cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24312292.v6
title: feature-representation-for-LLMs

description: This is a database for feature representation of ESM2, which includes Swiss data, Swiss normalized data, original TrEMBL data, original TrEMBL normalized data, non-homology TrEMBL data and Table S10.Non-homologous TrEMBL normalized data can be created by extracting Entry ID from the non-homologous TrEMBL data and then extracting the corresponding feature representation from the original TrEMBL normalized data.Figure S4 (eos) and Figure S5 (eos) are supplement for the Histogram plots and Scatter plots of feature eos in corresponding Figure S4 and Figure S5.Figure S6 and Figure S8 are the results of GO annotation enrichment. The GO gene set is a grouped protein dataset used for GO annotation enrichment.Figure S7 is a silhouette score plot.For specific usage of the dataset, please refer to Github.The RF_model files are pickle files for different RF models, which can be used for dataset inference and interpretable analysis. Among these models, the AA_count model and feature_all model have more complex feature inputs. Therefore, we provide the Swiss training dataset as a reference for feature arrangement. The feature order for other models is simply from 0 to 1279.
DOI: 10.6084/m9.figshare.28558598.v1
title: Morag MRKO flow data.prism

description: <br><b>Flow cytometry methods</b>Immune cells were harvested by passing spleens through a 70mm filter, after which 20 ml of PBS was added and the cell suspension spun (500<i>g</i>, 5 min, 4°C). Red blood cells were lysed and white blood cells subsequently stained with a surface antibody cocktail [CD45-PB (Biolegend Cat#103126), Gr1-PerCP (BD Biosciences Cat#552093), CD115-BV605 (Biolegend Cat#133517), CD3-FITC (Biolegend Cat#152304), CD19-BUV395 (Biolegend Cat#563557), F4/80-PE-Cy7 (Biolegend Cat#123114)] for 30 min in the dark on ice. Next, 500 ml of FACS buffer was added to samples and samples were spun (500<i>g</i>, 3 min). After aspirating the supernatant, 100 ml of Cytofix/Cytoperm buffer (BD Biosciences Cat#554722) was added to cells. After a 30 min incubation on ice, 100 ml of Permwash buffer (BD Biosciences Cat#554723) was added and cells were spun (500<i>g</i>, 3 min). Cells were stained with an intracellular antibody cocktail [IL-1b-PE (ebioscience Cat#12-7114-82), IL-10-APC (BD pharmingen Cat#554468)] for 60 min in the dark on ice. After which 500 ml of Permwash buffer was added and cells were spun (500<i>g</i>, 3 min). After aspirating the supernatant, cells were resuspended in FACS buffer and marker expression determined on an LSR Fortessa (BD Biosciences) using FACS Diva software. Compensation controls were run in form of cell samples stained with single antibodies, and, in the case of the cytokine antibodies, because cytokines are typically lowly expressed in un-stimulated cells, compensation beads (Ultracomp beads, Invitrogen Cat#01-2222-42). Cells were gated as follows: after initial gating on FSC <i>v</i><i> </i>SSC, doublets were excluded based on SSC-A v SSC-H and leukocytes identified as CD45<sup>+</sup> cells. From a plot of CD115 <i>v</i> Gr1, neutrophils (CD115<sup>-</sup> Gr1<sup>high</sup>), Ly6C high monocytes (CD115<sup>high</sup>Gr1<sup>high</sup>) and Ly6C low monocytes (CD115<sup>high</sup> Gr1<sup>low</sup>) were identified. From a population of CD115<sup>intermediate</sup>Gr1<sup>intermediate</sup> expressing cells, macrophages (F4/80<sup>high</sup>) and eosinophils (SSC<sup>high</sup> F4/80<sup>-</sup>) were identified. From the CD115<sup>-</sup>Gr1<sup>-</sup> population, T cells and B cells were identified based on CD3 and CD19 expression. Expression of IL-1β and IL-10 was quantified using the mean fluorescence intensity (MFI).
DOI: 10.6084/m9.figshare.3522470.v1
title: Appendix A. A table presenting the distinguishing characteristics of 24 tree plots in Yasuní National Park, Ecuador, and Manu National Park, Peru.

