cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17909/3bxp-zt07
title: HST Observations of Dwarf Galaxies in Thygesen et al.
DOI: 10.6084/m9.figshare.20372172
title: Sleep Time Series Data

description: Simultaneous fMRI and EEG was measured for a total of 73 subjects EEG via a cap (modified BrainCapMR, Easycap, Herrsching, Germany) was recorded continuously during fMRI acquisition (1505 volumes of T2*-weighted echo planar images, TR/TE = 2080 ms/30 ms, matrix 64 × 64, voxel size 3 × 3 × 2 mm3, distance factor 50%; FOV 192 mm2) with a 3 T Siemens Trio (Erlangen, Germany). An optimized polysomnographic setting was employed (chin and tibial EMG, ECG, EOG recorded bipolarly [sampling rate 5 kHz, low pass filter 1 kHz] with 30 EEG channels recorded with FCz as the reference [sampling rate 5 kHz, low pass filter 250 Hz]. Scalp potentials measured with EEG allow the classification of sleep into 4 stages (wakefulness, N1, N2 and N3 sleep) according to the American Academy of Sleep Medicine (AASM) rules (54). Pulse oximetry and respiration were recorded via sensors from the Trio [sampling rate 50 Hz]) and MR scanner compatible devices (BrainAmp MR+, BrainAmpExG; Brain Products, Gilching, Germany), facilitating sleep scoring during fMRI acquisition. From the group of 63 subjects we selected a subgroup of 9 participants who remained awake throughout the complete duration of the scan. 15 subjects who reached stage N3 sleep (deep sleep) and contiguous time series of least 200 volumeswere selected for n3 state.
DOI: 10.6084/m9.figshare.20372202
title: Data availability Zhang et al Vaccinia virus BTB-Kelch proteins C2 and F3 inhibit NF-κB activation

description: Raw data for Zhang et al Vaccinia virus BTB-Kelch proteins C2 and F3 inhibit NF-κB activation
DOI: 10.6084/m9.figshare.20372202.v1
title: Data availability Zhang et al Vaccinia virus BTB-Kelch proteins C2 and F3 inhibit NF-κB activation

description: Raw data for Zhang et al Vaccinia virus BTB-Kelch proteins C2 and F3 inhibit NF-κB activation
DOI: 10.5287/bodleian:qa9ngxrzr
title: OscillTrack – Real-time neuronal oscillation tracking for closed-loop stimulation
DOI: 10.15482/usda.adc/1527768
title: Data from: Pre-inoculation water deficit effects on grapevine physiology, Xylella fastidiosa titers and Pierce's disease progression

description: Data are from three experimental trials examining pre-existing water stress on Xylella fastidiosa infections and possible associated shifts in host chemistry, including free sugar, amino acid, and phenolic compound measurements. Trials A and B were utilized in the manuscript, whereas Trial C was data from an experiment whereby the water stress treatment was not significant enough to affect plant physiology or bacterial progression (but included for completeness). Predawn water potentials and photosynthesis were provided for trial B to show methodology worked (and for trial C to show the failure to reach water stress).
DOI: 10.34740/kaggle/dsv/3985870
title: Elon Musk Tweets
DOI: 10.15482/usda.adc/1527769
title: Systemic production of grapevine phenolics in response to mixed infections by wood-colonizing fungi

description: This data is collected from two experiments, one in 2018 and one in 2019, that left untreated or inoculated grapevines with Diplodia seriata, Neofusicoccum parvum, Phaeomoniella chlamydospora, or mock-inoculated, and then two months later inoculated with one of the three pathogens. Grapevine stem phenolic levels were measured at the time of the second inoculation on a different branch, and comparisons were made between pathogen infected plants or those left non-inoculated. Lesion sizes of the second inoculations also were compared to examine the effects on the first inoculation on these. Lesion lengths were measured in mm, and all phenolic compound levels were measured in mg/g FW amounts.
DOI: 10.5281/zenodo.6903871
title: Momotus momota decontaminated gx

description: .
DOI: 10.5281/zenodo.6903870
title: Momotus momota decontaminated gx

