cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13173946
title: Additional file 2 of Differences in plasma proteomes for active tuberculosis, latent tuberculosis and non-tuberculosis mycobacterial lung disease patients with and without ESAT-6/CFP10 stimulation

description: Additional file 2: Supplemental dataset S2. Differentially abundance values of proteins comparing four groups (HC, LTBI, NTM and active TB) to each other’s measured from analyzed in two technical replicates computing the abundances with the MaxLFQ software tool. The analytes were measured from 40 enrolled participants (10 each for the cohorts HC, LTBI, active TB and NTM) from unstimulated and 40 enrolled participants (10 each for the cohorts HC, LTBI, active TB and NTM) from stimulated. Thirty-five proteins were differentially expressed in LTBI comparing to HC, 43 proteins were differentially expressed in NTM comparing to HC and 49 proteins were differentially expressed in active TB comparing to HC, 34 proteins were differentially expressed in NTM as compared to LTBI, 41 proteins were differentially expressed in active TB as compared to LTBI, and 39 proteins were differentially expressed in active TB as compared to NTM in unstimulated plasma samples. In the meanwhile, 50 proteins were differential expressed in LTBI comparing to HC, 41 proteins were differential expressed in NTM comparing to HC, 61 were differentially expressed in active TB comparing to HC, 13 proteins were differentially expressed in NTM as compared to LTBI, 64 proteins were differentially expressed in active TB as compared to LTBI, and 43 proteins were differentially expressed in active TB as compared to NTM. Independent-sample t testing was performed and P-values
DOI: 10.6084/m9.figshare.13173946.v1
title: Additional file 2 of Differences in plasma proteomes for active tuberculosis, latent tuberculosis and non-tuberculosis mycobacterial lung disease patients with and without ESAT-6/CFP10 stimulation

description: Additional file 2: Supplemental dataset S2. Differentially abundance values of proteins comparing four groups (HC, LTBI, NTM and active TB) to each other’s measured from analyzed in two technical replicates computing the abundances with the MaxLFQ software tool. The analytes were measured from 40 enrolled participants (10 each for the cohorts HC, LTBI, active TB and NTM) from unstimulated and 40 enrolled participants (10 each for the cohorts HC, LTBI, active TB and NTM) from stimulated. Thirty-five proteins were differentially expressed in LTBI comparing to HC, 43 proteins were differentially expressed in NTM comparing to HC and 49 proteins were differentially expressed in active TB comparing to HC, 34 proteins were differentially expressed in NTM as compared to LTBI, 41 proteins were differentially expressed in active TB as compared to LTBI, and 39 proteins were differentially expressed in active TB as compared to NTM in unstimulated plasma samples. In the meanwhile, 50 proteins were differential expressed in LTBI comparing to HC, 41 proteins were differential expressed in NTM comparing to HC, 61 were differentially expressed in active TB comparing to HC, 13 proteins were differentially expressed in NTM as compared to LTBI, 64 proteins were differentially expressed in active TB as compared to LTBI, and 43 proteins were differentially expressed in active TB as compared to NTM. Independent-sample t testing was performed and P-values
DOI: 10.6084/m9.figshare.13173952.v1
title: Additional file 4 of Differences in plasma proteomes for active tuberculosis, latent tuberculosis and non-tuberculosis mycobacterial lung disease patients with and without ESAT-6/CFP10 stimulation

description: Additional file 4: Supplemental dataset S4. Independent-sample t-tests to identify proteins that were up-regulated or down-regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail. Fifty-nine proteins were significantly regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in HC, 36 proteins were significantly regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in LTBI, and four proteins were differently regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in NTM, eight proteins were significantly regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in active TB. Columns in the Excel files designate technical replicates (donated by rep), t-test significant, comparison groups, P-value, q value, t-test difference, protein ID, protein names and gene names. P-values
DOI: 10.6084/m9.figshare.13173949.v1
title: Additional file 3 of Differences in plasma proteomes for active tuberculosis, latent tuberculosis and non-tuberculosis mycobacterial lung disease patients with and without ESAT-6/CFP10 stimulation