description: A table presenting the distinguishing characteristics of 24 tree plots in Yasuní National Park, Ecuador, and Manu National Park, Peru.
DOI: 10.17632/3wvvr7rz57
title: X-ray images of hazelnut kernels

description: Dataset of X-ray images of kernels of hazelnuts. It includes images of both healthy kernels and corked by stink bugs. They represent an augmented research dataset used as input of a Inception-ResNet-V2 Convolutional Neural Network to detect the healthy VS damaged hazelnuts. The ZIP file contains two folders, "Damaged" and "Healthy", that are respectively the image collections of insect damaged kernels and the image collections of healthy kernels. Each subfolder corresponds to a single kernel.
DOI: 10.17632/65rdcx3sp6
title: Base DEMTREND

description: The data we use come from the DEMTREND survey. The latter collects information on education, health, marriage, family formation, knowledge and use of contraception, employment, entrepreneurship, riskiness, and cognitive and non-cognitive skills. As a result, the survey has built up a unique database on young individuals and makes it possible to analyze the determinants of their decisions on the job market in Senegal.
DOI: 10.6084/m9.figshare.10025129.v2
title: Wu et al., 2019, YR Sed

description: The datasets including sediment, delta evolution, elevation, population, temperature, precipitation and percentage of paleosol and loess in Wu et al., 2019.
DOI: 10.6084/m9.figshare.25699611.v5
title: ECAI2024-FenGe

description: The code and data of FenGe
DOI: 10.6084/m9.figshare.28189136.v1
title: IWI dataset for Chinese cities from 2012 to 2019

description: This study assesses Inclusive Wealth Index for Chinese cities from 2012 to 2019. Please cite the reference below when you use this dataset:Danyang Cheng et al., Inclusive Wealth growth pathways within the carbon peak target for Chinese cities. Cell Reports Sustainability (2025)
DOI: 10.17632/tvp5f2shnm
title: Internal Migration, Remittances and Economic Development

description: Code and data for replicating the results in our paper "Internal Migration, Remittances and Economic Development"
DOI: 10.17632/w55dvbb82f
title: Single cell transcriptomic and proteomic profiles of advanced melanoma patients treated with checkpoint inhibitor immunotherapy

description: The CITEseq datasets, containing RNA and ADT read counts and metadata (.csv), which were generated through a collaboration between Melanoma Institute Australia, University of Sydney and Garvan Institute of Medical Research. The datasets were comprised of tumours from metastatic melanoma patients with innate resistance, acquired resistance, and response to immunotherapy. Single cell suspension was prepared using 10x Chromium Next GEM Single Cell 3' reagent kits. Cells from two samples were pooled into single libraries. Sequencing libraries were performed using Illumina NextSeq 500 machine, and were demultiplexed using the sample-barcode assignments (.tsv).
DOI: 10.25387/g3.12448676.v1
title: Supplemental Material for Katz et al., 2020

description: All sequence whole exome sequences variants unique to a cat with neuronal ceroid lipofuscinosis relative to cat exome Sequence Read Archive (accession number PRJNA627536).
DOI: 10.6084/m9.figshare.12869864.v1
title: Aspergillus fumigatus G-protein coupled receptors GprM and GprJ are important for the regulation of the cell wall integrity pathway, secondary metabolite production, and virulence

description: G-protein coupled receptors (GPCRs) are extracellular signalling receptors that sense environmental cues to coordinate a biological response. Fungi sense their environment primarily through GPCR-mediated signalling pathways, which in turn regulate fungal development, metabolism, virulence and mycotoxin biosynthesis. <i>A. fumigatus</i> is an important human pathogen that causes aspergillosis, a heterogeneous group of diseases that presents a wide range of clinical manifestations. Here, we investigate in detail the role of the GPCRs GprM and GprJ in growth and gene expression. GprM and GprJ are important for melanin production and the regulation of the cell wall integrity (CWI) pathway. Overexpression of <i>gprM</i> and <i>gprJ </i>causes a 20 and 50% reduction in growth rate when compared to the wild-type (WT) strain, and increases sensitivity to cell wall-damaging agents. Phosphorylation of the CWI protein kinase MpkA is increased in the Δ<i>gprM</i> and Δ<i>gprJ</i> strains and decreased in the overexpression mutants when compared to the WT strain. Furthermore, differences in cell wall polysaccharide concentrations and organization were observed in these strains. RNA-sequencing suggests that GprM and GprJ negatively regulate genes encoding secondary metabolites (SMs). Mass spectrometry analysis confirmed that the production of fumagillin, pyripyropene, fumigaclavine C, fumiquinazoline, and fumitremorgin is reduced in the Δ<i>gprM</i> and Δ<i>gprJ</i> strains, and that this regulation occurs, at least partially, through the activation of MpkA. Overexpression of <i>grpM</i> also resulted in the regulation of many transcription factors, with AsgA predicted to function downstream of GprM and MpkA signalling. Finally, we show that the Δ<i>gprM</i> and Δ<i>gprJ</i> mutants are reduced in virulence in the <i>Galleria mellonella</i> insect model of invasive aspergillosis. This work further contributes to unravelling functions of <i>A. fumigatus</i> GPCRs and shows that GprM and GprJ are essential for CWI, secondary metabolite production and virulence. <b> </b>
DOI: 10.6084/m9.figshare.12980099.v1
title: Final_Data_Attachment and Close Relationships_June 15, 2020_09.39.xlsx

