cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16586957.v1
title: EEG driver drowsiness dataset (unbalanced)

description: The dataset contains EEG signals from 11 subjects with labels of alert and drowsy. It can be opened with Matlab. We extracted the data for our own research purpose from another public dataset:<br>Cao, Z., et al., Multi-channel EEG recordings during a sustained-attention driving task. Scientific data, 2019. 6(1): p. 1-8.<br>If you find the dataset useful, please give credits to their works.<br>The full version of the pre-processed dataset from the original author is accessible from:<br>https://figshare.com/articles/dataset/Multi-channel_EEG_recordings_during_a_sustained-attention_driving_task_preprocessed_dataset_/7666055<br><br>This dataset is the unbalanced version of our previous version of dataset:<br>https://figshare.com/articles/dataset/EEG_driver_drowsiness_dataset/14273687<br><br>The difference from the previous version is that the samples have not been balanced for each subject. The details on how the data were extracted are described in our paper (except performing step 3 in page 3):<br>"Jian Cui, Zirui Lan, Yisi Liu, Ruilin Li, Fan Li, Olga Sourina, Wolfgang Müller-Wittig, A Compact and Interpretable Convolutional Neural Network for Cross-Subject Driver Drowsiness Detection from Single-Channel EEG, Methods, 2021, ISSN 1046-2023, https://doi.org/10.1016/j.ymeth.2021.04.017."<br>The data file contains 3 variables and they are EEGsample, substate and subindex.<br><br>"EEGsample" contains 2952 EEG samples of size 20x384 from 11 subjects. Each sample is a 3s EEG data with 128Hz from 30 EEG channels."subindex" is an array of 2952x1. It contains the subject indexes from 1-11 corresponding to each EEG sample."substate" is an array of 2952x1. It contains the labels of the samples. 0 corresponds to the alert state and 1 correspond to the drowsy state.<br>
DOI: 10.6084/m9.figshare.22331008.v1
title: control-3、induce-1、induce-2

description: This is the RNA-seq data and figures for plos one papers.
DOI: 10.6084/m9.figshare.17219042.v5
title: Supplementary table 2

description: Table providing features of all B. tabaci plant-derived genes included in this study and references supporting involvement in plant-pathogen interactions.<br>
DOI: 10.6084/m9.figshare.5411224.v1
title: CCS-Sample3-Study3

description: Dataset 3 of the CCS validation studies.<br>Data collected via online questionnaire in <b>Turkish language. </b>An <b>English translation</b> of the questionnaire is added in a separate document.
DOI: 10.6084/m9.figshare.95949.v3
title: Raw flow cytometry data

description: Day: Day of the measure<br> Treatment: Experimental treatment<br> Other columns are the parameters for each object (bacteria)
DOI: 10.17632/7g5cftcbpv
title: Raw images - western blotting - Salivary ZG16B decreased in oral cGVHD

description: Salivary ZG16B decreased in oral cGVHD_raw LiCor western blot scans  - Figures 1 and 2 and Supplemental figures 1 and 3.
Full unedited membrane scans of saliva WB of post-transplanted patients with or without chronic Graft-Versus-Host Disease (cGVHD).
a) ZG16B (22.7 kDa; Sigma-Aldrich)
b) PIP (17 kDa; Abcam, clone EP1582Y)
c) MMP9 (92 kDa; Cell Signaling, clone D6O3H)
d) Ezrin (81 kDa; Cell Signaling)
e) a1ACT (47.6 kDa; Thermo Scientific, clone 71A1)
f) Calmodulin (CaM; 7 KDa; Abcam, EP799Y)
DOI: 10.6084/m9.figshare.28423658.v1
title: Single-Cell Transcriptome Atlas of Human Sarcopenia and Osteoporosis

description: Sarcopenia and osteoporosis, as major age-related diseases, share similarities. Therefore, we performed single-cell sequencing analysis on the muscle tissues of patients with no disease, sarcopenia, and sarcopenia combined with osteoporosis.
DOI: 10.6084/m9.figshare.28477922.v3
title: <b>Seasonal differences and downstream transport of terrestrial vertebrate eDNA: insights from integrated camera-trap survey and water eDNA metabarcoding</b>

