cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1456227
title: Agricultural production and bird conservation in complex landscapes of the dry Chaco

description: The South American dry Chaco is a mosaic of woody vegetation and grasslands with high deforestation rates in recent decades. Considering forests and grasslands as the main natural habitats, we assessed the trade-offs between bird populations and agricultural production to compare the potential consequences of different land use strategies (‘sharing’, ‘sparing’, and intermediate) for populations of bird species sensitive to agriculture, while attaining a regional production target. We evaluated how populations responded to scenarios with different proportions of forest and grasslands, considering three reference states (100% forest, 80:20% and 50:50% forest and grasslands, respectively); and scenarios capable of meeting three after-farming scenarios, with land destined to reach a regional production target with three variations of forest:grasslands within spared land. We fitted curves to relate bird abundance to agricultural yield along a gradient of meat production intensity; and we classified bird species as ‘losers’ (if their populations were lower than the baseline population in the reference state, at any level of production) and ‘winners’ (if their current populations were higher than the baseline population). At the ‘current’ (c. 2010) level of regional agricultural production, we found a similar number of loser species maximized by land-sparing and land-sharing strategies; while intermediate strategies were the least favourable to balance production and bird populations. Under the most probable scenarios of increases in regional meat production, most loser bird species populations were maximized by a land-sparing strategy, suggesting that if meat production targets are going to increase in the region, this can be more efficiently achieved by combining well-protected forests and grasslands, and high-yielding mechanized agriculture (e.g. soybean). Our results highlight the importance of assessing all the important natural habitats (e.g. forests and grasslands) of a region to explore conservation strategies at a regional scale.
DOI: 10.6084/m9.figshare.22188277.v1
title: Embedded clustering to reflect the characteristics of wind power, photovoltaic power, and load based on multi-head self-attention

description: Actual data for 2018 somewhere else
DOI: 10.6084/m9.figshare.22898501.v1
title: mob_3d

description: 3 gene spatial transcriptomics data
DOI: 10.6084/m9.figshare.28123409.v1
title: anal_final.dta

description: The study investigates whether the subjective utility of goals driving farmers' technology choices influence technical efficiency, with objectives of improving allocation choices, and providing effective extension services.
DOI: 10.6084/m9.figshare.28916048.v1
title: Supplementary Data of Iwamori et al. 2025.csv

description: This file provides the supplementary data for the publication <i>Geofluid mapping reveals the connection between magmas, fluids, and earthquakes</i> by Iwamori et al. (2025), <i>Communications Earth & Environment</i>, https://doi.org/10.1038/s43247-025-02351-9. It includes the source data for seismic velocity and electrical conductivity structures, along with the inversion results presented in the paper.
DOI: 10.6084/m9.figshare.7717880.v1
title: Supplementary Material for: Loss of RUNX3 Immunoreactivity in Non-Neoplastic Rectal Mucosa May Predict the Occurrence of Ulcerative Colitis-Associated Colorectal Cancer

description: <b><i>Background/Aims:</i></b> Runt-related transcription factor (RUNX) 3 is a tumor suppressor whose expression is reduced in non-neoplastic rectal mucosa of patients with ulcerative colitis (UC) with coexisting colitis-associated cancer (CAC). We aimed to evaluate RUNX3 utility as a predictive marker for CAC using immunohistochemistry (IHC) for non-neoplastic UC mucosa. <b><i>Methods:</i></b> We retrospectively compared the RUNX3 expression detected by IHC between non-neoplastic rectal biopsy specimens from 20 cases with invasive cancer (CAC group) and 20 cases selected from 138 patients without CAC (non-CAC group) that were treated during the same period (2006–2017) and were matched for sex, duration, extension, and age. We validated the results using tissue microarrays (TMA) of 44 operated cases with CAC. The RUNX3 expression level was determined by calculating the percentage of RUNX3-positive-cells. <b><i>Results:</i></b> The RUNX3 expression was lower in the CAC than that in the non-CAC group (35.6 vs. 70.7%, <i>p</i> = 0.03). For a cutoff value of 58%, the sensitivity and specificity for predicting CAC were 75.0 and 70.0% respectively. The immunostaining results for the TMA showed the same trend; 74% of cases with CAC were negative for the RUNX3 expression. <b><i>Conclusion:</i></b> RUNX3 immunostaining of non-neoplastic mucosa is useful for identifying UC patients at a high risk of developing CAC.
DOI: 10.17632/bvfp9xdnsx
title: Patient data October