description: Excel file with anonymous data from 100 participants from the study "Parental Influences on Adult Attachment in Romantic Relationships and Friendships" by Karabella Hernandez and Amber Garcia. This was a cross-sectional study utilizing a self-report survey to measure variables of attachment styles for four different relationships (relationships with mother figure, father figure, romantic partner, and best friend), perceptions of parents from childhood (using an adjective checklist), and relationship satisfaction levels, as well as qualitative text-entry questions for contextualization of perceptions and attachment styles.
DOI: 10.6084/m9.figshare.16752151.v1
title: Identity of herbivorous insect morphospecies

description: The table provides the taxonomic identification of insect specimens selected as representatives of a morphospecies (i.e., columns “insect_ID” and “Morphospecies”). Results of morphological identification are indicated in a column “Morphological ID”. Column “seq_ID” provides a unique code for each specimen that was sequenced, and the results of tentative molecular identification are shown in a column “Molecular ID”. The accession numbers for all sequences deposited in Genbank are also provided.
DOI: 10.6084/m9.figshare.20201636.v1
title: frames.zip

description: Zipped SOSpine dataset frames (.JPEG files)
DOI: 10.6084/m9.figshare.5129656.v1
title: Supplementary Material for: Evaluation Studies of Robotic Rollators by the User Perspective: A Systematic Review

description: <b><i>Background:</i></b> Robotic rollators enhance the basic functions of established devices by technically advanced physical, cognitive, or sensory support to increase autonomy in persons with severe impairment. In the evaluation of such ambient assisted living solutions, both the technical and user perspectives are important to prove usability, effectiveness and safety, and to ensure adequate device application. <b><i>Objective:</i></b> The aim of this systematic review is to summarize the methodology of studies evaluating robotic rollators with focus on the user perspective and to give recommendations for future evaluation studies. <b><i>Methods:</i></b> A systematic literature search up to December 31, 2014, was conducted based on the Cochrane Review methodology using the electronic databases PubMed and IEEE Xplore. Articles were selected according to the following inclusion criteria: evaluation studies of robotic rollators documenting human-robot interaction, no case reports, published in English language. <b><i>Results:</i></b> Twenty-eight studies were identified that met the predefined inclusion criteria. Large heterogeneity in the definitions of the target user group, study populations, study designs and assessment methods was found across the included studies. No generic methodology to evaluate robotic rollators could be identified. We found major methodological shortcomings related to insufficient sample descriptions and sample sizes, and lack of appropriate, standardized and validated assessment methods. Long-term use in habitual environment was also not evaluated. <b><i>Conclusions:</i></b> Apart from the heterogeneity, methodological deficits in most of the identified studies became apparent. Recommendations for future evaluation studies include: clear definition of target user group, adequate selection of subjects, inclusion of other assistive mobility devices for comparison, evaluation of the habitual use of advanced prototypes, adequate assessment strategy with established, standardized and validated methods, and statistical analysis of study results. Assessment strategies may additionally focus on specific functionalities of the robotic rollators allowing an individually tailored assessment of innovative features to document their added value.
DOI: 10.17632/p7n6ktjdx7
title: Agriculture_Forest_Hyperspectral_Data