description: Effective biodiversity conservation requires efficient, comprehensive, and cost-effective monitoring tools. While environmental DNA (eDNA) metabarcoding is widely used for aquatic biodiversity assessments, its application for monitoring terrestrial biodiversity remains relatively underexplored. In particular, the effects of seasonal variation on eDNA sampling efficacy and the downstream transport distances of terrestrial vertebrate eDNA in river systems are not well understood. We conducted a year-long survey (April 2023–April 2024) that combined camera trapping and eDNA sampling in the southwestern mountains of China, a global biodiversity hotspot. Water eDNA samples were collected during low-rainfall (October–November 2023) and high-rainfall (April 2024) seasons. We compared seasonal effectiveness, evaluated costs, and developed an index to assess the relative importance of eDNA sampling sites. We also analyzed the elevational distributions of species detected by both methods and evaluated pairwise β-diversity patterns in relation to geographic distance to estimate the downstream transport distances. Our survey resulted in 143 camera trap deployments and 88 eDNA samples, yielding detections of 99 terrestrial vertebrate species. Across both seasons, eDNA and camera trapping exhibited high complementarity in species detection, with eDNA proving particularly cost-effective during the high-rainfall season. The relative importance of sampling sites varied between the low- and high-rainfall seasons. Terrestrial vertebrate DNA was transported downstream over distances of approximately 10–15 km. These findings provide valuable insights into sampling design and result interpretation in terrestrial vertebrate eDNA studies, underscoring the potential of eDNA metabarcoding as a reliable tool for monitoring terrestrial vertebrate biodiversity.
DOI: 10.17632/76s5pymmp3
title: GESCAM : A Dataset and Method on Gaze Estimation for Classroom Attention Measurement

description: This dataset was meticulously generated using 3D modelling, animation, simulation, and rendering techniques comprising 60,000 images with 650,000 instances of individuals (students, teachers) engaged in various activities, including looking at blackboard, notebooks, mobile phones etc. 

For full dataset access, please contact us at the email provided on GESCAM project page.
DOI: 10.17632/rhvfd6cdmx
title: Solid Fuel Entrained Flow Gasification Database

description: The presented Solid Fuel Entrained Flow Gasification Database contains complete datasets on individual solid fuels considering the most important physical properties and conversion behavior analysis necessary for the simulation of pressurized high temperature entrained flow gasification. This includes their composition (proximate- and ultimate analysis, XRF of ash at 200, 450, 815 and 1500 °C) as well as physical properties such as original mineral phase composition (XRD), density (true and tap) and particle size distribution. The database also contains data on fuel behavior such as heating values, swelling factors, fragmentation index, slag viscosity, ash melting behavior and ash mineral phase evolution during heat-up and cool-down. Moreover, the database provides model parameters describing their pyrolysis behavior, gasification kinetics including product gas inhibition, thermal deactivation and surface area development. Chars produced and gasified in pressurized high temperature entrained flow reactors like the PiTER (located at the Chair of Energy Systems of the Technical University of Munich) and the KIVAN (operated by the Institute of Energy Process Engineering and Chemical Engineering of the TU Bergakademie Freiberg) were analyzed in thermogravimetric and structural analyzer. Since these reactors are designed for temperatures up to 1800 °C (PiTER) and pressures up to 100 bar (KIVAN), the resulting model parameters are relevant for the simulation of industrial scale applications. In order to validate the applied models for entrained flow gasification kinetics, the database refers to several publications describing the models and experimental setups as well as providing additional experimental data points.
DOI: 10.5522/04/22128671.v4
title: OCT5k: A dataset of multi-disease and multi-graded annotations for retinal layers