description: .
DOI: 10.6084/m9.figshare.20372136.v1
title: S_tragus_fastQ129

description: fastQ files for individuals at site 129, 3 fastQ per individual. Larger two are the paired end reads and the smaller one is reads that could not be assigned to an end.
DOI: 10.6084/m9.figshare.20372136
title: S_tragus_fastQ129

description: fastQ files for individuals at site 129, 3 fastQ per individual. Larger two are the paired end reads and the smaller one is reads that could not be assigned to an end.
DOI: 10.5281/zenodo.6903883
title: Scolopax rusticola decontaminated gx

description: .
DOI: 10.5281/zenodo.6903882
title: Scolopax rusticola decontaminated gx

description: .
DOI: 10.6084/m9.figshare.20361855.v1
title: Supplementary Figures and Tables - Inflammatory Cytokines Rewire the Proinsulin Interaction in Human Islets - Tran et. al. 2022

description: <strong>Supplemental Figure 1.</strong> <strong>Protein levels for proinsulin and controls in lysate and media.</strong> A) Western blot analysis of expression in lysate and media; Vinculin, Indoleamine 2,3-Dioxygenase 1 (IDO1) and Guanylate Binding Protein 5 (GBP5) and proinsulin. Inset is second Western blot for proinsulin in media samples B) Intracellular proinsulin measured by ELISA and normalized to lysate GAPDH. <br> <strong>Supplemental Figure 2. Proinsulin IP analysis by SDS-PAGE and MS/MS</strong> A) Western blot and silver stain of proinsulin immunoprecipitations from human islets +/- cytokines. B) Total MS/MS counts from proinsulin AP/MS (blue) and IgG AP-MS of six human islets +/- cytokines. C) The total number of proteins identified by AP-MS in distinct islet samples labeled Exp. 6,7,10,13,14,15. For each islet sample there are four IP conditions: Untreated/proinsulin IP, Untreated/IgG IP, Cytokine treated/proinsulin IP, and Cytokine treated/IgG IP. Note that biological samples 13-15 each have two technical replicate MS runs each (R1 and R2). <br> <strong>Supplemental Figure 3. AP-Western validations for selected Proinsulin Interactors identified by AP-MS. </strong>Human islet lysates were immunoprecipitated with antibodies to proinsulin (or IgG), followed by Western blot for ERGIC1, Ataxin-2, ERDJ3, QSOX1, Calnexin, BiP and proinsulin. Men=Menadione, Cyto=Cytokines, M=Markers. <br> <strong>Supplemental Figure 4. Western blot for phospho-eIF2a and total eIF2a. </strong>Human islets, untreated (CON) or cytokine treated (CYTO) were immunoblotted for eIF2a phosphorylated at Ser51 (peIF2 a) and for total eIF2a. MIN6 cells treated with Thapsigargin (Tg) were used as a positive control for peIF2a. GAPDH served as a loading control. <br> <strong>Supplemental Figure 5. KIF2A versus Insulin expression in single human </strong>b<strong>-cells. </strong>For single-cell RNA-Seq data obtained from Gene Expression Omnibus Repository (accession number GSE83139) the normalized reads for insulin (INS), glucagon (GCG), and KIF2A were log2 transformed. We defined b-cell identity as cells with INS log2 normalized reads &gt;12 and with GCG log2 normalized reads &lt;10. By these criteria, 99 cells were chosen for visualization of plotted INS values overlaid with KIF2A values.
DOI: 10.5281/zenodo.6903927
title: Erythroxylum cataractarum zanfona 1

description: .
DOI: 10.5281/zenodo.6903926
title: Erythroxylum cataractarum zanfona 1

description: .
DOI: 10.6073/pasta/8e32f5ac574fe8964ad08dd97923e8ca
title: Entomological identification of the cadaver fauna of wolf and lynx carcasses in Germany between 2014-2021