description: Most recent patient data
DOI: 10.17632/pxhhfrbs64
title: VEGF-Overexpression

description: Human dermal fibroblasts (Hu02) were transfected by pcDNA3.1(-)-VEGF vector. Following selecting fibroblast cells with hygromycin, recombinant cells were investigated in terms of VEGF expression by quantifying method. We used Real-Time PCR assay to quantitate gene expression of vascular endothelial growth factor from manipulated cells and represented VEGF overexpression.
DOI: 10.6084/m9.figshare.1513833.v1
title: Data from global structure search of sulfur clusters

description: Raw data (structures and energies) from global structure search of sulfur clusters. The search was carried out using an evolutionary algorithm as implemented in the USPEX code, with VASP as the calculator and energies within density-functional theory with the PBE exchange-correlation functional as the fitness criteria. This is supporting data for a study of the free energy of mixed sulfur vapours.
DOI: 10.6084/m9.figshare.26248163.v1
title: Supplementary Material for: Prediction of the Signaling Pathway in Polycystic Ovary Syndrome Using an Integrated Bioinformatics Approach

description: Objectives
The purpose of this study was to define the underlying biological mechanisms of PCOS utilizing the protein-protein interaction networks that were constructed based on the putative disease-causing genes for PCOS.
Design
No animals were used in this research because this study is an In-Silico studies which mainly uses softwares and online analysis tools.
Participants/Materials, Settings
Genes datasets related with PCOS were obtained from Genecard. 
Methods
The protein-protein interaction networks (PPIN) of PCOS were created using the String Database after genes related with PCOS were obtained from Genecard. After that, we performed an analysis of the hub-gene clusters extracted from the PPIN using the ShinyGO algorithm. In the final step of this research project, functional enrichment analysis was used to investigate the primary biological activities and signaling pathways that were associated with the hub clusters.
Results
The Genecard database provided the source for the identification of a total of 1072 potential genes related with PCOS. The PPIN that was generated by using the genes that we collected above contained a total of 82 genes and three different types of cluster interaction interactions. In addition, after conducting research on the PPIN with the shinyGO plug-in, 19 of the most important gene clusters were discovered. The primary biological functions that were enriched in the key clusters that were developed were ovarian stereoidogenesis, breast cancer pathway, regulation of lipid and glucose metabolism by AMPK pathway, and ovarian stereoidogenesis. The integrated analysis that was performed in the current study demonstrated that these hub clusters and their connected genes are closely associated to the pathogenesis of PCOS. 
Limitations
Several of the significant genes that were identified in this study, such as ACVR1, SMAD5, BMP6, SMAD3, SMAD4 and AMH. It is necessary to do additional research using large samples, several centers, and multiple ethnicities in order to verify these findings.
Conclusions
The integrated analysis that was performed in the current study demonstrated that these hub clusters and their connected genes are closely associated to the pathogenesis of PCOS. This information may possibly bring unique insights for the treatment of PCOS as well as the investigation of its underlying pathogenic mechanism.
DOI: 10.6084/m9.figshare.5367346.v1
title: Fig.5 (NL4.3 + DMEM or IFNa)

description: 2016.06.16 293Tclones NL4.3 DMEM & IFNa
DOI: 10.6084/m9.figshare.8038925
title: Dataset for: Optimal Transport, Mean Partition, and Uncertainty Assessment in Cluster Analysis

description: In scientific data analysis, clusters identified computationally often substantiate existing hypotheses or motivate new ones. Yet the combinatorial nature of the clustering result, which is a partition rather than a set of parameters or a function, blurs notions of mean and variance. This intrinsic difficulty hinders the development of methods to improve clustering by aggregation or to assess the uncertainty of clusters generated. We overcome that barrier by aligning clusters via optimal transport. Equipped with this technique, we propose a new algorithm to enhance clustering by any baseline method using bootstrap samples. Cluster alignment enables us to quantify variation in the clustering result at the levels of both overall partitions and individual clusters. Set relationships between clusters such as one-to-one match, split, and merge can be revealed. A covering point set for each cluster, a concept kin to the confidence interval, is proposed. The tools we have developed here will help address the crucial question of whether any cluster is an intrinsic or spurious pattern. Experimental results on both simulated and real datasets are provided.
DOI: 10.17632/9384yj4xg3
title: Net power output and thermal efficiency data for single and double flash cycles of Cerro Prieto geothermal power plants

