cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23796381.v1
title: Dataset 1: "Partitioning the biodiversity effects on productivity into density and size components"

description: DescriptionA dataset of an annual-palnt diversity experiment used in Tatsumi and Loreau (2023). Five species (<i>Arthraxon hispidus</i>, <i>Bidens pilosa</i>, <i>Digitaria ciliaris</i>, <i>Kummerowia stipulacea</i>, and <i>Persicaria longiseta</i>) were sown solely or in mixtures of two, three, or four species in planting pots. A total of 24 seeds (Pot ID #1-45) or 72 seeds (Pot ID #46-90) were sown per pot. The number of emerged seedlings were counted after 2 weeks of sowing. After a growing season, the number of live plants was counted. The plants were then harvested, dried, and weighed. The same dataset is also provided in the '<code>densize</code>' R package available at https://github.com/communityecologist/densize.Data structure<b>InitDens.csv</b>: Initial seed densities (seeds sown per pot) of each species in each pot, organized in a data frame with 90 rows (pots) and 5 columns (species). The other three data (FinalDens, FinalYield, and GermDens) follow the same format, with the pots and species arranged in the same order as in InitDens.<b>FinalDens.csv</b>: Final plant densities (plants survived per pot) of each species in each pot.<b>FinalYield.csv</b>: Final plant biomass (grams per pot) of each species in each pot.<b>GermDens.csv</b>: Seedling densities (seedlings emerged per pot) of each species in each pot.ReferencePlease cite this article when you use the dataset.Tatsumi S. and Loreau M. (2023) Partitioning the biodiversity effects on productivity into density and size components. <i>Ecology Letters</i> 26(11): 1963–1673.
DOI: 10.6084/m9.figshare.25828384.v1
title: Conserved arginine positions in 1403 Yeast OrthoGroups

description: This folder contains the underlying data used to generate the analysis of conserved arginine positions. y1000p_1403_OG_nuc_abbe.tar.gz - The 1403 orthogroups used to compare across species. This is the nuclear coding sequencesALL_ARG_1403_OG.edit.txt - The conserved arginine positions obtained from consensus alignment of each of the 1,403 orthogroup data
DOI: 10.6084/m9.figshare.7672034.v1
title: MOESM2 of Toxicity and neurotoxicity profiling of contaminated sediments from Gulf of Bothnia (Sweden): a multi-endpoint assay with Zebrafish embryos

description: Additional file 2: Table S7 . Method detection limits (MDLs) for the detected compounds in sediment samples. Table S8. Target compounds list, their log D values at pH 7 and the internal standard used for quantification. Table S10. Concentrations of detected compounds in sediments of Gulf of Bothnia.
DOI: 10.17632/ppxktx233y
title: Daily rainfall totals for western Uganda, 1983-2019

description: Western Uganda was divided into five rainfall regions in Diem et al. (2019), and daily rainfall totals for those regions are provided here. The data include unadjusted and adjusted versions of CHIRPS (Climate Hazards Group InfraRed Precipitation with Stations) and TAMSAT (Tropical Applications of Meteorology using SATellite and ground based observations) . Also included included is a geo-spatial file for the five rainfall regions. Diem, J. E., H. S. Sung, B. L. Konecky, M. W. Palace, J. Salerno, and J. Hartter, 2019: Rainfall characteristics and trends—and the role of Congo westerlies—in the western Uganda transition zone of equatorial Africa from 1983 to 2017. Journal of Geophysical Research: Atmospheres, 124, 10712–10729, https://doi.org/10.1029/2019JD031243.
DOI: 10.17632/v52b65yxny
title: Public Contracts for Engineering Services

description: In order to understand the effects of bidders’ strategy on contractual modification and consequently the performance of the contracts, this study used econometric methods and a unique database containing 5964 engineering service contracts signed by the public administration in Brazil. The results demonstrate the effects arising from the trade-off between low prices presented in the contractor's selection phase and the performance in the execution of the contract. By highlighting the role of competition, the study contrasts previous findings pointing to the positive effect of competition, when analyzed in isolation, on the performance of the contract, but associating the analysis of competition with a possible distortion brought about by the disqualification of competitors at very low prices.
DOI: 10.6084/m9.figshare.6269102.v1
title: RAAAP SPSS Syntax file - splitting

description: The RAAAP project surveyed Research Managers and Administrators from across the world, asking questions about why people became RMAs, why they stayed as RMAs, what skills they need for their jobs (soft and hard), what level of seniority they are, demographic information, and so on - overall up to 222 data points were collected from each respondent. This SPSS syntax file was developed to split the processed data into 15 linked datasets in help keep the data anonymous. The process is described in detail in the "RAAAP Data Cleansing Process" DOI:10.6084/m9.figshare.5948461
DOI: 10.17632/59jy9zpcjz
title: Cell Formation Cell layout and scheduling problem

description: Speed of robots (r and f value) /2/
Clearence between machines (G value)/1/

