cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26808352
title: Supplementary Material for: Identification of A Novel Activated NK-Associated Gene Score Associated with Diagnosis and Biological Therapy Response in Ulcerative Colitis

description: Introduction: Natural killer (NK) cells are associated with the pathogenesis of ulcerative colitis (UC); however, their precise contributions remain unclear. The present study aimed to investigate the diagnostic value of the activated NK-associated gene (ANAG) score in UC and evaluate its predictive value in response to biological therapy. 
Methods: Bulk RNA-seq and scRNA-seq datasets were obtained from the Gene Expression Omnibus (GEO) and Single Cell Portal (SCP) databases. In the bulk RNA-seq, differentially expressed genes (DEGs) were screened by the “Batch correction” and “Robust rank aggregation” (RRA) methods. The immune infiltration landscape was estimated using single-sample gene set enrichment analysis (ssGSEA) and CIBERSORT. DEGs that correlated with activated NK cells were identified as activated NK-associated genes (ANAGs). Protein-protein interaction (PPI) analysis and least absolute shrinkage and selection operator (LASSO) regression were used to screen key ANAGs and establish an ANAG score. The expression levels of the four key ANAGs were validated in human samples by real-time quantitative polymerase chain reaction (RT-qPCR) and immunofluorescence. The potential therapeutic drugs for UC were identified using the DSigDB database. Through scRNA-seq data analysis, the cell scores based on the ANAGs were calculated by “AddModuleScore” and “AUCell”. 
Results: Immune infiltration analysis revealed a higher abundance of activated NK cells in non-inflamed UC tissues (ssGSEA, P&lt;0.001; CIBERSORT, P&lt;0.01). Fifty-four DEGs correlated with activated NK cells were identified as ANAGs. The ANAG score was established using four key ANAGs (SELP, TIMP1, MMP7, and ABCG2). The ANAG scores were significantly higher in inflamed tissues (P&lt;0.001) and in biological therapy non-responders (NR) tissues before treatment (golimumab, P&lt;0.05; ustekinumab, P&lt;0.001). The ANAG score demonstrated an excellent diagnostic value (AUC = 0.979). Patients with higher ANAG scores before treatment were more likely to experience a lack of response to golimumab or ustekinumab (golimumab, P&lt;0.05; ustekinumab, P&lt;0.001). 
Conclusion: This study established a novel ANAG score with the ability to precisely diagnose UC and distinguish the efficacy of biological treatment.
DOI: 10.17632/b2r4dt3kf2.4
title: Bias-Eliminating Techniques in the Computation of Power Spectra for Characterizing Gravity Waves

description: This dataset supports the article "Bias-Eliminating Techniques in the Computation of Power Spectra for Characterizing Gravity Waves" (submitted to Earth and Space Sciences on December 29, 2023). The data are provided in MATLAB format. A plotting program is also included.
DOI: 10.17632/m7w688khs8.1
title: ACTIVA. Behavioral Activation and Acceptance and Commitment Therapy in the treatment of anxiety and depression in cancer survivors