description: Additional file 3: Supplemental database 3. Global ANOVA analysis to identify the proteins that showed significant differences among the eight groups (HC, LTBI, NTM, and TB) in plasma samples with and without stimulation. To perform the quantization analysis, the LFQ values of each protein derived from MaxQuant were first log2 transformed and filtered to eliminate proteins with the most missing values. Missing values for other proteins were imputed and then multiple-samples test (ANOVA) was performed with Benjamini-Hochberg correction (FDR = 0.05), which led to 68 proteins that showed significant difference among the eight groups. P-values
DOI: 10.6084/m9.figshare.13173952
title: Additional file 4 of Differences in plasma proteomes for active tuberculosis, latent tuberculosis and non-tuberculosis mycobacterial lung disease patients with and without ESAT-6/CFP10 stimulation

description: Additional file 4: Supplemental dataset S4. Independent-sample t-tests to identify proteins that were up-regulated or down-regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail. Fifty-nine proteins were significantly regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in HC, 36 proteins were significantly regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in LTBI, and four proteins were differently regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in NTM, eight proteins were significantly regulated upon stimulation with the ESAT-6/CFP-10 antigen cocktail in active TB. Columns in the Excel files designate technical replicates (donated by rep), t-test significant, comparison groups, P-value, q value, t-test difference, protein ID, protein names and gene names. P-values
DOI: 10.6084/m9.figshare.13173949
title: Additional file 3 of Differences in plasma proteomes for active tuberculosis, latent tuberculosis and non-tuberculosis mycobacterial lung disease patients with and without ESAT-6/CFP10 stimulation

description: Additional file 3: Supplemental database 3. Global ANOVA analysis to identify the proteins that showed significant differences among the eight groups (HC, LTBI, NTM, and TB) in plasma samples with and without stimulation. To perform the quantization analysis, the LFQ values of each protein derived from MaxQuant were first log2 transformed and filtered to eliminate proteins with the most missing values. Missing values for other proteins were imputed and then multiple-samples test (ANOVA) was performed with Benjamini-Hochberg correction (FDR = 0.05), which led to 68 proteins that showed significant difference among the eight groups. P-values
DOI: 10.6084/m9.figshare.13173986.v1
title: Additional file 2 of COVID-19 pandemic and dental hygienists in Italy: a questionnaire survey

description: Additional file 2.
DOI: 10.6084/m9.figshare.13173986
title: Additional file 2 of COVID-19 pandemic and dental hygienists in Italy: a questionnaire survey

description: Additional file 2.
DOI: 10.6084/m9.figshare.13174064.v1
title: Additional file 3 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 3: Tblastn search results against RefSeq genomes of 19 fishes.
DOI: 10.6084/m9.figshare.13174061
title: Additional file 2 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 2: Detailed information of selected sequences.
DOI: 10.6084/m9.figshare.13174064
title: Additional file 3 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 3: Tblastn search results against RefSeq genomes of 19 fishes.
DOI: 10.6084/m9.figshare.13174058
title: Additional file 1 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 1: Lineage information of selected species.
DOI: 10.6084/m9.figshare.13174079.v1
title: Additional file 8 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 8: Multiple alignment of EP300 sequences and original tree files.
DOI: 10.6084/m9.figshare.13174058.v1
title: Additional file 1 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 1: Lineage information of selected species.
DOI: 10.6084/m9.figshare.13174061.v1
title: Additional file 2 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 2: Detailed information of selected sequences.
DOI: 10.6084/m9.figshare.13174079
title: Additional file 8 of Directional divergence of Ep300 duplicates in teleosts and its implications

description: Additional file 8: Multiple alignment of EP300 sequences and original tree files.
DOI: 10.21227/1r39-p726
title: energy prediction

description: The idea of our team: Divide into 3 groups according to the size of the missing values, and each group adopts different strategies. For the group with the least missing values, we used random interpolation to complete the data; for the group with medium missing values, we used the Euclidean distance to calculate the similarity between the user’s electricity consumption and other users; the one with the largest missing value For the group, we used the average value to calculate the similarity between this user and other users.
DOI: 10.6084/m9.figshare.13017899.v1
title: datasheet f1000research 2909.xlsx