description: The data presented below is the thermodynamic simulation and mathematical model development for the single and double flash cycles of Cerro Prieto geothermal power plants. For more insight into analysis thermodynamic, please see "thermodynamic simulation and mathematical model for single and double flash cycles of Cerro Prieto geothermal power plants". The datasets contained in this paper are thermodynamic simulations obtained in Aspen Hysys software, the data described represents the net power output and thermal efficiency for Cerro Prieto geothermal power plants, located in Mexicali, México. A single flash and double flash cycle have been selected for power generation at this facility. The single flash net power output and the thermal efficiency data includes eight main parameters: Well temperature (°C), Separator pressure (kPa), Condenser pressure (kPa), Turbine’s power (kW), Phase Fraction, Mass Flow (kg/h), Energy input (kW) and Energy output (kW). Whereas the double flash net power output and the thermal efficiency data includes eight main parameters: Well temperature (°C), High-pressure separator (kPa), Low-pressure separator (kPa), Condenser pressure (kPa), Turbine’s power (kW), Phase Fraction, Mass Flow (kg/h), Energy Input (kW) and Energy output (kW).
DOI: 10.17632/9ffz69hbcf
title: slavic data

description: VCF files used in research paper
DOI: 10.17632/gfjt8666gy
title: Data_set_of_solar_technoeconomic_analysis

description: Technical Requirements
Detail Estimate and Costing
DOI: 10.17632/x5wjzk6sjs
title: Emissivity_CO2-H2O_94500-values_EM2C

description: The dataset deposited here is a comprehensive set of total (spectrally-integrated) emissivity values relevant to oxy-fuel combustion and other applications with high concentrations of carbon dioxide (CO2) and/or pure water vapor (H2O).
The emissivity values are divided into 10 groups, corresponding to 10 chemical compositions at 1 atm (normal atmospheric pressure), representing various possible combinations of (H2O,CO2) gaseous mixtures, with molar ratios (R) or H2O:CO2 from 0.0 (pure CO2) to infinity (pure H2O). 
Each chemical composition is designated by the molar ratio (R), and is assigned one data file, with a plain text format (with the extension ".dat"), having a size of 326 kilobytes (kB).
For each chemical composition, the pressure-pathlength is varied as a geometric series from 0.01 atm.m to 50 atm-m, with a total of 90 values.
For each pressure-pathlength, the gas temperature is varied from 300 K to 2900 K, with a uniform increment of 25 K (a total of 105 temperatures).
Thus, there is a total of 94,500 emissivity values in the entire dataset (9,450 emissivity values for each of the 10 data files; corresponding to 90 pressure-pathlengths and 105 temperatures). 
The emissivity values are computed using the EM2C implementations of the statistical narrow band (SNB).
DOI: 10.25375/uct.7212143.v1
title: Solar Timeseries Data for Mini-Grids Hydrogen Project

description: Solar Data for the 18 sites modelled in the Mini-Grid Hydrogen Project. Observations include the following variables: outputdirectdiffusetemperature This data has been obtained from the CSIR
DOI: 10.6084/m9.figshare.20163654.v1
title: List of annotated genes on X-linked scaffolds with 'reproductive barrier' candidate SNPs from Restricted X chromosome introgression and support for Haldane's rule in hybridizing damselflies

description: Table referred to in the manuscript as Table S7
DOI: 10.6084/m9.figshare.22774088.v1
title: H3K36me2 ChIP-seq in immortalized <i>Nsd1</i><sup><em>flox/flox</em></sup> chondroprogenitor cells infected with Egfp or Cre virus.