In these instances, the number of machines is set to 3, 7, 10, 15 and 20 respectively. A file is given for each machine.


Since these instances involve the different types of combinations (the number of machines, parts, routes and cells), they can be simply named intuitively. For example, the instance "3M5P2R2C" means that there are 3 machines, 5 parts, 2 routes and 2 cells. 2 test problems are generated for each properties. The instances with "3M5P2R2C'" is the second test problem for the related properties. 

In test problems, there has been 7 sheets. Sheet 1 is the O_(p,r) parameter. Sheet 2 is routes of parts considering the number of routes. For example, if there has been 2 routes the first row is the first route of part 1 and second row is the second route of part 1. Sheet 3 is the Cx_m and Cy_m values. Sheet 4 is the P_(p,r,s,m) values. Sheet 5 is the FL and FW values. Sheet 6 is for r and f values. Finally sheet 7 is the clearence value. 

102 test problems are generated.
DOI: 10.6084/m9.figshare.20063726.v2
title: The dark web trades wildlife, but mostly as drugs

description: Supporting data from publication "The dark web trades wildlife, but mostly as drugs"
DOI: 10.6084/m9.figshare.26866273.v1
title: Images and Annotations

description: This dataset contains images of the Asphalt, Subgrade, and Aggregate Base layers of a road. It also contains the annotation files for the road layers.
DOI: 10.6084/m9.figshare.21670862.v2
title: Raw Data_Predictors of Treatment Adherence in Patients with Centralized Low Back Pain.xlsx

description: 209 cases of patients receiving physical therapy for a chief complaint of centralized low back pain were retrospectively analyzed. Symptom duration, pain intensity, level of disability, the presence of an opioid prescription, and patient cost were assessed as predictors of treatment adherence. Patients who completed their prescribed plan of care were classified as adherent.
DOI: 10.6084/m9.figshare.27994095.v1
title: When Composite Likelihood meets Stochastic Approximation

description: A composite likelihood is an inference function derived by multiplying a set of likelihood components. This approach provides a flexible framework for drawing inferences when the likelihood function of a statistical model is computationally intractable. While composite likelihood has computational advantages, it can still be demanding when dealing with numerous likelihood components and a large sample size. This article tackles this challenge by employing an approximation of the conventional composite likelihood estimator based on a stochastic optimization procedure. This novel estimator is shown to be asymptotically normally distributed around the true parameter. In particular, based on the relative divergent rate of the sample size and the number of iterations of the optimization, the variance of the limiting distribution is shown to compound for two sources of uncertainty: the sampling variability of the data and the optimization noise, with the latter depending on the sampling distribution used to construct the stochastic gradients. The advantages of the proposed framework are illustrated through simulation studies on two working examples: an Ising model for binary data and a gamma frailty model for count data. Finally, a real-data application is presented, showing its effectiveness in a large-scale mental health survey. Supplementary materials for this article are available online, including a standardized description of the materials available for reproducing the work.
DOI: 10.17632/wymr463gt9
title: Raw Western Blot and PCR Gel 

description: Raw Western Blot and PCR Gel related to manuscript "Circular RNA circPLOD2 regulates pericyte function by targeting the transcription factor KLF4"; 
Simone Franziska Glaser 1,2,3, Andre Brezski 4,†, Nina Baumgarten 1,2,3,†, Marius Klangwart 1, Andreas W. Heumüller 1, Ranjan Kumar Maji 1,2,3, Matthias S. Leisegang 2,5, Stefan Guenther 2,3,6 Christoph M. Zehendner 1, David John 1,2,3, Marcel H. Schulz 1,2,3,#, Kathi Zarnack 4,#, Stefanie Dimmeler 1,2,3,#,*
1 Institute of Cardiovascular Regeneration, Center of Molecular Medicine, Goethe University, Frankfurt, 60590 Germany
2 German Center for Cardiovascular Research DZHK, partner site Frankfurt Rhine-Main Germany, 
3 Cardiopulmonary Institute, Goethe University Frankfurt, 60590 Germany
4 Buchmann Institute for Molecular Life Sciences (BMLS) & Institute of Molecular Biosciences, Goethe University Frankfurt, 60438 Germany
5 Institute for Cardiovascular Physiology, Goethe University Frankfurt, 60590 Germany
6 Bioinformatics and Deep Sequencing Platform, Max Planck Institute for Heart and Lung Research, Bad Nauheim, 61231 Germany
†, # contributed equally
* Lead contact