description: The thickness and appearance of retinal layers are essential markers for diagnosing and studying eye diseases. Despite the increasing availability of imaging devices to scan and store large amounts of data, analyzing retinal images and generating trial endpoints has remained a manual, error-prone, and time-consuming task. In particular, the lack of large amounts of high-quality labels for different diseases hinders the development of automated algorithms. Therefore, we have compiled 5016 pixel-wise manual labels for 1672 optical coherence tomography (OCT) scans featuring two different diseases as well as healthy subjects to help democratize the process of developing novel automatic techniques. We also collected 4698 bounding box annotations for a subset of 566 scans across 9 classes of disease biomarker. Due to variations in retinal morphology, intensity range, and changes in contrast and brightness, designing segmentation and detection methods that can generalize to different disease types is challenging. While machine learning-based methods can overcome these challenges, high-quality expert annotations are necessary for training. Publicly available annotated image datasets typically contain few images and/or only cover a single type of disease, and most are only annotated by a single grader. To address this gap, we present a comprehensive multi-grader and multi-disease dataset fortraining machine learning-based algorithms. The proposed dataset covers three subsets of scans (Age-related Macular Degeneration, Diabetic Macular Edema, and healthy) and annotations for two types of tasks (semantic segmentation and object detection).
DOI: 10.6084/m9.figshare.25508686.v1
title: <b>Impact of the newly compiled Tai Chi (BaFa WuBu) on vascular health in middle-aged and older postmenopausal women: an analysis of the long-term intervention effect of a 24-week RCT</b>

description: Background: cardiovascular disease (CVD) is a common health problem in middle-aged and older populations, with aging of the cardiovascular system being particularly significant. The risk of developing CVD increases significantly as women become postmenopausal, partly attributed to decreasing estrogen levels. Atherosclerosis is one of the major pathogenic mechanisms of CVD, and postmenopausal women are more likely to develop atherosclerosis and abnormal vascular endothelial function. Exercise exercise is considered an effective means to improve cardiovascular function and reduce the risk of CVD, and the traditional Chinese tai chi exercise has received much attention. However, the current exercise intervention cycle is short, the selection of indicators is not perfect, and for special populations, such as middle-aged and elderly menopausal women, it is difficult to adhere to and complete routine exercise, thus limiting the intervention effect. Therefore, the present study was the first to systematically assess the effects of the newly developed Tai Chi (BaFa WuBu) on vascular health in middle-aged and elderly postmenopausal women.As a summary of the core taijiquan techniques, Tai Chi (BaFa WuBu) is easier to train and is more suitable for special populations. Using a 24-week long-term intervention program, this study aims to provide a scientific basis for improving the vascular health of middle-aged and elderly postmenopausal women and to explore a new safe training method.
DOI: 10.6084/m9.figshare.29148416.v1
title: Supplementary Material for: Endogenous and extracellular roles of a tumor suppressor miR-379-5p in gastric cancer

description: Introduction: MiRNAs play important roles in development of various cancers including gastric cancer. Exosomes are extracellular vesicles for translocating molecules. This study aims to investigate the tumor suppressive roles of miR-379-5p in gastric cancer, and to investigate the roles of exosomes in transporting miR-379-5p from intracellular to extracellular. 
Methods: Fifty-three pairs of gastric cancer and non-tumor tissue samples were collected. Five cell lines were applied. Functional assays including cell proliferation, cell migration and invasion, and cell adhesion assay were performed. Targets of miR-379-5p were screened and validated by western blot. Expressions of endogenous miR-379-5p in gastric cancer cells and exosomal miR-379-5p in cell culture medium were evaluated by RT-qPCR. Medium of culturing AGS or BCG23 was applied for culturing MKN45 and HEK293T. 
Results: The results indicated that miR-379-5p was significantly downregulated in gastric cancer tissue samples and cell lines. Enforced expression of miR-379-5p inhibited gastric cancer cell proliferation, migration, and invasion, while miR-379-5p mimic enhanced cell adhesion to extracellular matrix. IGF1R was a potential target of miR-379-5p in gastric cancer. Expression of miR-379-5p was dramatically higher in exosomes in cell culture medium than its endogenous expression. Exosomes from cell culture medium of AGS or BCG23 could regulate endogenous expression of miR-379-5p in HEK293T cells. 
Conclusions: MiR-379-5p was significantly downregulated and it functioned as a tumor suppressor in gastric cancer. MiR-379-5p was higher expressed in exosomes of culture medium than its endogenous expression. MiR-379-5p could be translocated from cells into cell culture medium and entered certain cell types via exosomes.
DOI: 10.17632/gbfgn8kfh8
title: Discovery of non-genomic drivers of yap signaling modulating the cell plasticity in CRC tumor lines