description: The frequency of illegal killings of animals that are under special protection in Germany is continuously increasing. Especially the carnivores wolf and lynx are strongly threatened by humans. To counteract these developments, it is necessary to investigate and prosecute such offenses. An important clue for police investigations is the time of death of the deceased animal. Forensic entomology makes use of the knowledge of temperature-dependent development rates as well as succession patterns of necrophagous flies and beetles and to determine an approximate time of death. While the carcass fauna of other species as well as humans is well studied, the composition of insects on wolves and lynx worldwide has not yet been deciphered. The aim of this work is to investigate the carcass fauna of wolf and lynx. For this purpose, the species composition of insects from 70 wolf carcasses and 8 lynx carcasses was analysed with respect to different habitat types, decomposition stages, and seasons. This data set provides extensive knowledge of the arthropod fauna on wolf and lynx carcasses. The frequency of illegal killings of animals that are under special protection in Germany is continuously increasing. Especially the carnivores wolf and lynx are strongly threatened by humans. To counteract these developments, it is necessary to investigate and prosecute such offenses. An important clue for police investigations is the time of death of the deceased animal. Forensic entomology makes use of the knowledge of temperature-dependent development rates as well as succession patterns of necrophagous flies and beetles and to determine an approximate time of death. While the carcass fauna of other species as well as humans is well studied, the composition of insects on wolves and lynx worldwide has not yet been deciphered. The aim of this work is to investigate the carcass fauna of wolf and lynx. For this purpose, the species composition of insects from 70 wolf carcasses and 8 lynx carcasses was analysed with respect to different habitat types, decomposition stages, and seasons. This data set provides extensive knowledge of the arthropod fauna on wolf and lynx carcasses.
DOI: 10.6073/pasta/470a77c31c5f27b54edd1acd544e3c3b
title: Soil volumetric water content data from fifteen locations, 3 depths at each location, within the Tromble Weir experimental watershed at the Jornada Basin LTER site, 2010-ongoing

description: This data package contains 30-minute soil volumetric water content (VWC) data collected at fifteen locations along 3 transects (5 locations per transect) in the Tromble Weir Watershed area of the Jornada Basin in southern New Mexico, USA. At each location, soil sensors measure VWC at three depths, 5, 15 and 30 cm, in units of cubic meters of water per cubic meter of soil. These measurements are used to help quantify the water balance across the small experimental watershed. Values have been used to investigate groundwater recharge, soil infiltration rates, and to evaluate the performance of hydrologic models. This is an ongoing dataset that will be updated annually.
DOI: 10.6073/pasta/d2b8555e1ee94ff9df87947a04796908
title: Data for 'The value of shifting cultivation for biodiversity in Northeast India'

description: Shifting cultivation is a widespread land-use in many tropical countries that also harbours significant levels of biodiversity. Increasing frequency of cultivation cycles and expansion into old-growth forests have intensified the impacts of shifting cultivation on biodiversity and carbon sequestration. We assessed how bird diversity responds to shifting cultivation and the potential for co-benefits for both biodiversity and carbon in such landscapes to inform carbon-based payments for ecosystem service (PES) schemes. We conducted this study in Nagaland, Northeast India. We surveyed above-ground carbon stocks and bird communities across various stages of a shifting cultivation system and old-growth forest using composite carbon sampling plots and repeated point counts directly overlaying the carbon plots in both summer and winter. We assessed species diversity using species accumulation and rarefaction curves based on Hill numbers. We fitted a linear mixed-effect model to assess the relationship between species richness and fallow age. We also examined possible co-benefits between carbon and biodiversity from fallow regeneration in terms of relative community similarity to old-growth forest across carbons stocks. Farmland and secondary forests regenerating on fallowed land had similar bird species richness to old-growth forests in summer and relatively higher species richness in winter. Within regenerating fallows, we did not find any strong evidence that fallow age influenced bird species richness. Bird community resemblance to old-growth forest increased with secondary forest maturity, correlating also with carbon stocks in summer. However, bird community assemblage did not show a strong association with habitat types and carbon stocks during winter. This study underscores the important role of traditional non-intensive shifting cultivation in providing refuges for biodiversity within heterogeneous habitat mosaics. Effectively managing these landscapes is crucial for both biodiversity conservation and carbon sequestration in the subtropics.
DOI: 10.15151/esrf-es-866421330
title: FInnish National Protein Crystallography Consortium

