cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5863776.v1
title: Broad Institute Cancer Dependency Map, CRISPR Avana dataset 18Q1 (Avana_public_18Q1)

description: Avana_public_18Q1 contains the results of screening 391 cancer cell lines with the Avana CRISPR-Cas9 genome-scale knockout library generated as part of the Broad Institute's Cancer Dependency Map project. <br>As our screening efforts continue, we will be releasing additional cancer dependency data on a quarterly basis for unrestricted use. For the latest datasets available, further analyses, and to subscribe to our mailing list visit https://depmap.org.<br>The previous dataset, avana_public_17Q4 is available at https://figshare.com/articles/Broad_Institute_Cancer_Dependency_Map_CRISPR_Avana_dataset_17Q4/5520160. Descriptions of the experimental methods and the CERES algorithm are published in http://dx.doi.org/10.1038/ng.3984.<br>Avana_public_18Q1 includes the results of 51 lines not previously made public, while the previously published line G401 has been dropped for insufficient separation of positive and negative controls under new QC protocols. Additionally, avana_public_18Q1 includes inferred probabilities of dependency for each gene in each cell line, as described in the README. File, row, and column name conventions have been standardized and will remain constant in future releases (other than occasional changes to the columns present in sample_info).<br>
DOI: 10.6084/m9.figshare.878028.v1
title: Iris DataSet

description: Iris dataset in json format
DOI: 10.17632/3zczxwy9ss
title: Non-cognitive Skills and Earnings of Informal Workers in China

description: This is the replication package for the paper entitled "Non-cognitive Skills and Earnings of Informal Workers in China".
DOI: 10.17632/5rz5497n8c
title: Data for: Designs of Control Rods with Strong Absorption Ability for Small Fast Reactors

description: The properties of boron carbide, hafnium diboride, and hafnium hydride.
DOI: 10.6084/m9.figshare.12253085.v1
title: Assembly and regulation of the chlorhexidine specific efflux pump AceI

description: Raw Mass Spectrometry data for main figures and supplementary figures for the journal article "Assembly and regulation of the chlorhexidine-specific efflux pump AceI".
DOI: 10.21954/ou.rd.8026223.v1
title: ChemCam LIBS data corrected to 100 wt% totals of the first Bagnold Dune campaign

description: This dataset includes all ChemCam observation point major element data that sampled the Bagnold dune field in the first campaign (sols 1155 to 1239). It also includes the major element oxide data corrected to 100% total sum of oxides used in Bedford (2019) thesis chapter 4.<br><br>This dataset excludes calibration targets and observation point analyses outside the total sum of oxide range 80-105 wt%. <br>
DOI: 10.6084/m9.figshare.27178776.v1
title: <b>BAY 41-8543 and BAY 73-6691</b>

description: sGC stimulator combined with PDE9 inhibitor attenuated renal fibrosis in 5/6 nephrectomized rats by down-regulating fibrosis-related gene expression. This novel approach of using low-dose combination therapies to minimize side effects while maintaining therapeutic efficacy offers a promising strategy for the treatment of CKD. It highlights the critical role of changes in gene transcription as an early marker of treatment effectiveness.
DOI: 10.6084/m9.figshare.14071301.v1
title: An updated global dataset of phosphorus addition experiments in natural terrestrial ecosystems

description: The dataset is an extension of our previously published dataset in the forests, grasslands, and tundra (Hou et al. 2019, 2020). Our previous dataset included only the latest measurement of plant response to the highest level of P-addition in each experiment to avoid pseudoreplication in studying the global distribution and magnitude of P limitation (Hou et al. 2020). In this dataset, we included time series of plant response to all levels of P-addition in each experiment to explore how experimental duration and P-addition quantity would affect P-addition effect both at individual sites and across sites. We used the study site as a clustering variable in our statistical analyses to account for the dependence among multiple observations of plant response to P additions at a site. Observations of community-level leaf P and N concentrations and N:P mass ratio were collected and added to this dataset to explore the consistency between them and P-addition experiments in indicating latitudinal gradient in P limitation. <br><br><br>References<br>Hou, E., Luo, Y., Kuang, Y., Chen, C., Lu, X., Jiang, L. et al. (2019). A global dataset of phosphorus addition experiments in terrestrial ecosystems. Retrieved from: https://doi.org/10.6084/m9.figshare.8969963<br>Hou, E., Luo, Y., Kuang, Y., Chen, C., Lu, X., Jiang, L. et al. (2020). Global meta-analysis shows pervasive phosphorus limitation of aboveground plant production in natural terrestrial ecosystems. Nature Communications, 11, 637.<br>
DOI: 10.6084/m9.figshare.17019077.v3
title: Circulating MicroRNA Profiles as Potential Biomarkers for differentiated thyroid cancer recurrence: Supplementary Material