Original western blots of HIF1α (#14179; Cell Signaling; 1:1000) and GAPDH (#2118S; Cell Signaling; 1:1000). Proteins were isolated from human brain microvascular pericytes incubated under normoxic (21% O2, 5% CO2, 24 h) or hypoxic (1% O2, 5% CO2, 24 h) conditions. PageRuler Plus Prestained Protein Ladder (#26619; Thermo Scientific) was used; n=2
Orignal gel showing PCR products on total RNA from human brain microvascular pericytes with RNAse R (RNase R +) or without (RNase R -). circPLOD2 was amplified with specific primers across the back-splice junction. Linear PDGFR-β and VEGFA mRNAs were used as controls.
DOI: 10.6084/m9.figshare.25894639.v1
title: Unexpected absence of ribosomal protein genes from metagenome-assembled genomes

description: Source code for https://doi.org/10.1038/s43705-022-00204-6
DOI: 10.6084/m9.figshare.26889553.v1
title: Code and data for manuscript "Group discussions improve reliability and validity of rated categories based on qualitative data from systematic review"

description: The study trialed a method to assess inter-rater-reliability for data produced during a systematic literature review. The produced data was mainly of qualitative nature. Under the assumption, that group discussions are beneficial to improve rigor in thinking and detect errors and misclassifications, the impact of group discussion was tested for agreement rates before and after discussion in a parallel coding exercise with 5 people and 21 samples from the peer-reviewed literature on conservation science. Results showed a clear positive impact of discussions across all categories, and unintended error or misclassification due to oversight during reading as the main source of disagreements.
DOI: 10.6084/m9.figshare.5821314.v1
title: Dataset

description: Dataset LTBI agreement TST and QTF in cancer
DOI: 10.17632/gm2b6799j6
title: OpenNTP: Implementation of the S_N method in cartesian 2D geometry and the CP method in cylindrical and spherical 1D geometry

description: This paper presents the implementation of the discrete ordinates method (S_N) in 2D cartesian geometry and the collision probability method (CP) in cylindrical and spherical 1D geometry in OpenNTP code (Open Neutron Transport Package). This code is a pedagogical tool for computer analysis of nuclear reactors. Its main features are as follows: a free software with an open source, it solves the neutron transport equation to a few steady-state groups on a grid structured in one or two spatial dimensions with an isotropic and anisotropic dispersion source, and any new calculation method and algorithm would be easy to implement in this proposed code. Also, the code offers the possibility to calculate the main parameters of nuclear reactors such as the multiplication factor and the distribution of the scalar and angular neutron fluxes. Additional parameters, like the reaction rates, the pin power distribution and the boundary currents are also calculated. Moreover, a graphical user interface written in Python 3 programming language has been developed to simplify the use of OpenNTP. Some applications of the OpenNTP code have been compared on the one hand with the Monte Carlo OpenMC and MCNP6.1 codes and the WIMSD-5B lattice transport code, on the other hand. Numerical results are given to illustrate the accuracy of the OpenNTP code.
DOI: 10.6084/m9.figshare.18758435.v1
title: Distribution lme4.R

description: The R file to run the generalized linear mixed model using the lme4 package on the dataset that describes the distribution of Myzus persicae and Aulacorthum solani throughout greenhouses.
DOI: 10.6084/m9.figshare.28207904.v1
title: Data for "Juvenile salmonids traverse coastal meta-nurseries that connect rivers via the sea"

description: This data is described in detail in "Juvenile salmonids traverse coastal meta-nurseries that connect rivers via the sea," which will be published in Frontiers in Ecology and the Environment.
DOI: 10.6084/m9.figshare.6818813.v1
title: NIR individual complete dataset