description: The Finnish BAG encompasses 25 groups active in crystallography in Finland. The projects vary widely and include membrane proteins such as membrane pyrophosphatases, and various protein complexes and receptors (growth factor receptors, integrins), signaling proteins such as kinases, other proteins involved in disease and antibiotics development (neuronal adhesion and myelin proteins, PP2A, ADP-ribosylation and biocatalytic enzymes) and several pathogen proteins (e.g. viral proteins) and various enzyme targets and e.g. studies on phytochrome photoreceptors and complexes involved in actin and cytoskeleton dynamics and regulation. Overall the BAG serves the national needs for highly variable projects, with different biological and biotechnological applications. Several project will benefit from microfocus beam lines and tunable wavelength options for phasing, others benefit from quick robust screening by MASSIF. Biology lab is needed for SAXS experiments.
DOI: 10.15151/esrf-es-879269482
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from iRTSV/CEA (Grenoble), CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study structure-function relationships of proteins emphasizing in human health, biotechnology and methodology. Most of the projects are a continuation of the MX-2329 proposal and can be grouped in different topics as follows: host-pathogen interaction, new drug targets, fundamental cellular mechanisms, membrane proteins, intrinsically disordered proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, SAXS, NMR (and cryo-EM), together with other biophysical studies) with the aim to fully understand the complexity of the biological macromolecular systems on study. Some teams are dedicated to serial crystallography and its developments, for which the ESRF-EBS has become the perfect tool.
DOI: 10.6073/pasta/45a1f16b3d8ecd0585a2d2e115c07d41
title: Long-term growth, mortality and regeneration of trees in permanent vegetation plots in the Pacific Northwest, 1910 to present

description: A network of more than 130 permanent vegetation plots provides long-term information on patterns and rates of forest succession in most of the major forest zones of the Pacific Northwest. The plot network extends from the coast to the Cascades in western Oregon and Washington and east to ponderosa pine forests in the Oregon Cascades. Most of the permanent plots were established during two intervals: from 1910 to 1948, and from 1970 to 1989. The earlier plots were established by U.S. Forest Service researchers to quantify timber growth in young stands of important commercial species and to help answer other applied forestry questions. The more recent period of plot establishment began under the Coniferous Forest Biome program of the International Biological Program during the 1970s, and continued under the Long-term Ecological Research program. A broader set of objectives motivated plot establishment since 1970, especially quantification of composition, structure, and population and ecosystem dynamics of natural forests. Plots have one of three spatial arrangements: (1) contiguous rectangles subjectively placed within an area of homogeneous forest; (2) circular plots subjectively placed within an area of homogeneous forest; and (3) circular plots systematically located on long transects to sample an entire watershed, ridge, or reserve. Rectangular study areas are mostly 1.0 ha or 0.4 ha (1.0 ac) in size (slope-corrected). Circular plots are 0.1 ha (0.247 ac), not corrected for slope. The tree stratum is the focus of work in closed-forest study areas. All trees larger than a minimum diameter (5 cm for most areas) are permanently tagged. Plots are censused every 5 or 6 years. Attributes measured or assessed at each census include tree diameter, tree vigor, and the condition of the crown and stem. The same attributes are recorded for trees (ingrowth) that have exceeded the minimum diameter since the previous census. In many plots tree locations are surveyed to provide a plot-specific x-y location. A mortality assessment is done for trees that have died since the previous census. The assessment characterizes rooting, stem, and crown condition, obvious signs of distress or disturbance, and the apparent predisposing and proximate causes of tree death.
DOI: 10.34740/kaggle/dsv/3985927
title: 3d Lung Nodule Classification Data pfe2
DOI: 10.5281/zenodo.6903960
title: Molva macrophthalma decontaminated gx

description: .
DOI: 10.5281/zenodo.6903959
title: Molva macrophthalma decontaminated gx

description: .
DOI: 10.5281/zenodo.5703322
title: Canadian Wildfire Evacuation Data