description: Maintaining rich biodiversity and being a habitat and resource for humans, tropical forests are one of the most important global biomes. These forest ecosystems have been experiencing a host of unregulated anthropogenic activities including illegal tourism and shifting cultivation. The presence of human-habitats in the restricted zones of forest ecosystems is a direct indicator of the human activities that may drive the future deterioration of forest quality by area and tree species composition. Remote sensing data have been extensively for mapping forest types, and biophysical characterization at various spatial scales. Several remote sensing datasets from multispectral, hyperspectral and LIDAR sensors acquired from airborne and satellite platforms are available for developing and validating a host of methodologies for remote sensing application in forestry. However, quantifying the quality of forest stands and detecting potential threats from the sporadic and small-scale human activities requires sub-pixel level remote sensing data analysis methods such as spectral mixture modelling. Generally, most of the studies employ pixel-level supervised learning-based analysis techniques to detect infrastructure and settlements. However, if the settlements are smaller than the ground sampling distance and are under the canopy, pixel-based techniques are not suitable. Reinvigorated with progressive availability of hyperspectral imagery, spectral mixture modelling based sub-pixel image analysis is gaining prominence in the contemporary remote sensing application development. However, there is a paucity of high-resolution hyperspectral imagery and associated ground truth spectral measurements for assessing various methodological approaches on studies related to anthropogenic activities and forest disturbance. Most of the studies have relied upon simulating and synthesising the hyperspectral imagery and its associated ground truth spectra for implementation of methods and algorithms. This article presents a distinct dataset of high-resolution hyperspectral imagery and associated ground truth spectra of various vegetable crops acquired over a tropical forest ecosystem. The dataset is valuable for research on developing new discrimination models of forest and cultivated vegetation, classification methods, spectral matching analysis techniques and sub-pixel target detection methods.
DOI: 10.6084/m9.figshare.3581769.v2
title: The effect of short and long term endurance training on systemic, and muscle and prefrontal cortex tissue oxygen utilisation in 40 – 60 year old women

description: Purpose: Aerobic endurance training (ET) increases systemic and peripheral oxygen utilisation, and the time course of these adaptations is not linear. However, the timing and mechanisms of increases, or plateau, in oxygen utilisation, as a function of increased training years beyond one year are not known. This study tested the hypothesis that in women aged 40 - 60 years performing the same current training load; systemic O2 utilisation (VO2) and tissue oxygenation (HHb) at the Vastus Lateralis (VL) and Gastrocnemius (GAST) would be higher in long term trained (LTT; &gt; 5 yr) compared to a short term trained (STT; 6 - 24 months) participants during ramp incremental (RI) cycling exercise, but similar during square-wave constant load (SWCL) cycling exercise performed at the same relative exercise intensity (below ventilatory turn point [VTP]); and secondly that pre-frontal cortex (PFC) HHb would be similar between groups during both conditions. Methods: Thirteen STT and 13 LTT ET participants performed RI and SWCL conditions on separate days. Simultaneous measures of VO2, and VL, GAST, and PFC HHb were conducted. Results: VO2peak was 19% higher in LTT compared to STT, and VO2 was higher in LTT at each of the relative intensities of 25%, 80% and 90% of VTP during the SWCL condition. HHb at the VL was significantly higher in LTT compared to STT at peak exercise (4.54 vs 1.55 μMol/l), and at 25% (0.99 vs 0.04 μMol/l), 80% (3.19 vs 1.14 μMol/l) and 90% (4.62 vs 2.07 μMol/l) of VTP during SWCL. Conclusions: The additional (12.9 ± 9.3) years of ET in the LTT, resulted in higher VO2, and HHB at the VL at peak exercise, and sub- VTP exercise. This indicates that in women 40 - 60 years, systemic and muscle O2 utilisation continues to improve with prolonged regular ET beyond two years. <br>
DOI: 10.6084/m9.figshare.7767098.v1
title: Data for Psychology of Women Quarterly study

description: Ten variables are included for 89 countries,
DOI: 10.17632/mtd4yszp3d
title: Evaluating the efficiency of popular species identification analytical methods, and integrative workflow using morphometry and barcoding bioinformatics for taxonomy and origin of traded cryptic brown frogs