description: Circulating microRNAs in recurrent thyroid cancer<br>
DOI: 10.6084/m9.figshare.5235961
title: GeoHive Administrative Boundaries Dataset

description: This dataset contains ontologies, full dump of the administrative boundary dataset (in NQUADS) of data.geohive.ie, and metadata about the dataset using VOID. Data are derived from Ordnance Survey Ireland (OSi), Ireland’s national mapping agency.<br><b>fulldump.nq</b> - full dump of the rdf administrative boundary dataset in N-Quads, a line-based, plain text RDF format.<b>osi_prov.rd</b>f - OSi Provenance Ontology in RDF format<b>osi_voc.rdf </b>- OSi Boundary Ontology in RDF format<b>fulldumpmetadata.ttl</b> - metadata in Terse RDF Triple Language describing the full dump of the rdf administrative boundary dataset.<br>All data files can be accessed through openly-available text edit software. URIs resolve to either HTML pages or RDF serialization by means of content negotiation.<b><br></b><b>Background:</b>Data.geohive.ie aims to provide an authoritative service for serving Ireland’s national geospatial data as Linked Data. The service currently provides information on Irish administrative boundaries and the boundaries used for the Irish 2011 census. The service is designed to support two use cases: serving boundary data of geographic features at various level of detail and capturing the evolution of administrative boundaries. In the associated paper, we report on the development of the service and elaborate on some of the informed decisions concerned with the URI strategy and use of named graphs for the support of aforementioned use cases – relating those with similar initiatives. <br>
DOI: 10.6084/m9.figshare.10321880.v1
title: Supplemental data for "Collapsing dubiously resolved gene-tree branches in phylogenomic coalescent analyses"

description: Supplemental data for "Collapsing dubious gene-tree branches in two-step coalescent analyses of phylogenomic datasets"
DOI: 10.6084/m9.figshare.14821644.v1
title: Data and code for analyses in "Protected areas slow declines unevenly across the tetrapod tree of life"

description: Data and code for analyses in "Protected areas slow declines unevenly across the tetrapod tree of life"
DOI: 10.6084/m9.figshare.27283833.v1
title: Fourier Amplitude Spectra (S-waves) of earthquakes in Greece.

description: This data set of Fourier Amplitude Spectra (FAS) is used in the study of estimation of Site Amplification Factors (SAFs) of Horizontal component to improve seismic hazard assessment, as these factors play an important role in seismic site response. Towards this effort, the subsurface structure and the related amplification effects of two accelerometer stations in Greece were acquired, examining their use as reference stations. This was achieved by computing the Vertical-to-Horizontal spectral ratio corresponding to the depth of the seismological bedrock and comparing it with the theoretical value of ~0.76 for seismological reference stations, according to the Diffuse Field Concept for earthquakes (DFCe), in case of a Poisson solid. Thereafter, the two selected reference stations were used in Generalized Inversion Technique (GIT) to appropriately calculate the Horizontal and Vertical Spectral Amplification Factors (HSAF and VSAF, respectively) for a total of 151 accelerometer stations in Greece. The Vertical Amplification Correction Functions (VACFs) which in fact are the VSAFs for each site, were used to estimate a mean representative VACF in Greece for assessing horizontal site amplification based on Horizontal-to-Vertical Ratio of earthquake (eHVSR), where it is available, contributing thus to site specific seismic hazard assessment in regions where there is lack of observed Standard Spectral Ratios amplifications with an adjacent rock or borehole reference site (i.e. SSRs or SBRs). Simulated HSAFs were calculated, from the eHVSRs and VACFs, for sites out of the examined dataset for the frequency range 0.3-15 Hz, in order to evaluate the proposed VACF.
DOI: 10.17632/t79579r9rn
title: Modeling of Steam-Foam Flooding in Mecca Lease Field in Kern River California