description: Complete dataset with individuals per row for four different body patches. Information on NIR reflectivity, Visible reflectivity, environmental variables and body size. NOTE: Residuals presented for the relationship between visible and NIR reflectivity at the individual level, however, analyses in paper were done at the species level so that column was recalculated in each analysis using a different tree.
DOI: 10.6084/m9.figshare.7387130.v3
title: Generic Object Decoding

description: fMRI data for Horikawa & Kamitani (2017) "Generic decoding of seen and imagined objects using hierarchical visual features" Nat Common, https://www.nature.com/articles/ncomms15037.<br>
DOI: 10.4121/uuid:38dab37c-1179-495e-b357-0568b9aaaa7a
title: Gender classification of PA-100K dataset, a Pedestrian Attribute dataset

description: This dataset is based on the work of Liu et al and their paper "Hydraplus-net: Attentive deep features for pedestrian analysis". In our work, we structure the images for a gender classification task based on the gender attribute annotated. Moreover, we pre-process the images to a 75x75 dimension that can be used by pre-trained deep learning models.
DOI: 10.6084/m9.figshare.19780576.v1
title: Raw images for Figure 1, Figure 3, and Supplemental Figure 2.zip

description: Raw images of smFISH spots in wildtype and METTL3 KO arsenite-treated cells stained with PABP.
DOI: 10.17605/osf.io/9pe56
title: Adolescents' State Authenticity-Inauthenticity - Motivations in Friendship

description: Quantitative dataset: Adolescents experiences of state authenticity and state inauthenticity when socialising online with a friend - Motivations in Friendship. This SPSS dataset contains data from 130 adolescents 13-17 years of age living in Australia who completed an online survey in 2024. This dataset requires access to copyrighted scales to be able to understand the data. Please see the file license.txt for details.
DOI: 10.17632/hrrnjdcffy
title: Data for: Annually-resolved coral skeletal δ138/134Ba records: A new proxy for oceanic Ba cycling

description: Annual Ba/Ca ratios and Ba isotopic compositions in Porites corals.
DOI: 10.17632/rptzp8pxx4
title: Database of growth and survival of black scallop (Mimachlamys varia (Linnaeus, 1758)) in the Basque coast

description: This dataset presents the growth performance and survival of black scallops (Mimachlamys varia (Linnaeus, 1758)) reared at the two experimental sites for aquaculture studies in the Basque Country. As far as we know, this dataset is the result of the first trial of pectinids culture in the SE Bay of Biscay in offshore conditions. Two different growing systems were tested (cages and pots) at offshore waters (longline) and sheltered waters (raft). The culture lasted 447 days. The feasibility of cultivating black scallops was determined by the measurement of growth performance (shell height, wet body and tissue weight, Table “Growth”) and survival (Table “Survival”), together with the measurement of environmental variables (Table “Environmental variables”).
This work was supported by the Department of Economic Development, Sustainability and Environment, and Fisheries and Aquaculture Directorate of the Basque Government through ZAMBURI Project [European Maritime and Fisheries Funds 00008-INA2019-33].
DOI: 10.6084/m9.figshare.11551602.v1
title: Data for "Conservative and disruptive modes of adolescent change in human brain functional connectivity"

description: This dataset contains data which accompanies the paper "Conservative and disruptive modes of adolescent change in human brain functional connectivity" by František Váša, Rafael Romero-Garcia, Manfred G. Kitzbichler, Jakob Seidlitz, Kirstie J. Whitaker, Matilde M. Vaghi, Prantik Kundu, Ameera X. Patel, Peter Fonagy, Raymond J. Dolan, Peter B. Jones, Ian M. Goodyer, the NSPN Consortium, Petra E. Vértes* and Edward T. Bullmore* (2020).<br>This dataset contains four RData files. <br>Three of these are "specific" files containing fMRI functional connectivity (FC) matrices and participant demographics (which are specific to data denoising / analysis stream): <br>(i) main analysis: nspn.fmri.main.RData(ii) low-motion data: nspn.fmri.lowmot.RData(iii) global signal regression (GSR): nspn.fmri.gsr.RData<br>Each of the three specific files contains the following variables: "age" (participant ages)"fc" (functional connectivity matrices)"fd" (average frame-wise displacement)"id" (subject ID's)"sex" (participant sex)"site" (MRI scanner site).<br>There is an additional single "general" file containing important auxiliary variables: nspn.fmri.general.vars.RData.<br>The general file contains the following variables: "cort.map" (cortical maps used for relationships with maturational index)"nm" (region names - all 376 regions)"perm.id" (regional permutation ID's for spherical permutation [spin] test)"pos" (regional centroid coordinates)"cort.map.nm" (names of external cortical maps [in variable cort.map])"hcp.346.cort" (which of 346 retained regions are cortical)"hcp.346.subc" (which of 346 retained regions are subcortical)"hcp.drop.id" (which regions [in 1:376 = all cortical + all subcortical] are dropouts)"hcp.keep.id" (which regions [in 1:376 = all cortical + all subcortical] are retained)"nm.simple" (region names - "simple" format)"nm.subc" (subcortical names - single hemisphere, for subcortical plots)"nroi" (number of regions of interest, after dropout exclusion)"ve.id.subc" (id's of von economo classes, with subcortex [all 376 regions])"yeo.id.subc" (id's of yeo networks, with subcortex [all 376 regions]).<br>For further details regarding variables contained within these files, and for code used to perform analyses reported in the paper, please see the accompanying github code repository: https://github.com/frantisekvasa/functional_network_development and specifically the main analysis script - "nspn.fmri.R".
DOI: 10.6084/m9.figshare.14439242.v1
title: Ecopath with Ecosim (EwE) adjacency matrices

description: Adjacency matrices of the food webs we used for the paper we are in the process of submitting. <br><b>Information about these food webs</b>You can find more information about these food webs in the supporting information of Heymans et al. (2014). The enumeration of food webs is consistent with theirs. All these food webs have been generated following the Ecopath with Ecobase methodology. <br>We would like to thank Anett Hanny-Endrédi for helping us curate this dataset.<br><b>References</b> Heymans, J. J., Coll, M., Libralato, S., Morissette, L., & Christensen, V. (2014). Global patterns in ecological indicators of marine food webs: a modelling approach. <i>PloS one</i>, <i>9</i>(4), e95845.<br><br>
DOI: 10.6084/m9.figshare.17030705.v1
title: Text data of personal statement

description: Text data of personal statement by Japanese medical students who gave their consent to share the whole text.
DOI: 10.6084/m9.figshare.22709857.v1
title: <strong>Role of nutritional supplements on oral health in adults – A systematic review</strong>

description: This systematic review aimed to evaluate the role of nutritional supplements on oral health in the adult population.
DOI: 10.6084/m9.figshare.7946489.v1
title: gVCF_NA20832

description: 1000 Genomes gVCF mapped to hs37d5 for NA20832. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.17632/z4zsrdtwg7
title: Awareness of Modern Menstrual care devices and their use among University Students

description: Menstruation, a natural process experienced by half the population, is often surrounded by social stigma and limited information regarding menstrual care. Disposable products are the market leader, but newer options like menstrual cups and period underwear are gaining traction. University students, as they navigate personal health practices, could benefit from understanding these modern menstrual care devices (MCDs). This study investigates university students' awareness and use of MCDs. It explores their current menstrual care routines, knowledge of alternative options, and factors influencing their adoption of these devices. To assess menstrual product use among 322 university students (aged 18-25), a self-developed and validated questionnaire was employed. This questionnaire underwent a three-phase development process: first, a comprehensive literature review identified the key areas to be covered. Second, interviews with participants and consultations with experts (physiotherapists) helped create specific questionnaire items. Finally, the Delphi method ensured content validity by sending the questionnaire to nine experts for review.The study surveyed 322 female university students. Pads were the dominant product (94.1%), with challenges like changing them during college hours (45%). While menstrual cups (19.5%) and reusable pads (23.3%) had lower current usage, a majority (67.6%) expressed interest in their cost and environmental benefits. Lack of awareness (37.9%) was identified as a barrier, but a significant portion (77.6%) of students were interested in switching to MCDs. This study highlights the potential for MCD adoption among university students. Pads remain dominant, but interest in alternatives exists due to cost, sustainability, and comfort concerns. Addressing awareness and cultural barriers could promote wider use of MCDs.
DOI: 10.6084/m9.figshare.20988187.v2
title: Diversity on soil C and N, Canada national inventory data

description: Data and r code for <strong>Tree diversity increases decadal forest soil carbon and nitrogen accrual</strong>