description: Wildlife trade drives the introduction pathway for biological invasions worldwide, a process that is hidden on alien species with undefined phenotypical variations and ecologically comparable to the native community. To confront this catastrophe issue, we designated a comparative morphometry and a barcode based-species delimitation framework that help accurately identify cryptic phenotypic species on a large-scale species assignments. We incorporated meta-analyses, comparative morphometry, species delimitation modelling and phylogeography to infer the crypticity in phenotypic and genetic among the brown frogs (Rana spp.) imported to the Republic of Korea from China under the epithet ‘R. huanrenensis’ and ‘Rana dybowskii’.
DOI: 10.6084/m9.figshare.14614176.v1
title: Single-molecule force spectroscopy of unfolding and refolding of the frameshift-stimulatory RNA pseudoknot from SARS-CoV-2

description: Force-extension curve data for unfolding and refolding of the frameshift-stimulatory RNA pseudoknot from SARS-CoV-2 measured with optical tweezers. Excel files with force-extension curve data. The file title indicates which construct the measurements were done on (different spacer lengths separating the handle from the pseudoknot) and presence of antisense oligos or absence of Mg ions. In each file, data are presented as paired columns of force ("F", values listed in pN) and extension ("Ext", values listed in nm) data for sequential unfolding and refolding measurements (refolding data indicated by "_r" in column titles). The remainder of the column name indicates the molecule number (molecule 1, 2,...), followed by an underscore and the number for the set of curves measured from that molecule (set 1, 2,...), followed by an underscore and the number of the pull within that set (pull 1, 2,...). Each set of FECs is organized in a separate sheet in each file, with the tabs for the sheets labelled in the format MoleculeNumber_SetNumber.<br>
DOI: 10.6084/m9.figshare.27021316.v1
title: <b>Data on thermophilization of the community of adults vs. juveniles trees of temperate forests across Europe</b>

description: With this database we quantify the long-term thermophilization of tree species across temperate European forests comparing adults vs. juvenile trees using layer-specific climatic data, species cover, and occurrence from plots located in 12 European countries surveyed at least twice between the 1930s and 2010s. We inferred species’ thermal profiles from species distribution maps matched to gridded above-canopy macroclimate temperature for adult trees and to below canopy microclimate temperature for juveniles. Based on that information we inferred the community temperature index per plot that was later used to calculate thermophilization.
DOI: 10.6084/m9.figshare.27178071.v1
title: WUDD datasets

description: UDD data set includes 2627 pictures. WUDD data set is obtained by enhancing and expanding MUIE module number data. WUDD data set includes 3219 images, of which 2307 images are used for training, 456 images are used for testing and 456 images are used for verification. The data set consists of scallops, sea cucumbers and sea urchins.The labels folder contains labels in. txt format for training, testing and verification sets, which is convenient for yolo model.
DOI: 10.17632/7w8n2spf3z
title: Dataset for dimensions of bloodstains on fabrics formed by dropping blood from heights-1 foot and 2 feet

description: This dataset shows the average length and breadth of drip pattern bloodstains on pairs of ten types of fabric samples [Nylon, 2x2 Cotton, Terricot, Spun, Mal, Cora, Netted material (with design), Cotton (Lining material), Polyester and Velvet] measured before and after exposing the fabrics to five different temperature conditions [95°C, 80°C, 0°C, 10°C and room temperature]. Blood was dropped from two heights-30 cms (1 foot) and 60 cms (2 feet). The length and breadth of the bloodstain formed on each sample was measured both in the initial condition, that is soon after dropping the blood on the pair of samples, and in the final condition, that is after exposure of the samples to the respective temperature condition for one hour. The average of the dimensions of the bloodstains on each pair of samples was calculated.
DOI: 10.6084/m9.figshare.22584634.v1
title: Datasets for the paper

description: There are three files in this item. The first file, that is '1_RCS_data', is the RCS data of the target used in the paper. The second file, that is '2_Ant_pos_GA', is the experimental optimization results of GA. There are 40 rows in the dataset. Every two rows represent a experimental result, where the former row is the abscissa of the nodes, and the latter row is the ordinate of the nodes, all in meters. The third file, that is '3_Ant_pos_LSTM_PPO', is the experimental optimization results of the proposed method. There are 40 rows in the dataset. Every two rows represent a experimental result, where the former row is the abscissa of the nodes, and the latter row is the ordinate of the nodes, all in meters.