description: This dataset has been used to present modeling of hybrid thermal recovery in a heavy oil reservoir using steam-foam method. The main mechanism is to control the mobility of steam and deliver proper amount of heat to reservoir in order to reduce oil viscosity. The results illustrated that a considerable increase in oil recovery is obtained when steam-foam is used. It is also observed that foam parameters, which was used in modeling, affects oil recovery, reservoir temperature, pressure, and gas saturation. Optimized foam parameters were determined using oil recovery, reservoir temperature, and average reservoir pressure. Finally, simulations revealed that field and simulation results were in good agreement with the field data, and that steam-foam oil recovery method has the potential to become a promising oil recovery method for heavy oil reservoirs.
DOI: 10.17632/8933v9nb62
title: Occurrence and landscape habitat properties of Chrysina argenteola in Ecuador

description: Recent reports of drastic declines in insect populations have raised global concerns about their conservation. Light pollution is a near inseparable feature of human-altered landscapes and is a potential contributing factor to insect declines. However, despite the wide recognition of the deleterious effects of lights on insects, whether these effects scale up to impact insect populations remains unclear. Here, we relied on a combination of ecological niche modeling, geographical information systems, and interviews on local ecological knowledge to assess the synergistic effects of landscape light pollution and habitat loss and fragmentation on populations of the Chocó golden scarab Chrysina argenteola. Sightings of C. argenteola by locals revealed individuals are scarcer in areas with reduced forest cover and rely on inter-patch dispersal to cope with habitat fragmentation, where they were constantly attracted to urban lights. Increasingly lit landscapes had more individuals attracted to lights, but the opposite was true in areas with less than 4 km2 of remaining forest cover. We suggest this pattern arises as landscape light pollution intercepts individuals during inter-patch dispersal. This hinders habitat connectivity, potentially disrupting metapopulation dynamics, being populations inhabiting areas with scarce fragmented habitat more vulnerable to this process. We show light pollution acts in combination with habitat loss and fragmentation in detriment of insect populations at the landscape scale.
DOI: 10.6084/m9.figshare.11836698.v1
title: Large-scale geographical variations and climatic controls on crown architecture traits

description: Trees under different environmental conditions can show vast diversity in crown architectures. Understanding patterns and proximate causes of such diversity is a central question in plant ecology, with important implications for predicting future vegetation dynamics with climate change. Here, we combined the cutting-edge terrestrial laser scanning technology and field measurements to investigate the role of crown architecture in the evolutionary strategy development of <i>Quercus mongolica</i> trees in northern China with large climate gradients. Our findings provide new insights on the hypothesis of how crown architecture traits coordinated with trunk and leaf traits to balance the light and water demands of a tree, and highlight the significance of long-neglected crown architecture in tree evolutionary strategy, with important implications in future vegetation dynamic prediction studies. The uploaded datasets include the data for Figure 4-8, Figure S2 and Figure S4 in the paper.
DOI: 10.6084/m9.figshare.1314459.v7
title: Portal Project Teaching Database

description: The Portal Project Teaching Database is a simplified version of the Portal Project Database designed for teaching. It provides a real world example of life-history, population, and ecological data, with sufficient complexity to teach many aspects of data analysis and management, but with many complexities removed to allow students to focus on the core ideas and skills being taught. The database is currently available in csv, json, and sqlite. This database is not designed for research as it intentionally removes some of the real-world complexities. The original database is published at Ecological Archives(http://esapubs.org/archive/ecol/E090/118/) and this version of the database should be used for research purposes. The Python code used for converting the original database to this teach version is included as 'create_portal_teach_dataset.py'. Suggested changes or additions to this dataset can be requested or contributed in the project GitHub repository(https://github.com/weecology/portal-teachingdb).
DOI: 10.6084/m9.figshare.27613470.v4
title: Supplementary Files associated with manuscript: "<b>Consistent microbial insights across sequencing methods in soil studies: The role of reference taxonomies"</b>

description: The datasets are supplementary files associated with the paper titled "<b>Consistent</b><b> microbial insights across sequencing methods in soil studies: The role of reference taxonomies"</b><b>The team that worked on this immense project gives you access to this data. As such, remember to cite the paper and this dataset whenever this data is reused.</b>
DOI: 10.6084/m9.figshare.5123191.v1
title: Supplementary Material for: Co-Occurrence of Addictive Behaviours: Personality Factors Related to Substance Use, Gambling and Computer Gaming