description: Behavioural Activation (BA) and Acceptance and Commitment Therapy (ACT) aim to reduce the inflexible avoidance of painful thoughts, feelings, and memories and to encourage involvement in relevant activities, objectives which are clearly relevant to the situation of cancer survivors with emotional problems. With a view to evaluating and comparing the efficacy of both therapies, applied on a group basis, a randomized controlled trial was developed. Participants had to meet the following criteria: (a) between 18 and 65 years of age; (b) finished oncological treatment with surgery, chemotherapy and/or radiotherapy for any type of malignant tumour; (c) currently be free of any type of oncological disease; (d) scores ≥ 8 in at least one of the subscales of the HADS (Zigmond, & Snaith, 1983). Participants were excluded if they (a) receiving another type of psychological therapy; (b) suffer physical or cognitive deterioration which might hinder participation in the therapy. Upon informed consent, participants completed the assessment instruments and were subsequently randomized to two experimental groups (BA/ACT) and a waiting list control group (WL). Content of the sessions is shown in Table (see attached file). Ninety-eight people were evaluated, seventy-one of whom fulfilled the inclusion criteria of the study. Of these, sixty-six were randomly assigned to two experimental groups (BA, n=17; ACT, n=12) and a waiting list control group (n=17). See CONSORT diagram (attached file). The emotional state, experiential avoidance and behavioural activation of the participants was evaluated in the pre- and post-treatment and in a 3-month follow-up using the following standardized instruments: (a) Hospital Anxiety and Depression Scale (HADS; Zigmond, & Snaith, 1983); (b) Short form of the 1978 Beck Depression Inventory (BDI-IA) based on the cognitive-affective subscale (BDI-IA-SCA; Beck, & Steer, 1993); (c) Environmental Reward Observation Scale (EROS; Armento, & Hopko, 2007); (d) Acceptance and Action Questionnaire-II (AAQ-II; Bond et al., 2011) ; (e) Behavioral Activation for Depression Scale (BADS) (Kanter, Mulick, Busch, Berlin, & Martell, 2007); (f) on completion of the treatment, the participants in the experimental groups also filled out the Client Satisfaction Questionnaire-8 (CSQ-8; Larsen, Attkisson, Hargreaves, & Nguyen, 1979). The attached database contains the data of all participants at the three assessment moments. Additionally, demographic and disease-related data collected at baseline are included. Both treatment groups showed statistically significant changes, indicating an improvement in all the result variables in the post-treatment and follow-up as compared to the pre-treatment. Both therapies proved to be efficacious. Nevertheless, BA showed better results than ACT regarding the impact on anxiety and activation. This greater efficacy may have been due to factors such as the emphasis placed in BA on behavioural activation.
DOI: 10.5255/ukda-sn-7226-1
title: Workplace Employee Relations Survey, 2011
DOI: 10.5281/zenodo.10070621
title: Data from "FICTURE: Scalable segmentation-free analysis of sub-micron resolution spatial transcriptomics"
DOI: 10.5281/zenodo.1199647
title: Standing Repetitive Pointing Task In Individuals With And Without Parkinson'S Disease

description: [ These data refer to a manuscript currently under revision in PlosOne. In this MS we aimed to determine the effects of levodopa medication on the performance of a repetitive pointing task while standing, and to investigate the optimal trial duration in individuals with Parkinson’s disease, and older adults. Seventeen individuals with Parkinson’s disease (5 freezers) and 9 older adults stood on force platforms for 30 s and 120 s while performing a bilateral repetitive pointing task, tracked by motion capture. Participants with Parkinson’s disease were assessed on and off medication and older adults were also assessed on separate days. The main findings were that: 1) on medication, participants with Parkinson’s exhibited greater center of pressure root mean square in the medial-lateral direction, greater velocity in the medial-lateral and anterior-posterior directions, and greater range in the medial-lateral direction than off medication; 2) longer trial durations resulted in greater center of pressure range in the medial-lateral and anterior-posterior directions and greater coefficient of variation in finger pointing on the least affected side; 3) Parkinson’s participants exhibited larger range in the medial-lateral direction compared to older adults; 4) off medication, freezers presented with less range and root mean square in the anterior-posterior direction than non-freezers; and 5) a correlation emerged between the freezing of gait questionnaire and pointing asymmetry and the coefficient of variation of pointing on the most affected side. Therefore, Parkinson’s medication may increase instability during a repetitive pointing task. Longer trials may provide a better depiction of sway by discriminating between those with and without neurological impairment. Individuals with Parkinson’s were less stable than older adults, supporting that they are at a greater risk for falls. The greater restrictive postural strategy in freezers compared to non-freezers is likely a factor that augments fall-risk. Lastly, the link between freezing of gait and upper-limb movement indicates that freezing may manifest first in the lower-limbs. Add description ]
DOI: 10.5281/zenodo.13352358
title: Data for International trade sanctions imposed due to the Russia-Ukraine war may cause unequal distribution of environmental and health impacts

description: Data for producing the figures in the study "International trade sanctions imposed due to the Russia-Ukraine war may cause unequal distribution of environmental and health impacts".
DOI: 10.5281/zenodo.50148
title: Forschungsdaten-Repositorien Mit Beteiligung Deutscher Institutionen. Eine Re3Data.Org-Analyse

description: Vorliegender Datensatz gibt auf Basis einer Analyse im Dezember 2015 im re3data.org - Registry of Research Data Repositories einen Überblick über Forschungsdaten-Repositorien die unter Beteiligung deutscher Institutionen betrieben werden.
description: {"references": ["Pampel, H., Vierkant, P., Scholze, F., Bertelmann, R., Kindling, M., Klump, J., Goebelbecker, H.-J., Gundlach, J., Schirmbacher, P., Dierolf, U. (2013). Making Research Data Repositories Visible: The re3data.org Registry. PLOS ONE, 8(11), e78080. doi: http://doi.org/10.1371/journal.pone.0078080", "Vierkant, P., Spier, S., Ruecknagel, J., Pampel, H., Fritze, F., Gundlach, J., Fichtm\u00fcller, D., Kindling, M., Kirchhoff, A., G\u00f6belbecker, H.-J., Klump, J., Kloska, G., Reuter, E., Semrau, A., Schnepf, E., Skarupianski, M., Bertelmann, R., Schirmbacher, P., Scholze, F., Kramer, C., Witt, M., Fuchs, C., Ulrich, R. (2014). Schema for the Description of Research Data Repositories. Version 2.2. doi: http://doi.org/10.2312/re3.006"]}
DOI: 10.6084/m9.figshare.25117520
title: Annotated results of <i>Pampus argenteus</i> genome Item

description: we provide the annotation results of gene structure, functional prediction for the de novo assembled genome of Pampus argenteus.
DOI: 10.6084/m9.figshare.26166673
title: Data file1-20240703.docx

description: General features of two genomes from PSCN1 and ATCC 8199 strains
DOI: 10.6084/m9.figshare.27195834
title: Supplementary Material for: Analysis of the correlation between hypercholesterolemia and increased Cardiovascular Morbidity and Mortality among Adult Kidney Transplant Recipients

description: Introduction: The correlation between hypercholesterolemia and cardiovascular disease in kidney transplant recipients (KTR) remains uncertain. We sought to characterize the association between abnormal cholesterol profiles and cardiovascular morbidity and mortality in this unique population. 
Methods: This retrospective cohort study was conducted at a single center and included all adult KTR, transplanted between January 2005 and April 2014. The primary outcome was Major Adverse Cardiovascular Events (MACE) while the secondary outcome was the composite outcome of MACE and all-cause mortality. Exposure to abnormal cholesterol levels was calculated using a time-weighted average (TWA) calculation. MACE and mortality risk were analyzed using a multivariate time varying Cox model. 
Results: The final cohort comprised 737 KTR, with a median follow-up of 2920 days. A total of 126 patients (17.1%) experienced MACE. High LDL-C levels and MACE risk were correlated by multivariate analysis (HR 1.008 per mg/dl, 95%CI 1.001 – 1.016), while low HDL-C levels were not significantly associated with MACE (HR 0.992 per mg/dl, 95%CI 0.976 – 1.009). A higher LDL-C/HDL-C ratio was significantly associated with an increased risk of MACE in multivariate analyses (HR 1.502 per unit, 95%CI 1.147-1.968), and also correlated with the composite outcome (HR 1.35 per unit, 95%CI 1.06 – 1.71). 
Conclusions: A high LDL-C /HDL-C ratio is predictive of an increased risk of cardiovascular morbidity and mortality in kidney transplant recipients. These findings emphasize the significance of the LDL-C/HDL-C ratio as a valuable marker of cardiovascular risk and support current recommendations to improve hypercholesterolemia in this high-risk group.
DOI: 10.13117/n-africa-active-faults
title: GEM North Africa Active Fault Database
DOI: 10.15468/sgqujt
title: C.A. Triplehorn Insect Collection (OSUC), Ohio State University

description: Vouchered occurrence records for insects from the C.A. Triplehorn Insect Collection at the Ohio State University.
DOI: 10.18138/2205354
title: Public Data Set: Effects of Injected Current Streams on MHD Equilibrium Reconstruction of Local Helicity Injection Plasmas in a Spherical Tokamak

description: This public data set contains openly-documented, machine readable digital research data corresponding to figures published in J.D. Weberski et al., 'Effects of Injected Current Streams on MHD Equilibrium Reconstruction of Local Helicity Injection Plasmas in a Spherical Tokamak,' Journal of Fusion Energy 43, 72 (2024).
DOI: 10.25920/cw8a-6w49
title: NiTiHf Shape Memory Alloys

description: Because of the time necessary for performing experiments on high dimensionality design space in manufacturing processes, exploring the entire design space is often prohibitively costly and time-consuming. To accelerate the development of NiTiHf shape memory alloys, we have proposed a sequential learning design framework to strategically identify experimental candidates who maximize information gain using fewest possible experiments. A Kriging regression model scales to high-dimensional search space in terms of processing features, part properties and alloy compositions. An active selector based on Maximum Expected Improvement (MEI) strategy was used to pick experiments candidate by balancing exploration of highly-uncertain candidates and exploiting high-performance candidates. The developed framework can effectively guide the practitioner to test the most promising candidates (i.e. processing parameters and/or material compositions) earlier for achieving desirable designed properties, in such a way as to greatly reduce the time and cost for developments of NiTiHf shape memory alloys.
description: This dataset consists of properties of NiTiHf shape memory allpooys collected from more than 30 publications as well as  experimental data generated at the Colorado School of Mines Alliance for the Development of Additive Processing Technologies (ADAPT) Center. It covers many properties of NiTiHf alloys including thermal behavior from differential scanning calorimetry (DSC), precipitate shape, Vickers hardness, and Superelastic and Isobaric related properties. Each data row consists of the data source, manufacturing methods, NiTiHf compositions, processing parameters and corresponding properties.
DOI: 10.48457/iopan-2024-199
title: Sea spray gradient fluxes over the Baltic Sea and the North Atlantic Ocean

description: The data set of sea spray aerosol gradient flux measurements (in size range 0.5-47 μm diameter) on board RV Oceania of the Institute of Oceanology Polish Academy of Sciences (IOPAN). The Baltic Sea: 224 hours of data gathered between 2011 to 2017 in forty one cruises. The Atlantic Ocean area: in total 56 hours of measurements between 2009 – 2017 from six cruises. Meteorological measurements and sea wave properties extracted from ERA5 are also included.
Detailed files description is provided in the description.txt file.
DOI: 10.5066/p98olkne
title: MODFLOW 2005 data sets of simulated groundwater flow to  evaluate wellbore flow in generic long-screened wells under ambient flow
DOI: 10.5066/p99ilab9
title: National Assessment of Hurricane-Induced Coastal Erosion Hazards

description: These datasets contain information on the probabilities of hurricane-induced erosion (collision, inundation, and overwash) for each 1-km section of the United States sandy open-ocean coastline for category 1-5 hurricanes. The analysis is based on a storm-impact scaling model (Sallenger, 2000; https://www.jstor.org/stable/4300099) that uses observations of beach morphology combined with sophisticated hydrodynamic models to predict how the coast will respond to the direct landfall of category 1-5 hurricanes. Hurricane-induced water levels, due to both surge and waves, are compared to beach and dune elevations to determine the probabilities of three types of coastal change: collision (dune erosion), overwash, and inundation. Data on dune morphology (dune crest and toe elevation) and hydrodynamics (storm surge, wave setup, and runup) are also included in this dataset. As new beach morphology observations and storm predictions become available, this analysis will be updated to describe how coastal vulnerability to storms will vary in the future. The data presented here include the dune morphology observations, as derived from lidar surveys. For further information regarding data collection and/or processing methods refer to USGS Open-File Report 2012-1084 (https://doi.org/10.3133/ofr20121084). Note: This data release was versioned on February 18, 2021. Please see the Suggested Citation section for details.
DOI: 10.5066/p9wyue60
title: Longitudinal assessment of per- and polyfluoroalkyl substances and co-occurring inorganic and organic contaminants in Neshaminy Creek, Pennsylvania, November 2021

description: Per- and polyfluoroalkyl substances (PFAS) and co-occurring inorganic and organic contaminants are widely distributed in the environment and understanding their surface water sources is critical for water resource management. In November 2021, 13 sites were sampled along a stream reach in the Neshaminy Creek basin in southeastern Pennsylvania utilizing a time of travel sampling approach. The reach had known potential PFAS source inputs and documented PFAS detections in water samples. This data release describes the sampling approach, sample processing, laboratory analytical methods, and contains the results.

Site (Table_1_NC_2021_Site_Info) and constituent information (Table_2_Constituents) are provided in tab delimited text (txt) files. Results are provided in a machine readable format in Table_3_Reporting_Long.txt for the following hydrologic metrics and chemical constituents: (1) field parameters (instantaneous discharge, water and air temperature, barometric pressure, pH, specific conductance, and dissolved oxygen), (2) optical properties (ultraviolet (UV)-visible absorbance, and fluorescence), (3) dissolved organic carbon and total dissolved nitrogen, (4) major anions, (5) major and trace elements, (6) PFAS, (7) pharmaceutical compounds, and (8) volatile organic compounds. Table_4_Wide_Summary.xlxs is a summary file including the reported values, laboratory standard deviations, remark codes, and qualification codes from Table_3_Reporting_Long.txt as eight wide format pivot tables.
DOI: 10.5067/orbview-2/seawifs/l3m/chl/2022
title: OrbView-2 SeaWiFS Global Mapped Chlorophyll (CHL) Data, version R2022.0
DOI: 10.5281/zenodo.10914546
title: Coefficients for a Proxy Long-Wavelength Correction for the SWOT 1-Day Repeat Mission

description: This archive contains NetCDF-formatted files containing the weighting coefficients which define the proxy long-wavelength correction (LWC) described in a manuscript submitted to AGU Earth and Space Science,  "The Significance of the Long-Wavelength Correction for Studies of Baroclinic Tides with SWOT".
DOI: 10.5281/zenodo.13309318
title: Catalog Data for Prior-Informed AGN-Host Spectral Decomposition Using PyQSOFit

description: This catalog contains 76,565 AGN-host decomposed spectral measurements for all quasars with z<0.8 in SDSS DR16Q. Our prior-informed decomposition method significantly improved the decomposition success rate from less than 60% to 94%. For the first time, we perform the AGN-host spectral decomposition on survey scale catalog.

Our spectral decomposition results are highly consistent to those of HSC image decomposition. Our catalog suggests that an average host galaxy contribution at 5100A is 38.8%, which would lead to an overestimation of 0.215 dex in L5100 and 0.219 dex in black hole mass if the host is not removed. The Dn4000 and stellar velocity dispersion measurements from the decomposed host galaxy spectra are also provided.

Please read this paper for more techinique details: arXiv: 2406.17598
DOI: 10.5281/zenodo.7013709
title: Project Adotto Tandem-Repeat Regions and Annotations

description: Collection of inputs and outputs from a project attempting to catalog tandem-repeat regions in Human genomes. Details on the project can be found on the github. Details of files contained within this tar-ball can be found here.
DOI: 10.5281/zenodo.8025855
title: Takeout Recommendation Dataset (TRD) from Meituan Takeout app

description: This is a takeout recommendation dataset (TRD) which contains a vast amount of meta information from Meituan Takeout app. We collect orders from 11 commercial districts in Beijing between March 1st and March 28th, 2021. The first three weeks of orders are as training, while the last week is used for testing to avoid data leakage. We briefly summarize each file as follows and for more details, please refer to README.md. 1. users.txt (attributes of all users)<br> 2. pois.txt (attributes of all takeout restaurants)<br> 3. spus.txt (attributes of all food)<br> 4. orders_poi_session.txt (a sequence of restaurants clicked by user before ordering)<br> 5. orders_spu_train.txt (order-food in training set)<br> 6. orders_train.txt (order-restaurant in training set)<br> 7. orders_test.txt (order-restaurant in training set)<br> 8. orders_poi_test_label.txt (test labels of order-restaurant)<br> 9. orders_spu_test_label.txt (test labels of order-food) 10 graph.bin (graph in DGL format) graph.bin is build by above *.txt files, there is a vast amount of meta informarion on nodes and edges. just several codes can load this graph with 18,931,400 edges and 408,849 nodes: <pre><code class="language-python">from dgl import load_graphs #should install dgl ds,_ = load_graphs("./graph.bin") g = ds[0] print(g)</code></pre>
DOI: 10.57746/eo.01gs73b07qz30927ydax3m99fg
title: TRMM/PR L2 Rainfall Profile
DOI: 10.6084/m9.figshare.23110259
title: Raw data for 'Fruit-frugivore dependencies are important in<i> </i><i>Ebolavirus</i> outbreaks in Sub-Saharan Africa'

description: Files include the raw data collected for the paper titled 'Fruit-frugivore dependencies are important in <i>Ebolavirus</i> outbreaks in Sub-Saharan Africa'. Sub-files include data on outbreak locations ('Outbreaks'), Ficus species coordinates ('gbif_Ficus'), and shapefiles of Ficus species digitized from figweb.org ('figshapefiles.zip'). Analyses with R code and other processed input files are in 'Analyses.zip'. More details are provided in the full paper.
DOI: 10.6084/m9.figshare.26170141
title: Data file3

description: Summary of gene annotation of the strain ATCC 8199
DOI: 10.6084/m9.figshare.26319217
title: Canopy temperature data at Niwot Ridge and Harvard Forest

description: This dataset contains processed canopy temperature data from Niwot Ridge and Harvard Forest. The Niwot Ridge dataset is collected using an A655sc thermal infrared camera (FLIR Systems, