including partly calculated key performance indicators, of the pilot testings for the EU project AquaSPICE, providing insight on the usage of Biologically Activated Carbon Filtration, Ultrafiltration and Reverse Osmosis on Cooling Tower Blowdown as well as Surface Water for Cooling Water Make Up Water.
DOI: 10.17632/sk8br67zh2
title: Text Corpus and N-gram files for Kurdish Language

description: The text file contains over 17 million Kurdish Sorani texts. The Kurdish text corpus was collected from different sources such as websites, PDF books, etc. Later, all the texts are unified with Kurdish Unicode font. Then, the corpus pre-processed to omit non-Kurdish words, numbers, symbols, etc.
 Besides, N-gram/Five gram files for Kurdish language is stored in Excel files. Depending on the Kurdish text corpus, the N-gram files are created. Due to they are utilized to design next word prediction system for Kurdish language. In the system, Stupid BackOff SBO algorithm hybridized with N-gram, also SBO and Improved Fitness Dependent Optimizer IFDO are hybridized to find the best values for backing off parameter Lambda in SBO to BackOff from quad gram to trigram, trigram to bigram, and bigram to unigram. The system Accuracy was %98.3.
DOI: 10.6084/m9.figshare.22246552.v1
title: RNA_rawcounts_matrix

description: Matrix of raw counts extracted from the RNA assay of the final NSCLC dataset.
DOI: 10.6084/m9.figshare.20443706.v1
title: IMPACT OF MORPHOLOGICAL CHARACTERISTICS AND MOTOR SKILLS WHEN PERFORMING GYAKU TSUKI

description: ABSTRACT Objective The aim of this study was to determine the influence of morphology on karate characteristics and basic motor skills for the criterion variable counter-punch (gyako zuki) in boys, after a two-year training program. Methods A system of 25 variables (12 morphological, 12 motor, and one situational (gyako zuki)) was applied in a sample of 82 karatists, aged 10 to 14 years. Data were processed using regression analysis. Results Body weight had a statistically significant influence on the criterion variable in the initial measurement, as well as on the triceps and back skinfolds in the final measurement. In the motor space, semi-squat endurance had a significant impact on both initial and final measurements. In the reduced system, triple jump, half-squat endurance, and long jump impacted the initial measurement, while the 30-second torso lift, hyperextension on the bench, and semi-squat endurance impacted the final measurement. Conclusion From the data obtained, it can be concluded that the counter-punch (gyako zuki) performance results were better in participants with higher body weight, longer arms, less subcutaneous upper arm and back fat, greater static and explosive power in the lower limbs, and greater hamstring and spine flexibility. Evidence Level II; Therapeutic Studies – Investigating the results.
DOI: 10.6084/m9.figshare.25687278.v4
title: <b>A 10-meter annual cropland activity map and dataset of abandonment and reclaimed cropland</b>

description: Amid growing global food security concerns and frequent armed conflicts, real-time monitoring of abandoned cropland is essential for strategic planning and crisis management. This study develops a method to map abandoned cropland accurately, crucial for maintaining the food supply chain and ecological balance. Utilizing Sentinel-1/2 satellite data, we employed multi-feature stacking and machine learning to create the <b>ARCC10-IM (Abandoned and Reclaimed Cropland Classification at 10-meter resolution in Inner Mongolia)</b> dataset, which tracks annual cropland activity. A novel temporal segmentation algorithm was developed to extract cropland abandonment and reclamation patterns annually, using sliding time windows over several years. This research differentiates cropland states—active cultivation, unstable fallowing, continuous abandonment, and reclamation—providing continuous, regional-scale maps with 10-meter resolution. <b>ARCC10-IM</b> is crucial for land planning, environmental monitoring, and agricultural management in arid areas like Inner Mongolia, enhancing decision-making and technology in land use tracking.
DOI: 10.6084/m9.figshare.29148725.v1
title: Introduction to an "Anti-Zoom Lens"

description: This presentation introduces the concept of an "anti-zoom lens". It was motivated by earlier work, R. Siew, "Zoom lens design with fixed front and back focal planes for structured illumination microscopy," <i>App. Opt.</i> <b>64</b>(6), 1479-1483 (2025).
DOI: 10.6084/m9.figshare.954933.v1
title: Raw data from behavior tests and dynein protein levels

description: Dataset 1 Raw data of modified open field test.
Two indexes, the time to get down from the platform and the number of grids crossed, are indicated.
Dataset 2 Original western blot images of dynein.
Western blot images of dynein in the midbrain and striatum are shown. In the top panel, the left 3 lanes are from the nTg group and the right 3 lanes are from the A53T group. In the middle panel, the left 2 lanes are from the nTg group and the right 2 lanes are from the A53T group. In the bottom panel, the left 3 lanes are from the nTg group and the right 3 lanes are from the A53T group.
Dataset 3 Quantitation spreadsheet of dynein western blot data.
The ratio of dynein to β-actin was calculated and normalized by the averaged value of nTg group.
Dataset 4 Quantitation spreadsheet of dynein immunohistochemistry data.
The optical density of dynein-ir in the substantia nigra and striatum was quantified and normalized by the averaged value of nTg group.
DOI: 10.17632/wphgmsdp9f
title: Numerical LMI solutions for State Feedback with Polynomial Lyapunov Functions

description: Simulation and LMI codes for the problem of state feedback design for nonlinear systems using polynomial Lyapunov functions. The LMIs are solved with MATLAB toolboxes, Sedumi and Yalmip. We provide the LMI conditions, the programs and simulation schemes to make it easier  to reproduce two numerical problems.
DOI: 10.6084/m9.figshare.22633234.v1
title: Tree biodiversity of warm drylands is likely to decline in a drier world

description: <strong>Abstract.</strong> Warm drylands represent 19% of land surfaces worldwide and host ca. 1,100 tree species. The risk of decline due to climate aridification of this neglected biodiversity has been overlooked despite its ecological and societal importance. To fill this gap, we assessed the risk of decline due to climate aridification of tree species in warm drylands based on spatialized occurrence data and climate models. We considered both species vulnerability and exposure, compared the risk of tree species decline across five bioregions and searched for phylogenetic correlates. Depending on the future climate model, from 44% to 88% of warm drylands’ tree species will undergo climate aridification with a high risk of decline even under the most optimistic conditions. On a regional scale, the rate of species that will undergo climate aridification in the future varies from 21% in the Old World North, to 90% in Australia, with a risk of decline confirming the high level of risk predicted at the global scale. Using generalized linear mixed models, we found that, species more exposed to climate aridification will be more at risk, but also that species vulnerability is a key driver of their risk of decline. Indeed, the warm drylands specialist species will be less at risk due to climate aridification than species being marginal in warm drylands. We also found that the risk of decline is widespread across the main clades of the phylogeny and involves several evolutionary distinct species. Estimating a high risk of decline for numerous tree species in all warm drylands, including emblematic dryland endemics, our work warns that future increase in aridity could result in an extensive erosion of tree biodiversity in these ecosystems. <br> <strong>Table S3.</strong> The seven risk of decline, vulnerability and exposure metrics (RDA, ANO, ANB, Range size, Exp1, Exp2 and Exp3) for tree species submitted to climate aridification in warm drylands (Exp1 &gt; 0) for each GCM and RCP, and distribution (bioregions,) and evolutionary distinctness for each of the whole 1,016 species list. [tableS3.xlsx]