description: This dataset was used to write paper titled age, neutrophil lymphocite ratio and radiographic assesment of the quantity of lung edema (RALE) score to predict in-hospital mortality in COVID-19 patients, DOI https://doi.org/10.12688/f1000research.26723.1
DOI: 10.5281/zenodo.4171665
title: Data for publication "A comparison of pre-Millennium eruption (946 AD) and modern temperatures from tree rings in the Changbai Mountain, northeast Asia"

description: This is the dataset used in the paper "A comparison of pre-Millennium eruption (946 AD) and modern temperatures from tree rings in the Changbai Mountain, northeast Asia". The dataset contains treering chronology from carbonized logs (trees buried by the volcanic ash of the Millennium Eruption of the Changbai Mountain volcano occurred in 946 AD) and modern living trees. We reconstruct ~300-year April temperature before the Millennium Eruption and April temperature during the last ~180 years. This dataset therefore also contains the reconstructed temperature and the climate observations of a meteorological station used for the temperature reconstruction.
DOI: 10.6084/m9.figshare.13017899
title: datasheet f1000research 2909.xlsx

description: This dataset was used to write paper titled age, neutrophil lymphocite ratio and radiographic assesment of the quantity of lung edema (RALE) score to predict in-hospital mortality in COVID-19 patients, DOI https://doi.org/10.12688/f1000research.26723.1
DOI: 10.6084/m9.figshare.13017899.v3
title: datasheet f1000research 2909.xlsx

description: This dataset was used to write paper titled age, neutrophil lymphocite ratio and radiographic assesment of the quantity of lung edema (RALE) score to predict in-hospital mortality in COVID-19 patients, DOI https://doi.org/10.12688/f1000research.26723.1
DOI: 10.6084/m9.figshare.13017899.v2
title: datasheet f1000research 2909.xlsx

description: This dataset was used to write paper titled age, neutrophil lymphocite ratio and radiographic assesment of the quantity of lung edema (RALE) score to predict in-hospital mortality in COVID-19 patients, DOI https://doi.org/10.12688/f1000research.26723.1
DOI: 10.13012/b2idb-0887518_v1
title: Dramatic long-term restoration of an oak woodland due to multiple, sustained management treatments

description: A 30 year record of the vegetation in sample plots in a woodland in the Chicago area. The changes in these plots over time show how ecological restoration can yield dramatic results.
DOI: 10.17910/b7.1205
title: Packer

description: These are untranscribed videos filmed by Martin Packer at the playground of a Kindergarten in the Bay Area in the 1980s.
DOI: 10.6084/m9.figshare.13077656
title: Achieving Sustainable Development Goals in Bangladesh: An Organizational Analysis

description: To check the progress of achieving the SDGs' related targets, the examination of the organizational level is essential. There was no systematic research on finding organizational improvement in Bangladesh's public sectors though it is indispensable for achieving the SDGs. The study aimed to understand where organizations currently stand about the allocation of business and achievement of the 2030 Agenda targets. Both primary and secondary data were used in this research. Secondary data sources
DOI: 10.6084/m9.figshare.13173671
title: All nodes in COVID-CDR

description: All nodes in COVID-CDR<br>
DOI: 10.6084/m9.figshare.13173662
title: COVID-19 Drug-Induced pathways

description: COVID-19 Drug-Induced pathways
DOI: 10.6084/m9.figshare.13173662.v1
title: COVID-19 Drug-Induced pathways

description: COVID-19 Drug-Induced pathways
DOI: 10.17632/xbkfyvw4xm.1
title: Non-Canonical shedding of TNFa by SPPL2a is determined by the conformational flexibility of its transmembrane helix - Supplement Data - MD Simulations and Mass Spectrometry
DOI: 10.17632/ytmyshtn66.2
title: EDDIE - Energy Dispersive x-rays spectroscopy for areal Density and composItion Evaluation