description: We obtained <em>Nsd1</em><sup><em>flox/flox</em></sup> chondroprogenitor cells from newborn <em>Nsd1</em><sup><em>flox/flox </em></sup>mice, infected cells with SV40 lentivirus and passed through more than ten generations until they become immortalized cells. Then immortalized <em>Nsd1</em><sup><em>flox/flox</em></sup> chondroprogenitor cells then were infected with Cre lentivirus to achieve <em>Nsd1</em> knockout (Mutant) and cells infected with Egfp lentivirus as control. Then these two strains of cells carry on H3K36me2 ChIP-seq to detect H3K36me2 chromatin binding landscape after <em>Nsd1</em> knockout.
DOI: 10.6084/m9.figshare.4617886.v1
title: BARCS Academic Substance Use Data

description: Raw data used towards PLOS One Publication titled Longitudinal influence of alcohol and marijuana use on academic performance in college students
DOI: 10.6084/m9.figshare.7482179.v2
title: Table S1.xlsx

description: Major elements data of Site U1456 since 3.8 Ma
DOI: 10.17632/53tb7jwnpr
title: DATA VALUE OF INNOVATION AND PERFORMANCE

description: This data shown the role mediated value of innovation in the relation between innovation and performance.  Data collected from managers sharia micro finance in Indonesia with purposive sampling.
DOI: 10.17632/5dkvkbfzcs
title: Data for: Visualizing Community Structured Complex Networks

description: The datasets contain many famous complex networks and generated benchmarks, as well as some datasets collected from real-world websites. The Adjnoun Network (adj.gml) is an undirected network of common nouns and adjective adjacencies in the novel “David Copperﬁeld” by 19th century English writer Charles Dickens, seen in reference [13] in our paper. The Celegansneural data set (celegansneural.gexf) contains the graph of interconnections among the neurons in the C.elegans nematode [25]. The Bottleneck Dolphin Network (dolphins.gml) records the relationship and interactions between diﬀerent dolphins in New Zealand [26] and is a famous data set for community detection. The football club network (football.gexf) includes the American club members in universities and their connections, seen in reference [1]. The lesmis network records relationships around Les Mis´erables, a French historical novel by Victor Hugo, ﬁrst published in 1862, which is considered one of the greatest novels of the 19th century. The LFR2500 network (LFR2500_1.gexf) is the network generated by LFR. The Karate Club Network is a famous network for testing community detection [5]. The primary school network includes collected data of contacts between students and teachers in a primary school, seen in [28]. The file titled "primaryschool.gml" is complete data and the file titled "primaryschool120.gexf" is the network by removing the edge with contacts less than 120 seconds. The skill graph network (skillgraph.gexf) indicates how diﬀerent skills are connected in the resume. The network in the file titled "t2.gexf" records a propagation tree in Microblog. And the file titled "user.gexf" contains the user relationship network of the users involved in the information propagation.
DOI: 10.17632/r9kpz942sh
title: Supplement

description: DNA microarray based characterization and resistance phenotypes of clinical MRSA strains from animal hosts
DOI: 10.6084/m9.figshare.27922569.v1
title: Table S1-4

description: Lists of differentially expressed genes after the long and short protocols
DOI: 10.17632/cm59yssdmb
title: MCMC samples of high-temperature burst models of a cladding tube

description: This is a dataset of MCMC samples of high-temperature burst models under loss-of coolant accident conditions. Four Bayesian estimated models and their datasets are available. The posterior predictive distributions of the burst models can be calculated by using the dataset. In addition, 3D graphs of the posterior predictive distributions are also available, which enables you to check the 3D graphs from arbitrary positions and directions.
DOI: 10.17632/pt647jfn52
title: Jackfruit AgroVision: A Extensive Dataset for Jackfruit Disease and Leaf Disease Detection using Machine Learning

description: The JackfruitVision dataset is a comprehensive collection of annotated images of jackfruit leaves and fruits affected by various diseases. Designed for Machine Learning, Deep Learning, and Computer Vision applications, this dataset enables automated disease detection and classification. It supports tasks like image segmentation, multi-class classification, and transfer learning, making it valuable for researchers and agricultural AI solutions.
DOI: 10.17632/tt5vzfhc6j
title: Hydrodynamic parameters of semi-enclosed coastal systems in South America: compilation, location, and classification

description: This dataset provides information on key hydrodynamic parameters of Semi-Enclosed Coastal Systems (SECS) in South America, derived from a thorough literature review of over 500 peer-reviewed publications. A total of 898 SECS have been identified across the region, including deltas, estuaries, and coastal lagoons. The dataset is intended to offer a baseline for researchers, policymakers, and stakeholders interested in understanding the dynamics of SECS in South America and beyond. 

Included in the dataset is an XLS file containing the following parameters for all identified SECS in the continent:
-&gt; Name of the SECS or discharging river
-&gt; Coordinates of the SECS
-&gt; Discharging ocean basin

For SECS where information is available in the peer-reviewed literature, the dataset provides additional parameters, including:
-&gt; Mean freshwater discharge
-&gt; Monthly maximum freshwater discharge
-&gt; Monthly minimum freshwater discharge
-&gt; Mean sediment load
-&gt; Mean water depth
-&gt; Richardson number
-&gt; Stratification degree
-&gt; Spring tidal range
-&gt; Neap tidal range
-&gt; Form factor of the tide

References for all data sources are also included for traceability.

The information is distributed by countries in different sheets.

Additionally, the dataset indicates whether the SECS system is ephemeral and/or intervened by hardworks in the river mouth. It also includes the classification of SECS from 0 to 3 stars according to the knowledge of their dynamics. 

The dataset also includes a KML file with the location, name, and classification (from 0 to 3 stars) of all identified SECS, facilitating spatial analysis and visualization.
DOI: 10.6084/m9.figshare.11926278.v3
title: A Correction for Regression Discontinuity Designs With Group-Specific Mismeasurement of the Running Variable

description: When the running variable in a regression discontinuity (RD) design is measured with error, identification of the local average treatment effect of interest will typically fail. While the form of this measurement error varies across applications, in many cases the measurement error structure is heterogeneous across different groups of observations. We develop a novel measurement error correction procedure capable of addressing heterogeneous mismeasurement structures by leveraging auxiliary information. We also provide adjusted asymptotic variance and standard errors that take into consideration the variability introduced by the estimation of nuisance parameters, and honest confidence intervals that account for potential misspecification. Simulations provide evidence that the proposed procedure corrects the bias introduced by heterogeneous measurement error and achieves empirical coverage closer to nominal test size than “naive” alternatives. Two empirical illustrations demonstrate that correcting for measurement error can either reinforce the results of a study or provide a new empirical perspective on the data.
DOI: 10.6084/m9.figshare.24168963.v1
title: List of constitutive and developmentally-regulated replication domains; mouse (mm10)

description: Topologically associating domains are stable units of replication-timing regulation.<b>Pope BD</b>, Ryba T, Dileep V, Yue F, Wu W, Denas O, Vera DL, Wang Y, Hansen RS, Canfield TK, Thurman RE, Cheng Y, Gülsoy G, Dennis JH, Snyder MP, Stamatoyannopoulos JA, Taylor J, Hardison RC, Kahveci T, Ren B, <b>Gilbert DM.</b>Nature. 2014 Nov 20;515(7527):402-5. doi: 10.1038/nature13986.PMID: 25409831
DOI: 10.6084/m9.figshare.24582858.v1
title: Artifact to Accompany "33 Years of Mathematicians and Software Engineers: A Case Study of Proof Assistant Ecosystems"

description: As technical computing software, such as MATLAB and SciPy, has gained popularity, ecosystems of interdependent software solutions and communities have formed around these technologies.The development and maintenance of these technical computing ecosystems requires expertise in both software engineering and the underlying technical domain. The inherently interdisciplinary nature of these ecosystems presents unique challenges and opportunities that shape software development practices.Proof assistants, a type of technical computing software, aid users in the creation of formal proofs. In order to examine the influence of the underlying technical domain --- mathematics --- on the development of proof assistant ecosystems, we mined participant activity data from the code repositories and social channels of three popular proof assistants: Lean, Coq, Isabelle. Despite having a shared technical domain, we found little cross-pollination between contributors to the proof assistants. Additionally, we found that most long-term developers focused solely on technical work and did not participate in official social channels. We also found that proof assistant developers specialized into technical subfields. However, the proportion of specialists varied between ecosystems. We did not find evidence that these specialties contributed to fractures within the ecosystems. We discuss the implications of these results on the long-term health and sustainability of proof assistant ecosystems.This artifact contains the scripts and dataset that support an MSR 2024 article.