cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20071994.v1
title: Supplementary Material for: A prospective study on defining the indications of prophylactic level IB radiotherapy in nasopharyngeal carcinoma based on a risk score model

description: Objective: To investigate clinical evidence for defining the indications of prophylactic level IB radiotherapy in nasopharyngeal carcinoma (NPC). Methods: We conducted a phase 2 prospective study in 116 newly diagnosed patients with NPC treated by intensity-modulated radiotherapy (IMRT). Whether level IB was irradiated based on the risk score model (RSM). Two groups based on RSM were obtained: low risk and high risk. Omission of level IB irradiation was conducted in low risk group, otherwise level IB was contoured as part of the treatment target. Grade 2 or worse xerostomia at 12 months was assessed by the European Organization for Research and Treatment of Cancer (EORTC) QLQ-H&N35 questionnaire. Results: At a median follow-up of 16months (range, 1-26 months). None patients developed failures at level IB. The 1-year overall survival (OS), locoregional recurrence-free survival (LRRFS) and distant metastasis-free survival (DMFS) rates were 98.3%, 97.2% and 95.8%, respectively. At 12 months xerostomia side-effects were reported 90 of 126 alive patients, grade 2 or worse xerostomia at 12 months was significantly lower in the low risk group than in the high risk group. Conclusion: Omission of level IB irradiation was feasible for patients with low-risk IB lymph nodes metastasis.
DOI: 10.6084/m9.figshare.20493501.v1
title: Annotated dataset for augmented text mining study

description: An annotated dataset of tweets with LDA and sentiment polarity annotation.
DOI: 10.6084/m9.figshare.5907577.v1
title: The main channels of international technology transfer in different technological paradigms: implications to overcome underdevelopment

description: Abstract The main international technology transfer channels in different technological paradigms: implications for overcoming underdevelopment. Despite the recognition that overcoming technological backwardness occurs through the construction of domestic technological capabilities, the international transfer of technology has proved to be a relevant strategy at different moments in history and for different nations during their catching-up processes. With the technological evolution in each paradigm, several international technology transfer channels were relatively effective. Based on a historical analysis, we try to show that the main channels have changed over time to respond to technological changes. Therefore, a protagonist channel in one historical moment happens to play a supporting role in others, given that the dominant technology presents characteristics that require the transfer of specific channels.
DOI: 10.6084/m9.figshare.10007333.v1
title: healthy controls MEFV.xlsx

description: MEFV mutations in healthy controls
DOI: 10.6084/m9.figshare.21165616.v1
title: ciconia_episcopus_zanfona_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.25992067.v1
title: Supplemental Material.docx

description: This research describes the changes in glutamine metabolism in the remodeling heart following myocardial infarction. It also demonstrates that targeting glutamine metabolism (either by supplementing glutamine or blocking glutamine metabolism) affects the contractile function of the heart after myocardial infarction.
DOI: 10.6084/m9.figshare.13720711.v2
title: Research on stance expressions in different genres

description: The data set is used to investigate stance expressions in journal articles and newspaper opinions.
DOI: 10.6084/m9.figshare.27264075.v1
title: Comparative single-cell transcriptomic analysis reveals putative differentiation drivers and potential origin of vertebrate retina

description: Despite known single-cell expression profiles in vertebrate retinas, understanding of their developmental and evolutionary expression patterns among homologous cell classes remains limited. We examined and compared approximately 240,000 retinal cells from four species and found significant similarities among homologous cell classes, indicating inherent regulatory patterns. To understand these shared patterns, we constructed gene regulatory networks for each developmental stage for three of these species. We identified 690 regulons governed by 530 regulators across three species, along with 10 common cell class-specific regulators and 16 highly preserved regulons. RNA velocity analysis pinpointed conserved putative driver genes and regulators to retinal cell differentiation in both mouse and zebrafish. Investigation of the origins of retinal cells by examining conserved expression patterns between vertebrate retinal cells and invertebrate <i>Ciona intestinalis</i> photoreceptor-related cells implied functional similarities in light transduction mechanisms. Our findings offer insights into the evolutionarily conserved regulatory frameworks and differentiation drivers of vertebrate retinal cells.
DOI: 10.6084/m9.figshare.4530965.v1
title: S1-dataset-tweetIDS.txt.zip

description: Tweet IDs for all tweets studied in The Lexicocalorimeter: Gauging public health through caloric input and output on social media.<br>Best version of the paper is on the aXiv at https://arxiv.org/abs/1507.05098<br>Paper also published by PLoS ONE.<br><br>
DOI: 10.6084/m9.figshare.12932597.v1
title: Supplementary Material for: Cell-Free DNA Testing: What Is the Reason Why High-Risk Women Choose It?

description: <b><i>Objective:</i></b> The aim of the study wasto describe the past medical history, sociodemographic, and pregnancy characteristics of women at high risk for aneuploidy and to determine which factors are related to her choice of cell-free DNA (cfDNA) testing instead of invasive diagnostic testing. <b><i>Methods:</i></b> We conducted a prospective descriptive study including pregnant women from the Western Barcelona public health area at high risk for fetal aneuploidy, defined as a trisomy 21 or 18 risk between 1/10 and 1/250 at the combined first-trimester or at the second-trimester biochemical screening. During 1 year (December 2018 to November 2019), these women were asked to fill in a confidential questionnaire about her past medical history, demographic and pregnancy characteristics, and her opinion about termination of the pregnancy after a counseling consultation with a maternal-fetal medicine specialist in which advantages and disadvantages of both testing methods, cfDNA or diagnostic testing, were discussed. Logistic regression analysis was used to determine which factors were related with cfDNA uptake. <b><i>Results:</i></b> During the study period, 82 pregnant women filled the questionnaire. The median maternal age was 39.6 years (interquartile range [IQR] 37.3–40.9 years), and 73 (89%) of them were 35 years or older. Forty-three (52%) women opted for cfDNA testing, while 39 (48%) chose invasive diagnosis. In a logistic regression analysis, the use of assisted reproductive techniques (OR 13.03; 95% CI: 1.47–115.56; <i>p</i> = 0.021) and Latin American origin (OR 6.66; 95% CI 1.73–25.66; <i>p</i> = 0.006) were shown to be related to a higher cfDNA uptake. In contrast, nonreligious women (OR 0.21; 95% CI: 0.06–0.72; <i>p</i> = 0.013) and a favorable opinion about termination of pregnancy (OR 0.23; 95% CI: 0.06–0.92; <i>p</i> = 0.037) were related with a lower uptake. <b><i>Conclusion:</i></b> Half of the pregnant women at high risk for fetal aneuploidy opted for cfDNA testing. The main reason to choose cfDNA was avoiding the risk of pregnancy loss. Women using assisted reproductive techniques and those of Latin American origin preferred cfDNA testing, while nonreligious women and those with a favorable opinion on termination pregnancy preferred invasive testing.
DOI: 10.6084/m9.figshare.5830878.v1
title: Complete dataset

description: Dataset for meta-analysis with all information. Subsets of this dataset were used for phylogenetically corrected analyses.
DOI: 10.6084/m9.figshare.3562863.v1
title: Data Paper. Data Paper

description: File List corners.csv (MD5: 00b9af230a2cd73315d473083f6e7647) soils.csv (MD5: d4deb84fa3a2300097efc07a7a42700c) standards.csv (MD5: bdeb50c58864228f02b06be2971d11dc) afproj-master.zip (MD5: 30f8248abbe2851dd2b5763933ca6165) Description At plot scales (&lt;1 km²) used to study tropical forest plant communities the causes of spatial heterogeneity of soils are disputed. We collected, georeferenced, and chemically analyzed a large spatial sample of soil cores (<i>n</i> = 625 sites, 6.25 cm diameter × 10 cm depth cores) on an approximately 28 m regular grid from the Barro Colorado Island (BCI) 50-ha (0.5 km²) forest dynamics plot (FDP), Republic of Panama (9.15° N, 79.8° W). Here we present these data for general use. We also present differential GPS measurements of the plot corners for the BCI 50-ha FDP, which aid in geospatial research in one of the most studied tropical forests. Further, we present a free open source command line software program written in Python that allows point data referenced to the plot coordinate system to be converted to a projected coordinate reference system for geospatial research. Together, the data sets allow for testing the drivers of soil heterogeneity in a tropical tree community using a wide variety of geospatial data sources. <i>Key words</i>: <i>Barro Colorado Island; biodiversity; biogeochemistry; Geographic Information Systems; nutrients; remote sensing; spatial projection; soil. </i>
DOI: 10.60893/figshare.jcp.27122412.v1
title: Supplemental Material

description: Provided in the electronic supplementary material are the computational results obtained from the ORCA quantum chemical package containing the optimized potential energy minima geometries (in the form of molecular Cartesian coordinates), harmonic and the VPT2-based anharmonic vibrational frequency tables.
DOI: 10.6084/m9.figshare.23441078.v1
title: Seabin Volunteer Survey Responses

description: Results from the Seabin Survey
DOI: 10.6084/m9.figshare.26771839.v1
title: Data Base - Adults with COVID-19 - High-flow nasal cannula

description: Factors associated with the survival of adults with COVID-19 using a high-flow nasal cannula in a tertiary hospital in northern Peru during the second wave of the pandemic.
DOI: 10.6084/m9.figshare.28261811.v1
title: Supplementary Material for: Proteomics and recurrence of atrial fibrillation: a pilot study nested in the PREDIMAR trial

description: Introduction: Atrial fibrillation (AF) is the most common sustained cardiac arrhythmia worldwide. Although catheter ablation is the most efficacious therapy, relapses occur frequently (30%) in the first year after ablation. Novel biomarkers of recurrence are needed for a better prediction of recurrence and management of AF. In this pilot study, we aimed to analyze the baseline proteome of subjects included in a case-control study to find differential proteins associated with AF recurrence.
Methods: Baseline serum proteomics (354 proteins) data from 16 cases (recurrent AF) and 17 controls (non-recurrent) were obtained using MS/MS analysis. False discovery rate was performed using a nonlinear fitting method for the selection of proteins. Logistic regression models were used to further analyze the association between differentially expressed proteins and AF recurrence
Results: Ten proteins were differentially represented in cases vs controls. Two were upregulated in the cases compared to the controls: keratin type I cytoskeletal 17 (FC=2.14; p=0.017) and endoplasmic bifunctional protein (Fold-change [FC]=1.65; p=0.032). And eight were downregulated in the cases compared to the controls: C4bpA (FC=0.64; p=0.006), coagulation factor XI (FC=0.83; p=0.011), CLIC1 (FC=0.62; p=0.017), haptoglobin (FC=0.37; p=0.021), Ig alpha-2 chain C region (FC=0.49; p=0.022), C4bpB (FC=0.73; p=0.028), N-acetylglucosamine-1-phosphotransferase subunit gamma (FC=0.61; p=0.033) and platelet glycoprotein Ib alpha chain (FC=0.84; p=0.038).
Conclusion: This pilot study identifies ten differentially expressed serum proteins associated with AF recurrence, offering potential biomarkers for improved prediction and management.
DOI: 10.6084/m9.figshare.25469914.v2
title: Personality may modulate learning and memory differences in two taxa of the African striped mouse genus <i>Rhabdomys</i> (data set)

description: Excel data sheet containing 1. duration data for novel object recognition tests; 2. associative learning experiments comparing latency to approach between previously (1) an incentivized and non-incentivized, and (2) greater and lesser incentivized, scents; 3. scent neutrality data, for both sexes of <i>R. pumilio</i> and t<i>R. d. chakae</i>. Associated R code used in the statistical analyses are also included.
DOI: 10.6084/m9.figshare.3171442.v1
title: Report: Microbial Diversity of Baltic Sea and North Sea Sediments Based on Pyrosequencing Results

description: This report describes the alpha and beta diversity results of microbial communities found in marine sediments from the Baltic Sea and North Sea. 16S rRNA amplicon sequences were analyzed using QIIME and R to determine the overall diversity of samples collected from several depths. <br>
DOI: 10.6084/m9.figshare.20208026.v4
title: Code and dataset for the budget closure correction method Minimized Series Deviation method (MSD)

description: Enforcing terrestrial water budget closure is critical for obtaining consistent datasets of budget components to understand the changes and availability of water resources over time. However, most existing budget closure correction methods (BCCs) are significantly affected by random errors and outliers in the budget-component products. Moreover, these existing BCCs do not fully account for the preselection of high-precision input datasets before enforcing the water budget closure, resulting in uncertainties in the budget-corrected datasets. In this study, a two-step method was proposed to enforce the water budget closure of satellite-based hydrological products. First, high-precision budget-component datasets were selected and second, the water budget closure of the selected high-precision datasets was then enforced by proposing an improved BCC strategy, i.e., the Minimized Series Deviation method (MSD). The performance of the proposed two-step method was verified in 24 global basins by comparing it to three existing BCCs of varying complexity, i.e., Proportional Redistribution (PR), Constrained Kalman Filter (CKF), and Multiple Collocation (MCL). The results showed that compared to the existing BCCs, the proposed two-step method significantly improved the accuracy of budget-corrected datasets between 2 and 19% (statistical analysis was based root mean square error (RMSE) and mean absolute error (MAE). This study also summarized the main factors influencing the performance of the existing BCCs and their further development prospects based on the results. This provides insight into the expansion of theories and methods related to closing the terrestrial water budget.
DOI: 10.6084/m9.figshare.14798985.v1
title: Mixture Results

description: Results for the reconstructed mixture of beads object.<br>
DOI: 10.6084/m9.figshare.19682238.v2
title: Supplementary Material 4

description: Supplementary Material 4
DOI: 10.15468/dl.svz5nr
title: Occurrence Download

description: A dataset containing 1164 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Archips xylosteana (Linnaeus, 1758)"
 ]
}

 The dataset includes 1164 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009465-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.14766402.v1
title: ESG research dataset

description: The dataset used for the paper titled "<b>The pertinence of incorporating ESG ratings to make investment decisions: A quantitative analysis using Machine Learning"</b>
DOI: 10.6084/m9.figshare.16834858.v2
title: Patent Datasets

description: We use journal articles published by <i>Scientometrics</i> in 2016-2020 as the data source. Through the analysis of the data set usage records of scientometrics research, the frequency ranking of the usage of each dataset on patent is listed, so as to provide a reference for the selection of data sets for scientometrics research.
DOI: 10.6084/m9.figshare.12456629.v1
title: JARVIS-DFT Finite Difference Elastic Constants (JVASP-25328 to JVASP-29060)

description: Contains input/output files for finite difference method based elastic calculations in the JARVIS-DFT.
DOI: 10.6084/m9.figshare.19322570.v1
title: Supplementary Material for: Direct and Indirect Effects of COVID-19 on Long-Term Care Residents and Their Family Members

description: <b><i>Introduction:</i></b> The first cases of COVID-19 in Israel were reported in February 2020. Family visits were prohibited from March 10, 2020, and then allowed on a limited basis on April 20, 2020. This article examines how COVID-19 impacted long-term care residents and their family members from the perspective of long-term care facility (LTCF) administrative staff. <b><i>Methods:</i></b> An online survey was sent to Israeli LTCF administrators between mid-July and mid-October 2020, resulting in 52 completed questionnaires. Quantitative analysis involved descriptive statistics using SPSS, with differences compared via <i>t</i> tests, ANOVA, and χ<sup>2</sup> tests. Qualitative analysis involved thematic analysis of responses to open-ended questions. <b><i>Results:</i></b> COVID-19 was reported to have multiple types of negative impact on residents, including direct effects on morbidity and mortality as well as indirect effects manifested as negative reactions to measures aimed at limiting infection, including isolation from relatives, decreased activities for residents, and COVID-19 testing. The impact of isolation on LTCF residents was reported as negative or very negative by over three-quarters of the respondents. Behavioral problems among residents increased in 32% of the facilities. The qualitative results suggested that adverse effects on residents and family members were partially mitigated by the use of communication technologies. <b><i>Discussion/Conclusion:</i></b> The interplay of multiple factors affected LTCF residents against the backdrop of COVID-19 restrictions. The emergence of mitigating factors which provide solutions to some of the challenges has the potential of improving quality of care for LTCF residents as the pandemic continues and thereafter.
DOI: 10.6084/m9.figshare.23361896.v1
title: Supplementary Material for: Efficacy of PD-1 inhibitors in first-line treatment for advanced gastroesophageal junction and gastric cancer by subgroups: A systematic review and meta-analysis

description: Background PD-1 inhibitors have been approved for the first-line treatment of patients with advanced gastric cancer, gastroesophageal junction cancer or esophageal adenocarcinoma. However, the results of several clinical trials are not entirely consistent, and the dominant population of first-line immunotherapy for advanced gastric/gastroesophageal junction cancer still needs to be precisely determined. Objective This objective of this study is to evaluate the efficacy of anti-PD-1/PD-L1 therapy in advanced gastric/gastroesophageal junction adenocarcinoma patients through a systematic review and meta-analysis of relevant clinical trials. Method The PubMed, Embase, and Cochrane Library electronic databases were searched up to 1 August 2022 for clinical trials of anti-PD-1/PD-L1 immunotherapy for the first-line treatment of advanced gastroesophageal cancer. Hazard ratios and 95% confidence intervals for overall survival, progression-free survival and objective response rates were extracted and pooled for meta-analysis. Prespecified subgroups included the following: agent type, PD-L1 expression, and high microsatellite instability. Results This study analyzed 5 RCTs involving 3355 patients. Compared with the chemotherapy group, the combined immunotherapy group had a significantly higher objective response rate (OR = 0.63, 95% CI: 0.55-0.72, P&lt;0.00001) and prolonged overall survival (HR = 0.82, 95% CI: 0.76-0.88, P&lt;0.00001) and progression-free survival (HR=0.75, 95% CI: 0.69-0.82, P&lt;0.00001). The combination of immunotherapy and chemotherapy prolonged OS in both MSI-H (HR = 0.38, P = 0.002) and MSS (HR = 0.78, P &lt; 0.00001) populations, but there was a significant difference between groups (P = 0.02). However, in improving ORR, the benefit of ICI combined with chemotherapy in the MSS group and MSI-H group was not significantly different between groups (P = 0.52). Combination therapy with ICIs was more effective than chemotherapy alone in prolonging OS in the subgroup with a high CPS, regardless of the CPS cutoff for PD-L1. However, when the cutoff of CPS was 1, the difference between subgroups did not reach statistical significance (P = 0.12), while the benefit ratio of the MSI-H group was higher when the cutoff was 10 (P =0.004) than when the cutoff value was 5 (P=0.002). Conclusions For first-line treatment of advanced gastroesophageal cancer, an ICI combination strategy is more effective than chemotherapy. The subgroup of patients with a CPS ≥ 10 has a more significant benefit, and CPS ≥ 10 has the potential to be used as an accurate marker of the dominant population of immuno-combined therapy.
DOI: 10.6084/m9.figshare.24433384.v1
title: Plasmid maps and sequences, manuscript "Establishment of a stable transfection and gene targeting system in Babesia divergens", Cubillos EFG et al. 2023

description: Manuscript abstract: <i>Babesia divergens</i> is an emerging tick-borne pathogen considered as the principal causative agent of bovine babesiosis in Europe with a notable zoonotic risk to human health. Despite its increasing impact, considerable gaps persist in our understanding of the molecular interactions between this parasite and its hosts. In this study, we address the current limitation of functional genomic tools in <i>B. divergens</i> and introduce a stable transfection system specific to this parasite. We define the parameters for a drug selection system <i>hdhfr</i>-WR99210 and evaluate different transfection protocols for highly efficient generation of transgenic parasites expressing GFP. We proved that plasmid delivery into bovine erythrocytes prior to their infection is the most optimal transfection approach for <i>B. divergens,</i> providing novel evidence of <i>Babesia</i> parasites' ability to spontaneously uptake external DNA from erythrocytes cytoplasm. Furthermore, we validated the bidirectional and symmetrical activity of <i>ef-tgtp</i> promoter, enabling simultaneous expression of external genes. Lastly, we generated a <i>B. divergens </i>knockout line by targeting a <i>6-cys-e</i> gene locus. The observed dispensability of this gene in intraerythrocytic parasite development makes it a suitable recipient locus for further transgenic application. The platform for genetic manipulations presented herein serves as the initial step towards developing advanced functional genomic tools enabling the discovery of <i>B. divergens</i> molecules involved in host-vector-pathogen interactions.