description: EDDIE is a MATLAB code for the for the evaluation of thin lms mass thick- ness and composition based on the Energy Dispersive X-Ray Spectroscopy (EDS). The method exploits the theoretical calculation of the in-depth char- acteristic X-ray generation distribution function in multilayer sam- ples, by the numerical solution of the electron trans- port equation. Once the substrate composition in known, this method gives reliable measurements without the need of a reference sample and/or mul- tiple voltage acquisitions. The electron transport model is derived from the Boltzmann transport equation and it exploits the most updated and reli- able physical parameters in order to obtain an accurate description of the phenomenon.
DOI: 10.17632/wxsxx3yt3y.5
title: Forest Fires in Spain

description: Data and code used in the paper: Forest Fires in Spain updated 2020/10/30
DOI: 10.17632/st7md3ss85.1
title: FORTRESS: FORTRAN programs for solving coupled Gross–Pitaevskii equations for spin–orbit coupled spin-1 Bose–Einstein condensate

description: Here, we present simple and efficient numerical scheme to study static and dynamic properties of spin-1 Bose–Einstein condensates (BECs) with spin–orbit (SO) coupling by solving three coupled Gross–Pitaevskii equations (CGPEs) in three-, quasi-two and quasi-one dimensional systems. We provide a set of three codes developed in FORTRAN 90/95 programming language with user defined ‘option’ of imaginary and real-time propagation. We present the numerical results for energy, chemical potentials, and component densities for the ground state and compare with the available results from the literature. The results are presented for both the ferromagnetic and antiferromagnetic spin-1 BECs with and without SO coupling. To improve the computational speed, all the codes have the option of OpenMP parallelization. We have also presented the results for speedup and efficiency of OpenMP parallelization for the three codes with both imaginary and real-time propagation.
DOI: 10.17632/jhwd3dtwmd.1
title: OCR_cable_bacteria

description: This dataset contains the raw images used for calculation of the individual and per-cell oxygen consumption rates of the paper 'Oxygen Consumption of Individual Cable Bacteria'. Each folder represents a distortion, and contains figures in .TIFF format of the 10x and 40x magnification. Additionally, video time series of the oxic-anoxic interface recorded in the trench slide set-up are provided (S6 and S7).
DOI: 10.17632/395wr3g7gn.2
title: GNLY-LAT evaluate drug causality in AED-SCAR
DOI: 10.17632/4r7fb62mwh.2
title: Supplementary material

description: Supplementary Table I presents basic characteristics of included studies. Supplementary Table II presents quality assessment of included studies.
DOI: 10.6084/m9.figshare.12962387
title: COVID_CDR Pairwise similarity and network separation score

description: COVID_CDR Pairwise similarity and network separation score
DOI: 10.6084/m9.figshare.12962387.v3
title: COVID_CDR Pairwise similarity and network separation score

description: COVID_CDR Pairwise similarity and network separation score
DOI: 10.17632/b9p7kyzdj9.1
title: NanoNET: An extendable Python framework for semi-empirical tight-binding models

description: We present a novel open-source Python framework called NanoNET (Nanoscale Non-equilibrium Electron Transport) for modeling electronic structure and transport. Our method is based on the tight-binding method and non-equilibrium Green’s function theory. The core functionality of the framework is providing facilities for efficient construction of tight-binding Hamiltonian matrices from a list of atomic coordinates and a lookup table of the two-center integrals in dense, sparse, or block-tridiagonal forms. The framework implements a method based on kd-tree nearest-neighbor search and is applicable to isolated atomic clusters and periodic structures. A set of subroutines for detecting the block-tridiagonal structure of a Hamiltonian matrix and splitting it into series of diagonal and off-diagonal blocks is based on a new greedy algorithm with recursion. Additionally the developed software is equipped with a set of programs for computing complex band structure, self-energies of elastic scattering processes, and Green’s functions. Examples of usage and capabilities of the computational framework are illustrated by computing the band structure and transport properties of a silicon nanowire as well as the band structure of bulk bismuth.
DOI: 10.17632/vfzgt2gnsh.1
title: MAISE: Construction of neural network interatomic models and evolutionary structure optimization

description: Module for ab initio structure evolution (MAISE) is an open-source package for materials modeling and prediction. The code’s main feature is an automated generation of neural network (NN) interatomic potentials for use in global structure searches. The systematic construction of Behler–Parrinello-type NN models approximating ab initio energy and forces relies on two approaches introduced in our recent studies. An evolutionary sampling scheme for generating reference structures improves the NNs’ mapping of regions visited in unconstrained searches, while a stratified training approach enables the creation of standardized NN models for multiple elements. A more flexible NN architecture proposed here expands the applicability of the stratified scheme for an arbitrary number of elements. The full workflow in the NN development is managed with a customizable ‘MAISE-NET’ wrapper written in Python. The global structure optimization capability in MAISE is based on an evolutionary algorithm applicable for nanoparticles, films, and bulk crystals. A multitribe extension of the algorithm allows for an efficient simultaneous optimization of nanoparticles in a given size range. Implemented structure analysis functions include fingerprinting with radial distribution functions and finding space groups with the SPGLIB tool. This work overviews MAISE’s available features, constructed models, and confirmed predictions.
DOI: 10.17632/d8nwkm7p9p.1
title: Associations of observational and genetically determined caffeine intake with coronary artery disease and diabetes - GWAS summary statistics data files

description: GWAS summary statistics data files related to the article "Associations of observational and genetically determined caffeine intake with coronary artery disease and diabetes" by Said et al.
DOI: 10.17632/mn26mrb243.1
title: Ex situ and in situ data for endangered livestock breeds in Spain

description: The dataset consists of ex situ data and in situ data. Ex situ data was obtained via survey applied to 17 operating gene banks in Spain and relates to the reproductive genetic materials (semen doses) of 211 livestock breeds distributed across the gene banks. In situ data combines CENSUS information with linear regression techniques and relates to geographic distribution of Spanish autonomous livestock breeds (2009-2018), in situ population projections and extinction probabilities (2019-2060).
DOI: 10.17632/bvkvh8hrxd.1
title: Supporting Information for "Comparative life cycle assessment of two different SOFC-based cogeneration systems with thermal energy storage integrated into a single-family house nanogrid"

description: This dataset aims at facilitating the reproducibility and traceability of the results presented in the manuscript "Comparative life cycle assessment of two different SOFC-based cogeneration systems with thermal energy storage integrated into a single-family house nanogrid". It consists of two files. One file includes the full inventory realized for the LCA, while the second one includes the numerical results of the performed LCA, obtained by means of the following methods: RECIPE, CED, and IPCC. Furthermore, the second file presents additional plots not shown in the related manuscript.
DOI: 10.17632/xk68tw3kx6.1
title: Self-modelled versus skilled-peer modelled AO+MI effects on skilled sensorimotor performance_McNeill et al.

description: Data set represents processed data and associated output files for stage 2 registered report investigated the effect of two separate Action Observation+Motor Imagery (AO+MI) conditions on golf putting performance in a sample of skilled golfers, link to accepted stage 1 report published in the Psychology of Sport and Exercise here https://doi.org/10.1016/j.psychsport.2020.101683. Purpose of the study was to examine whether a self-modelled AO+MI condition would prove to be more effective than a peer-skilled-model AO+MI condition. Results demonstrate that both groups improve putting accuracy and precision significantly from baseline-post test (MRE_MEAN_OUTLIERSREMOVED and BVE variables) No significant differences between groups for putting accuracy or consistency. However significant difference between groups at post-test for club-path (direction, DIRECT variable) when baseline performance is controlled for as a covariate, with the self-modelled AO+MI condition demonstrating a club path that was significantly closer to zero degrees (indicative of better performance) that the AO+MI peer-skill-model condition. Based on these finding self-modelling may be a more effective method of implementing AO+MI conditions in skilled performers, but only for measures of performance which are easily observed in the observation video. Data included here is the processed data set upon which the analyses were conducted. Output files of analyses, and the experimental stimuli used for the peer-skilled-model condition.
DOI: 10.17632/vhm7zh5ssp.2
title: Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2. Hekman et al.

description: Raw imaging data and supplemental information for "Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2" by Hekman et al.