cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/d4y7fm3g79
title: Raw Surface Electromyography Dataset from Myo Arm Band

description: The data set is a part of the ongoing research work to perform gesture classification using Machine Learning and Deep Learning Techniques. The dataset consists of samples acquired from 10 consenting users. Each user performed 5 different hand gestures. The gesture classes include Index Finger Extension, Middle Finger Extension, Cylindrical Grip, Closed Grip, and Rest. The Myo Armband by Thalmic labs was used for data acquisition. The armband consists of 8 Surface EMG sensor units. The 8 sensors read data every 5ms. This data is stored in a CSV file with the timestamp. The sensor names are labeled as well. Each user wore the armband on their forearm and performed the 5 different gestures.100 instances were collected for each user for each of the gestures. one instance included performing the gesture within a window of 2 seconds followed by a rest window of 2 seconds. This pattern of flexion and extension gestures is performed to acquire the data. Each session was restricted to a batch of 25 instances considering the fatigue that sets in after constant flexion and extension gestures. The gesture data corresponding to each user are organized into 10 folders labeled as "User #", Inside each User folder, the file corresponding to each gesture are organized in a folder labeled with the gesture names "Index Finger Extension", "Middle Finger Extension", "Cylindrical Grip", "Closed Grip", and "Rest". Each CSV file is labeled as "u#-gesture-name-set-#.csv".
DOI: 10.6084/m9.figshare.14784117.v1
title: Wu et al. (2021)

description: dataset used in Wu et al., 2021, manuscript submitted to AGU journal<br>
DOI: 10.6084/m9.figshare.20726392.v6
title: Incidence, risk and impact of unplanned ICU readmission on patient outcomes and resource utilisation in tertiary level ICUs in Nepal.

description: The study assesses the determinants of risk attributable to unplanned ICU readmission in four ICUs in Kathmandu, Nepal. Despite growing literature on this topic, most of the evidence on incidence, characteristics, associated risk factors and attributable outcomes of unplanned readmission to ICU are from studies performed in high-income countries. In this study, the registry-embedded eCRF reported data on case mix, severity of illness, in-ICU interventions (including organ support), ICU outcome, and readmission characteristics. Data were captured in all adult patients admitted between September 2019 and February 2021. Population and ICU encounter characteristics were compared between those with and without readmission. Independent risk factors for readmission were assessed using univariate analysis. Unplanned ICU readmission rates were adversely associated with significantly poorer outcomes, increased ICU resource utilisation. Clinical and organisational characteristics influenced risk of readmission and outcome.
DOI: 10.6084/m9.figshare.24031050.v3
title: Genome annotation and population genetics of Parnassius glacialis

description: (1)Genome sequences: genome-v2.assembly.FINAL-ncbi.fasta(2)CDS sequences: P.glacialis.cds.fasta(3)Protein sequences: P.glacialis.protein.fasta(4)Gene annotation: P.glacialis.genome.gff3(5)8kb Upstream and 8kb downstream sequences of RPLP2 genes: RPLP2-8kup8kdown.fasta(6)VCF file of 9 populations: All41.snp.maf005.geno01.mis1.ld05.vcf.gz
DOI: 10.6084/m9.figshare.8003909.v1
title: SCDP_row.data.zip

description: The submission contains SNP data in plink formats. The data is fully described in the manuscript: "<b>The SYNBREED chicken diversity panel: A global resource to assess chicken diversity at high genomic resolution" which is submitted to the BMC Genomics journal</b>
DOI: 10.1184/r1/12636731
title: Ultra high-density EEG recording of interictal migraine and controls: sensory and rest

description: We used a high-density electroencephalography (HD-EEG) system, with 128 customized electrode locations, to record from 17 individuals with migraine (12 female) in the interictal period, and 18 age- and gender-matched healthy control subjects, during visual (vertical grating pattern) and auditory (modulated tone) stimulation which varied in temporal frequency (4 and 6Hz), and during rest. <br>This dataset includes the EEG raw data related to the paper entitled Chamanzar, Haigh, Grover, and Behrmann (2020), <b>Abnormalities in cortical pattern of coherence in migraine detected using ultra high-density EEG. </b>The link to our paper will be made available as soon as it is published online.<br>
DOI: 10.17632/hz9s4nwncf
title: Multi-GPU UNRES for scalable coarse-grained simulations of very large protein systems

description: Graphical Processor Units (GPUs) are nowadays widely used in all-atom molecular simulations because of the advantage of efficient partitioning of atom pairs between the kernels to compute the contributions to energy and forces, thus enabling the treatment of very large systems. Extension of time- and size-scale of computations is also sought through the development of coarse-grained (CG) models, in which atoms are merged into extended interaction sites. Implementation of CG codes on the GPUs, particularly the multiple-GPU platforms is, however, a challenge due to more complicated potentials and removing the explicit solvent, forcing developers to do interaction- rather than space-domain decomposition. In this paper, we propose a design of a multi-GPU coarse-grained simulator and report the implementation of the heavily coarse-grained physics-based UNited RESidue (UNRES) model of polypeptide chains. By moving all computations to GPUs and keeping the communication with CPUs to a minimum, we managed to achieve almost 5-fold speed-up with 8 A100 GPU accelerators for systems with over 200,000 amino-acid residues, this result making UNRES the best scalable coarse-grained software and enabling us to do laboratory-time millisecond-scale simulations of such cell components as tubulin within days of wall-clock time.
DOI: 10.17632/wsr6s6dp2j
title: 2010 Asia Internet MSM Sex Survey (AIMSS)

description: In collaboration with 40 community partners from 12 different countries throughout Asia, a gay-oriented website (www.Fridae.com) launched a multi-country online survey (Asian Internet MSM Sex Survey, www.2010aimss.com) between January and February 2010. Participants were recruited exclusively through online methods. Banner advertisements (“No Names, No Faces, Only the Solid Details: 2010 Asia Internet MSM Sex Survey”) were posted on the website and emails were sent to listserv members by
the community partners to recruit participants. Participants over the age of 18 were invited to complete the survey after agreeing to the online informed consent. To ensure the diversity of participants, the survey was available in English and 9 Asian languages and dialects. Participation in the study was anonymous (personal information was not collected), voluntary and no incentives were offered. During the two-month period, 24,742 participants entered the survey and 13,883 (56.1%) completed the entire online questionnaire. Of these, 10,861 were 18 or older, biologically male, and have had one or more male sex partners in the past 6 months. The study was exempted from IRB but followed all IRB guidelines.
DOI: 10.6084/m9.figshare.10315925.v1
title: Managing salmon for wildlife: do fisheries limit salmon consumption by bears in small Alaskan streams?

description: Data collected from four small streams in Bristol Bay, Alaska by carcass survey. Annual biomass (kg) of sockeye salmon consumed by bears, annual biomass (kg) of sockeye salmon available, average percentage of biomass eaten per salmon, and an estimate of the annual number of bears foraging at that site (generated from genetic capture-mark-recapture data) is included.
DOI: 10.6084/m9.figshare.14141228.v2
title: Assembled minION long-reads

description: <b>Assembled</b> and <b>polished</b> minION long-reads from human oral cavity samples processed using three HMW DNA extraction methods (M4, M5, and M6, each with two replicates) described in the following study:<br>https://doi.org/10.1101/2021.03.03.433801<br>The data pack also includes anvi'o contigs databases generated from the FASTA files of assembled long reads which includes gene calls, HMM hits for single-copy core genes, and gene functions. Visit this page to learn what you can do with a contigs database:<br><br>https://merenlab.org/m/contigs-db<br>PS: we also have a set of contigs databases for unassembled long-reads and assembled short-read sequences from samples collected from the same individual in a different data pack. For their DOIs, please see the Data Availability section in our study.
DOI: 10.6084/m9.figshare.23850696.v1
title: Knowledge, Attitude and Practice regarding the effect of yoga on periodontal health among Indian adults: A questionnaire study.

description: Raw data for study on yoga and periodontal health
DOI: 10.6084/m9.figshare.27170985.v4
title: Combined Rhesus Macaque germline database

description: This is a germline database for Rhesus Macaque that combined KIMDB, IMGT, W_series_RMDB, and germline genes from VRC macaques. We also provide animal specific germline alleles in this study.
DOI: 10.6084/m9.figshare.29045225.v1
title: Modulation of serum cytokins profiles in hospitalized COVID-19 patients with NRICM101: A preliminary observational study

description: This prospective observational study enrolled 51 hospitalized COVID-19 patients infected with the Alpha variant in northern Taiwan from April to June 2022. Fourteen patients received NRICM101 in addition to standard supportive care, while 37 received standard care alone. Serum cytokines, including IL-6, IL-16, IP-10, MCP-1, and PDGF-BB, were measured using multiplex immunoassay. Clinical data such as disease progression, oxygen requirement, length of hospitalization, and mortality were collected.<br><br>
DOI: 10.6084/m9.figshare.29143532.v1
title: Supplementary materials 1-6 for manuscripts "Comparative morphology of the third-instar larval mouthparts of white grubs with discussing their characteristic evolution (Coleoptera: Scarabaeoidea)"

description: 1. Supplementary Table1. MtGenomes information of Scarabaeoidea were deposited and downloaded from GenBank, along with the corresponding references of third-instar larval mouthparts.2. COI of Ophrygonlus sp. 3. Mitogenomic organization and composition. 4. Phylogenetic analysis data. 5. Phylogenetic tree based on 13PCGs 13PCGsAA 13PCGs12 PCG2rRNA PCG12rRNA datasets.6. The 18 ancestral character reconstructions based on the ML/BI-derived topology.<br>
DOI: 10.6084/m9.figshare.8320700.v2
title: Sorption experiment

description: <br><br>Effects of contact time on adsorption capacity of Cu(II) onto different adsorbents (adsorbent dosage= 0.5 g, contact time = 5, 10, 15, 25, 35, 50, 65 h, initial Cu(II) concentration = 300 mg L-1, initial solution pH = 5.0 ± 0.1, temperature = 25°C).Plots for the intra-particle diffusion, Pseudo-first-order and Pseudo-second-order sorption kinetics of Cu(II) onto different adsorbents.<br>These data were measured for effect of initial Cu(II) concentration on adsorption capacity of Cu(II) onto different adsorbents (adsorbent dosage= 0.5 g, initial Cu(II) concentration = 10, 50, 100, 300, 500, 700 mg L-1, initial solution pH = 5.0 ± 0.1, contact time = 25 h, temperature = 25°C), and plots for Langmuir and Freundlich isotherms for adsorption of Cu(II) onto different adsorbents (The legends of “Freundlich” are the same with that of “Langmuir”).<br>Thermodynamic parameters for the adsorption of Cu(II) onto different adsorbents.<br>
DOI: 10.17632/6jz3575gwc
title: An object oriented Python interface for atomistic simulations

description: Abstract Programmable simulation environments allow one to monitor and control calculations efficiently and automatically before, during, and after runtime. Environments directly accessible in a programming environment can be interfaced with powerful external analysis tools and extensions to enhance the functionality of the core program, and by incorporating a flexible object based structure, the environments make building and analysing computational setups intuitive. In this work, we present a classi... Title of program: Pysic Catalogue Id: AEYE_v1_0 Nature of problem Automated simulation control, interaction tuning and an intuitive interface for running atomistic simulations. Versions of this program held in the CPC repository in Mendeley Data AEYE_v1_0; Pysic; 10.1016/j.cpc.2015.09.010 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018)
DOI: 10.6084/m9.figshare.19755463.v1
title: TCC_Leide - Dados tabulados (versão final).xlsx

description: Estes dados foram reunidos e organizados com o objetivo de servir de arcabouço para uma pesquisa que ob jetiva mapear e investigar a produção científica referente aos estudos bibliométricos que estão indexadas na Base de Dados Referenciais de Artigos de Periódicos em Ciência da Informação (Brapci). São dados referentes ao Trabalho de Conclusão de Curso elaborado por Leide Jane Cruz Vieira e defendido em 2022.
DOI: 10.6084/m9.figshare.21154486.v3
title: Traffic Condition Dataset

description: Traffic Condition Dataset
DOI: 10.6084/m9.figshare.21505551.v1
title: Android smartphone spec

description: Android smartphone spec
DOI: 10.6084/m9.figshare.28920377.v1
title: SLR Search Outcome.xlsx

description: This systematic literature review delves into the non-payment of electricity, highlighting that it is a symptom and outcome of deep systematic and structural factors. It shows that it is caused by the demand-side and the supply-side factors, which are related. The study has a conceptual contribution linking these relationships, and integrating theoretical explanations to make sense of the complex behaviours. This study reveals that interventions must account for different consumers' willingness and ability to pay. Policymakers must balance between energy justice, regulatory enforcement, building community trust, and organisational development.
DOI: 10.6084/m9.figshare.5048911.v2
title: China national CO2 emission inventory (sectoral approach), 2000-2015

description: The dataset provides China national CO2 emission inventory (sectoral approach) from 2000-2015.The emissions include CO2 from fossil fuel combustion and cement process.
DOI: 10.17632/dp7zp2pb2v
title: Construction of a Multimodal Machine Learning Model for Papillary Thyroid Carcinoma Based on Pathomics and Ultrasound Radiomics Data

description: This dataset consists of thyroid ultrasound images and ultrasound-guided thyroid fine needle aspiration cytology hematoxylin-eosin staining scanning image blocks, from 222 cases of papillary thyroid carcinomaand 163 cases of benign thyroid nodules.
DOI: 10.17632/nbtp99bd76
title: Random uniform distributions of 2D circles and 3D spheres

description: This dataset contains random uniform distributions for a large number of 2D and 3D balls, along with the description files and examples of usage. It provides the possibility for fast pick up of the random sets of smaller subsamples, with the guaranteed statistical properties such as random uniform distribution of balls, the predefined expected volume ratio of balls, and also the minimum distance between them. The main data is contained in two files 'kernels2D.npy' and 'kernels3D.npy' which are the arrays of centers of the balls with unitary radius (r=1). Data is stored in NumPy format (https://numpy.org). The shape of these arrays is (nc, nd, N, D), where 'nc' is the number of considered void ratios, 'nd' - number of considered distances, 'N - maximum number of generated centers, and 'D' - space dimension. The 'kernels2D.json' and 'kernels3D.json' files are the description files stored in JavaScript Object Notation format. They can be previewed in the Firefox web browser and edited in any text editor. The most important entries in the description files are: * 'c' - list of considered expected volume ratios of balls (of length 'nc'); * 'd' - list of considered additional distances between balls (of length 'nd'); the final distance is guaranteed to be not less than 2*r + d; * 'Ncd' - numbers of ball centers generated for all (c, d) pairs; * 'nsamples' - a dictionary containing numbers of subsets of different sizes (given by radius 'R' or equivalently by the expected number of balls) required to obtain a mean value of the ball volume ratios at the required accuracy ('rmargin') with assumed 'confidence'; this dictionary contains also the precomputed estimates of the standard errors for the ball volume ratio values ('sigma'). In order to use this data first decide which volume ratio you are interested in and what are the minimum distances between balls required. Then establish the indices 'i', 'j' of your values in 'c' and 'd' lists, respectively. Next, get the number of centers generated for chosen geometric configuration from 'Ncd' array and finally retrieve centers from .npy file. Consider this python code snippet as an example: """ import numpy as np import json description = json.load(open('kernels3D.json', 'r')) kernel = np.load('kernels3D.npy') c = 0.065; i = 11 d = 0.025; j = 5 N = description['Ncd'][i][j] centers = kernel[i, j, :N]` """ The directories 'example2D' and 'example3D' contain the sets of subsamples of different sizes picked up from kernels for specific volume ratio and ball distances. Names of subdirectories are just the expected numbers of balls in the subsamples. Subdirectories contain the self-explanatory description files (.json), the array of centers retrieved form from kernels (.npy file), and the geometry and finite element files for all subsamples (.brep and .msh files) to be used in computations. Description files contain also the results of computations performed in the research paper [to be published].
DOI: 10.6084/m9.figshare.19543948.v1
title: Pinto et al, 2022. Behavioral data in the accumulating-towers task with optogenetic inactivation of 9 sets of cortical regions during six different trial epochs

description: Hdf5 file containing a python dictionary with multiple arrays, the majority of them of length N where N is the number of behavioral trials, concatenated across mice and behavioral sessions. <br> 'choice', # N-element array of 0s and 1s indicating left or right choice, respectively 'cueOnset_L', # N-element array with arrays of left-tower onset times in sec for each trial, where t = 0 is trial start 'cueOnset_R', # N-element array with arrays of right-tower onset times in sec for each trial, where t = 0 is trial start 'cuePos_L', # N-element array with arrays of left-tower positions in cm. Towers appear when the mouse is 10 cm away from them 'cuePos_R', # N-element array with arrays of right-tower positions in cm. Towers appear when the mouse is 10 cm away from them 'epochList', # list of unique inactivation epochs. See referenced paper for details 'inactLocationList', # list of unique inactivation locations. See referenced paper for details 'laserEpoch', # N-element array with per-trial inactivation epoch 'laserEpoch_yposRange', # N-element array with [start end] position of laser inactivation in cm 'laserON', # N-element boolean array, True indicates laser inactivation trial 'loclbl', # N-element array with per-trial inactivation location 'mouseID', # N-element array with mouse number IDs 'nCues_RminusL', # N-element array with overall \Delta towers (#R - #L) for each trial 'pos', # N-element array with arrays indicating [x y theta] position for each time point in the trial. Theta is virtual view angle 'sessionID', # N-element array with unique session IDs per mouse 'time', # N-element array with arrays of time stamps in sec for each trial 'trialType', # N-element array of 0s and 1s indicating left or right trial (i.e. in which side the reward is), respectively 'viewAngle_byYpos', # N-element array with theta by position 'ypos_vals', # vector of y positions in cm used to calculate viewAngle_byYpos 'leftCode', # convention -- value used to indicate left side (= 0) 'rightCode' # convention -- value used to indicate right side (= 1)
DOI: 10.6084/m9.figshare.25990075.v1
title: TrialPanorama

description: TrialPanorama
DOI: 10.6084/m9.figshare.26148670.v1
title: Supplementary Material for: Dendritic morphology of developing hippocampal neurons in Cyp11a1 null mice

description: Introduction: Neurosteroids have a variety of neurological functions, such as neurite growth, neuroprotection, myelination, and neurogenesis. P450scc, encoded by CYP11A1 gene, is the cholesterol side chain cleavage enzyme that catalyzes the first and rate limiting step in the steroidogenesis. In this study, we examine the dendritic morphology in developing hippocampal neurons of Cyp11a1 null mice at P15, a critical period for synapse formation and maturation.
Methods: Knockout mice were maintained until P15 with hormone administration. The Golgi-Cox method stained CA1 and CA3 pyramidal neurons in the hippocampus to reveal dendritic morphology.
Results: We demonstrated that Cyp11a1 null mice usually die within 7 days after birth and thus collected brain samples at postnatal day 5 (P5) for examination. There were significant shrinkage of dendrite size and diminishment of dendritic branching in CA1 and CA3 pyramidal neurons in the hippocampus of Cyp11a1 null mice, suggesting a developmental delay. We wonder if this delay may catch up later in life. Since the age of P15 is a critical period for synapse formation and maturation, the Cyp11a1 null mice were rescued by receiving hormone administration until P15 that the dendritic morphology in the developing hippocampal neurons could be examined. The results indicated that the total dendritic length, number of dendritic branches, as well as dendritic arborization in the CA1 and CA3 pyramidal neurons are significantly decreased in P15 knockout mice when compared to the wild type. The spine densities were also significantly decreased. In addition, the western blot analysis revealed decrease PSD-95 expression levels in the knockout mice compared to the wild type at P15. 
Conclusion: These results suggested that Cyp11a1 deficiency impairs the dendritic structures in the developing hippocampal pyramidal neurons.
DOI: 10.6084/m9.figshare.27266499.v1
title: Scavenging contributes to larval food intake in fungus gnats using the <i>Arisaema </i>kettle trap as a brood site

description: Data S1: The <i>COI</i> (mitochondrial cyto-chrome oxidase I) sequences of fungus gnats sampled from <i>Arisaema </i><i>bockii</i> using to identify pollinator and build the phylogenetic tree.
DOI: 10.6084/m9.figshare.10282601.v1
title: Niche conservatism promotes speciation in cycads: the case of Dioon merolae (Zamiaceae) in Mexico

description: A .zip file contains five files: <br> 1) STRUCTURE format file obtained from the filtering and SNP identification method in STACKS, as described in the manuscript. <br> 2) Morphological data (15 traits) of 100 individuals used in the research. <br> 3) Climate data of 30 localities of <i>Dioon merolae</i> and 20 of other species of the Purpusii clade. <br> 4) RAD-seq raw data obtained from HiSeq2500 (Illumina) of 68 samples of <i>Dioon merolae</i>. <br> 5) A zip file with 21 clipped bioclimatic variables used in this research.
DOI: 10.6084/m9.figshare.12387338.v2
title: R script and dataset - bubble plots

description: This folder contained a R script and data set used to generate bubble plots as shown Fig. 3.