description: <i>Aim:</i> To investigate co-occurrence and shared personality characteristics of problematic computer gaming, problematic gambling and substance use. <i>Methods:</i> Cross-sectional survey data were collected from 2,553 German students aged 12–25 years. Self-report measures of substance use (alcohol, tobacco and cannabis), problematic gambling (South Oaks Gambling Screen – Revised for Adolescents, SOGS-RA), problematic computer gaming (Video Game Dependency Scale, KFN-CSAS-II), and of twelve different personality characteristics were obtained. <i>Results:</i> Analyses revealed positive correlations between tobacco, alcohol and cannabis use and a smaller positive correlation between problematic gambling and problematic computer gaming. Problematic computer gaming co-occurred only with cannabis use, whereas problematic gambling was associated with all three types of substance use. Multivariate multilevel analyses showed differential patterns of personality characteristics. High impulsivity was the only personality characteristic associated with all five addictive behaviours. Depression and extraversion were specific to substance users. Four personality characteristics were specifically associated with problematic computer gaming: irritability/aggression, social anxiety, ADHD, and low self-esteem. <i>Conclusions:</i> Problematic gamblers seem to be more similar to substance users than problematic computer gamers. From a personality perspective, results correspond to the inclusion of gambling in the same DSM-V category as substance use and question a one-to-one proceeding for computer gaming.
DOI: 10.6084/m9.figshare.7468505.v2
title: Use of colony-stimulating factor primary prophylaxis and incidence of febrile neutropenia from 2010 to 2016: a longitudinal assessment

description: <b>Background:</b> Guidelines recommend primary prophylactic use of colony-stimulating factor (PP-CSF) when risk of febrile neutropenia (FN) – based on chemotherapy and patient risk factors – is high. Whether and how PP-CSF use may have changed over time (e.g. due to guideline revisions, increasing use of myelosuppressive regimens, controversy regarding inappropriate CSF use), and whether there has been a concomitant change in the incidence of FN, is unknown. <b>Methods:</b> A retrospective cohort design and data from two US healthcare claims repositories were employed. The study population included patients who had non-metastatic cancer of the breast, colon/rectum, lung or ovaries, or non-Hodgkin’s lymphoma (NHL), and who received myelosuppressive chemotherapy regimens with an intermediate/high risk for FN. For each patient, the first cycle of the first course was characterized in terms of PP-CSF use and FN episodes. Crude incidence proportions for PP-CSF and FN during the first cycle were estimated by calendar quarter (2010–2016); multivariable logistic regression models were used to estimate quarter-specific adjusted mean probabilities of FN by PP-CSF use. <b>Results:</b> The study population totaled 142,730 patients with breast cancer (61%), colorectal cancer (14%), NHL (11%), ovarian cancer (10%) or lung cancer (5%). PP-CSF use increased from 52% in 1Q2010 to 58% in 4Q2016; pegfilgrastim was the most commonly used agent (&gt;96% across quarters). PP-CSF administration on the same day as chemotherapy ranged from 8 to 11% until 1Q2015, and increased to 64% by 4Q2016. Adjusted incidence proportions for FN in the first chemotherapy cycle ranged from 2.7% (95% CI: 2.3–3.0) to 3.7% (95% CI: 3.1–4.3) among those who did not receive PP-CSF, and was 2.6% (95% CI: 2.5–2.7) across quarters among those who received PP-CSF. <b>Conclusions:</b> Although the use of PP-CSF is commonplace in current US clinical practice, underutilization in cancer patients receiving chemotherapy regimens with an intermediate/high risk for FN may still be an issue. Use of same-day PP-CSF increased markedly from the end of 2015, although this finding reflects (at least in part) increased uptake of pegfilgrastim delivered via an on-body injector as well as the recent change in clinical practice guidelines. Overall, patients receiving PP-CSF appear to have a lower risk of FN during the first cycle of chemotherapy.
DOI: 10.6084/m9.figshare.12127434.v1
title: Topics for each Wikipedia Article across Languages