description: In normal intestine, fetal/regenerative/revival cell state can be induced upon inflammation. This plasticity in cell fate is also one of the current topics in human colorectal cancer (CRC). To dissect the underlying mechanisms, we generated human CRC organoids with naturally selected genetic mutation and exposed them to two different conditions by modulating the extracellular matrix (ECM). Among tested mutation profile, fetal/regenerative/revival states were induced following YAP activation when CRC cells were cultured using collagen type I-enriched scaffold compared to when cultured in laminin-enriched Matrigel. YAP transcription was promoted by activation of AP-1 and TEAD-dependent transcription and suppression of intestinal lineage-determining transcription via mechanotransduction. The phenotypic conversion was also involved in chemoresistance, which could be potentially resolved by targeting the underlying the YAP regulatory elements. YAP regulatory mechanism via mechanotransduction is a potential target of CRC treatment.
DOI: 10.6084/m9.figshare.13625054.v1
title: Mobile LiDAR Data

description: This is a point cloud sampe data which was collected by a mobile Lidar system (MLS).
DOI: 10.17632/y3g8bx3vb4
title: Pricing of Sustainability-Linked Bonds

description: This package provides code and describes how to replicate the results of the paper "Pricing of Sustainability-Linked Bonds".
DOI: 10.6084/m9.figshare.12673250.v1
title: VCF files of industrial yeasts

description: Results of GATK genome analysis, used for allele frequency plots.<br>Newly generated FASTQ sequencing files along with those obtained from SRA were trimmed and filtered using fastp (Chen et al., 2018), and mapped to the S288C reference genome (R64.2.1.) downloaded from the SGD database (yeastgenome.org) and the reference genomes of the other Saccharomyces species (Scannell et al., 2011), using bwa 0.7.17. (Li and Durbin, 2009). Sorted BAM files were obtained using samtools 1.7. (Li et al., 2009) and Picard-tools 1.124. (http://picard.sourceforge.net) was used to mark duplicated reads. Local realignment around indels and joint variant calling and filtering for the six samples were performed with GATK 4.1.6.0 (Auwera et al., 2013; Poplin et al., 2018) with regions annotated in the SGD database as simple repeats, centromeric regions, telomeric regions, or LTRs excluded. First, genomic VCF files were obtained, joint calling was applied, and in the resulting VCF files, only SNPs were selected. SNPs were filtered according to the parameters used by (Fay et al., 2019): QD &lt; 5.0; QUAL &lt; 30.0; SOR &gt; 3.0; FS &gt; 60.0; MQ &lt; 40.0; MQRankSum &lt; -12.5; ReadPosRankSum &lt; -8.0; --set-filtered-genotype-to-no-call true.<br>
DOI: 10.6084/m9.figshare.20367496.v1
title: master_SIN_lab infection prevalence.xlsx from Timescale reverses the relationship between host density and infection risk

description: Host density shapes infection risk through two opposing phenomena. First, when infective stages are subdivided among multiple hosts, greater host densities decrease infection risk through ‘safety in numbers’. Hosts, however, represent resources for parasites, and greater host availability also fuels parasite reproduction. Hence, host density increases infection risk through ‘density-dependent transmission’. Theory proposes that these phenomena are not disparate outcomes but occur over different timescales. That is, higher host densities may reduce short-term infection risk, but because they support parasite reproduction, may increase long-term risk. We tested this theory in a zooplankton-disease system with laboratory experiments and field observations. Supporting theory, we found that negative density–risk relationships (safety in numbers) sometimes emerged over short timescales, but these relationships reversed to ‘density-dependent transmission’ within two generations. By allowing parasite numerical responses to play out, time can shift the consequences of host density, from reduced immediate risk to amplified future risk.
DOI: 10.17632/j6yt2vg7vz
title: Εffects of different sound frequencies on intensively farmed fish.

description: Εffects of different sound frequencies on intensively farmed fish.Comet assay method.
DOI: 10.6084/m9.figshare.14102594.v1
title: PGC3 bipolar disorder GWAS summary statistics

description: Three sets of GWAS summary statistics are provided: <br>1. bipolar disorder (all cases): pgc-bip2021-all.vcf.tsv.gz2. bipolar I disorder: pgc-bip2021-BDI.vcf.tsv.gz3. bipolar II disorder: pgc-bip2021-BDII.vcf.tsv.gz<br>Please refer to original publication for detailed study info and phenotype definitions.
DOI: 10.17632/4fg3htnbs9
title: Dataset of Cow manure by earthworm biocomposting process in Jinan Hongyuan in October 2020

description: Experiment in an earthworm breeding farm in Changqing District, Jinan City, and lasted for 50 days, from October 21, 2020 to December 10, 2020.
DOI: 10.6084/m9.figshare.12942275.v1
title: HPLC calibration curves for ethanol, acetate, glucose, xylose, glycerol, glyoxylate, malate, ethylene glycol, glycolate, butanol, and butanone

description: This work reports the HPLC calibration curves of ethanol, acetate, glucose, xylose, glycerol, glyoxylate, malate, ethylene glycol, glycolate, butanol, and butanone on an Agilent 1260 HPLC instrument equipped with a Bio-Rad Aminex HPX-87H column. Mobile phase was 5 mM sulphuric acid eluted in isocratic mode. Column temperature was maintained at 50 <sup>o</sup>C, and injection volume was 5 μL. Flow rate was 0.7 mL/min.
DOI: 10.6084/m9.figshare.25605204.v2
title: Supplemental Data File 1_PKD_1m_vs_WT_1m_All Genes.xlsx

description: Supplemental Data File 1_PKD_1m_vs_WT_1m_All Genes.xlsx
DOI: 10.6084/m9.figshare.26146915.v1
title: fNIRS raw data

description: fNIRS raw data
DOI: 10.17632/gr74wwckcp
title: ANT 2023: A program for adiabatic and nonadiabatic trajectories

description: ANT 2023 is a program for quasiclassical and semiclassical trajectories, both single-surface trajectories for which the Born-Oppenheimer approximation is valid and multi-surface calculations with electronic state changes, i.e., for electronically adiabatic and electronically nonadiabatic trajectories. There are several methods available for multisurface problems: surface hopping with or without time uncertainty and with or without decoherence, semiclassical Ehrenfest, self-consistent decay of mixing, and coherent switching with decay of mixing (CSDM). The potential surface for single-surface problems may be an analytic potential function supplied by the user, or one may use direct dynamics. To use the adiabatic representation (i.e., electronically adiabatic basis functions) for electronically nonadiabatic dynamics, the user may either provide the adiabatic surfaces and nonadiabatic couplings by direct dynamics, or the program may calculate them from diabatic surfaces and diabatic couplings, which are usually analytic. One can also use analytic fits to the surfaces and couplings to carry out calculations entirely in the diabatic representation. The curvature-driven approximation is available as an option for use with CSDM and trajectory surface hopping. The ANT 2023 program is especially recommended for calculations with analytic potential energy surfaces and couplings because of its high efficiency for such calculations.
DOI: 10.17632/n8cjmmd5jf
title: Mineralogy and isotopes data for carbonate nodules occured in western Qaidam Basin

description: This database includes the identification of the mineralogy and the stable C and O isotopes of the nodules collected from western Qaidam Basin. Mineralogy was analyzed by XRD, SEM, XRF and EPMA measurements. Stable isotopes of every nodule were analyzed in the University of Alberta. U and Th isotopes were analyzed in Xi'an Jiaotong University. We also put the geological maps of the study area in Qaidam Basin.