description: Database of wildfire evacuations across the forested regions of Canada from 1980 to 2019. The database provides the data evaluated in the publication titled, “Wildfire evacuation patterns and syndromes across Canada’s forested regions,” which was submitted to Ecological Applications in November, 2021. The data file provides information on each documented wildfire evacuation and the characteristics of the fire that most likely led to the evacuation. The information on wildfire evacuations includes the location, the estimated population, whether it is a First Nations reserve, the estimated number of evacuess in five broad categories, the date that the evacuation order was issued, the date the order ended, and the reason why the order was issued. This information was compiled from more than 2,000 news reports, which were found using keyword searches in the Canadian Reference Centre, Canadian Newsstand, Canadian Research Index, Canadian Business and Current Affairs, and Proquest. Additional data were acquired by contacting provincial and territorial emergency management agencies and the Royal Canadian Mounted Police, as described in Beverly and Bothwell (2011; Wildfire evacuations in Canada 1980-2007; Natural Hazards 59:571-596). The fire characteristics include the fire size, ignition source, day of year on which it was first reported, and the database from which these values were derived. The databases for the original fire data include the National Burned Area Composite (NBAC), the National Fire Database (NFDB) fire polygon data, and the NFDB fire point data. The fire databases are available to the public at the CWFIS datamart (https://cwfis.cfs.nrcan.gc.ca/datamart).
description: The database was updated and revised under funding from two grants to the Canadian Safety and Security Program (CSSP-2016-CP-2286 and CSSP-2018-TI-2406), awarded to Xianli Wang.
DOI: 10.5281/zenodo.6903968
title: IDE Action Log Dataset from a CS1 MOOC

description: This is a a dataset containing Integrated Development Environment (IDE) logs from an introductory programming MOOC. The dataset contains information on when actions in the IDE were performed in relation to deadlines over the different parts of the course. One exceptional aspect of the dataset is that part of the logs have been gathered at the keystroke level, allowing for fine-grained insight into the learning process. In addition to the IDE logs themselves, the dataset has information on whether students included in the data passed the course. This can facilitate further research that analyzes how time-related behavior relates to performance in introductory programming courses.
DOI: 10.5281/zenodo.6903967
title: IDE Action Log Dataset from a CS1 MOOC

description: This is a a dataset containing Integrated Development Environment (IDE) logs from an introductory programming MOOC. The dataset contains information on when actions in the IDE were performed in relation to deadlines over the different parts of the course. One exceptional aspect of the dataset is that part of the logs have been gathered at the keystroke level, allowing for fine-grained insight into the learning process. In addition to the IDE logs themselves, the dataset has information on whether students included in the data passed the course. This can facilitate further research that analyzes how time-related behavior relates to performance in introductory programming courses.
DOI: 10.6084/m9.figshare.20372274
title: supporting data for Hemp Shives MC publication

description: File contains RStudio scripts and raw data used in the study, and also supplementary information word file
DOI: 10.6084/m9.figshare.20372274.v1
title: supporting data for Hemp Shives MC publication

description: File contains RStudio scripts and raw data used in the study, and also supplementary information word file
DOI: 10.6084/m9.figshare.20372118
title: Simulated Early Type Galaxies

description: We created various ensemble simulated images, to extensively test various aspects of GALPHAT under a variety of circumstances: (1) varying $r_{e}$ and the shape parameter $n$ as a function of S/N and PSF FWHM (Ensemble A); (2) varying the position angle (PA) and $n$ as function of PSF FWHM, and assuming typical values for $r_{e}$, $q$ and S/N (Ensemble B); (3) varying the axis ratio $q$ as function of PSF FWHM, $n$ and considering typical values for S/N and $r_{e}$ (Ensemble C); (4) varying $n$ and PSF FWHM, for a comparison between GALPHAT and GALFIT (Ensemble D); (5) galaxies with a real distribution of ETG structural parameters based on the SPIDER project (Ensemble E); and (6) galaxies with central point sources to test the Bayes-factor model classification as a indicator of nuclear activity assuming typical PSF FWHM and S/N (Ensemble F). <br> [1]La Barbera, F., de Carvalho, R. R., de La Rosa, I. G., Lopes, P. A. A., Kohl-Moreira, J. L., and Capelato, H. V., “SPIDER - I. Sample and galaxy parameters in the grizYJHK wavebands”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 408, no. 3, pp. 1313–1334, 2010. doi:10.1111/j.1365-2966.2010.16850.x <br> <br>
DOI: 10.6084/m9.figshare.20372286
title: Raw Data - Fasting Paper

description: This data set is from a clinical trial of a fasting intervention vs a standard care control
DOI: 10.6084/m9.figshare.20372286.v1
title: Raw Data - Fasting Paper

description: This data set is from a clinical trial of a fasting intervention vs a standard care control