description: This dataset contains the predicted topic(s) for (almost) each Wikipedia article across languages. <br><br>Each row contains the following columns:<pre>Qid,topic,probability,page_id,page_title,wiki_db <br>Where: <br><br>* Qid: Wikidata Item Id<br>* topic: Topic based on the ORES draft topic model (https://www.mediawiki.org/wiki/Talk:ORES/Draft_topic) <br>* probability: Probability to belong to the topic<br>* page_id: page_id<br>* page_title: page_title<br>* wiki_db: wiki_db, for example for english Wikipedia is enwiki<br><br>For example<br>Q1000211,Geography.Regions.Europe.Western_Europe,1.0,166578,Frières-Faillouël,euwiki<br>Topics are predicted using the Wikidata-Topic model developed by Isaac Johnson (https://github.com/geohci/wikidata-topic-model)<br></pre>The source code to create this dataset can be found here:<br>https://github.com/digitalTranshumant/wikidata-topic-model
DOI: 10.17632/s74k4jkr77
title: Code for Conklin, Gerardi, Lambie-Hanson Home Equity Racial Disparities

description: This directory contains all of the Stata code used to produce the exhibits in "Can Everyone Tap into the Housing Piggy Bank? Racial Disparities in Access to Home Equity" by Conklin, Gerardi, and Lambie-Hanson, published in the Journal of Financial Economics. The main dataset used in the paper is not included in this directory because it is confidential HMDA data that is not allowed to be posted on a public website. There is a pseudo dataset included however that is compatible with the code.
DOI: 10.6084/m9.figshare.20277795.v1
title: Testing the existence of an unadmixed ancestor from a specific population t generations ago

description: Data for the article "Testing the existence of an unadmixed ancestor from a specific population t generations ago" by Illanes, Fariello, Spangenberg, Mordecki and Naya (PLOS ONE). <br> Individual variants were obtained from http://urugenomes.org/lovd/variants<br> A local ancestry estimation yields our raw data set. <br> We obtain the hypothesis test statistics from the individuals' local ancestry estimations using the code <em>rcode.R</em> (using software R), which yields the files <em>est_max.csv </em>and <em>est_sum.csv.</em> <br> The file <em>len_chr.csv </em>has the lengths (in centiMogans) of the 22 human non-sexual chromosomes, which will be needed for the test. <br> The code <em>jcode.jl </em>(using software Julia) takes de aforementioned .csv files and runs the hypothesis test and all related simulations. We upload the local ancestry estimations, all .csv files, both <em>rcode.R </em>and <em>jcode.jl</em>, and a license.
DOI: 10.6084/m9.figshare.28264625.v1
title: <b>Using Fishery-related Data, Scientific Expertise and Machine Learning to Improve Marine Habitat Mapping in Northeastern Mediterranean Waters</b>

description: Marine habitat mapping is an essential tool for better planning of conservation efforts and the sustainable management of marine activities. High spatial resolution in marine habitat maps is of utmost importance as it may encompass more detail in the imagery and potentially reveal important biotopes. This level of detail supports directing monitoring and analysis efforts for the effective implementation of the EU environmental policies and providing more relevant advice for robust decision-making under both sectorial policies (e.g. the Common Fisheries Policy) and more integrated ones (e.g. the Marine Spatial Planning). In this study, sea bottom type data, recorded during the national monitoring of commercial fishing vessel operations and fishery surveys in the Greek Seas, were used. These data were then assigned to EU EMODnet seabed habitats using local ecological knowledge. Two Machine Learning (ML) algorithms were trained on the entire national-scale dataset and subsequently applied to assess their performance in predicting habitat types in the Saronikos Gulf (regional scale), using various environmental factors as predictors. These algorithms were the Random Forest Classifier (RFC), and the Gradient Boosting Classifier (GBC), while the Borderline Synthetic Minority Oversampling Technique (B-SMOTE) was applied for handling the inherent data class imbalances. A validation dataset and georeferenced data from previous studies were considered for comparing the models' accuracies and predictive performance. Through this approach, the Saronikos Gulf was enriched by five more habitat types than those visualized in the EMODnet portal, while also filling habitat gaps in areas where no data existed. Results from the application of the RFC-BS model (62% accuracy, 0.51 Kappa score) were then used to address conservation planning commitments recently made by the Greek government; the vast majority of marine seabed priority habitats in the study area seem to fall outside the borders of the current Natura 2000 sites, which served as the baseline for the declared trawl bans in Greek waters, following the provisions of the EU Marine Action Plan.
DOI: 10.17632/cgg8nn3b3s
title: Systemic therapy in treating palmoplantar and scalp psoriasis: A systematic review and network meta-analysis

description: supplementary material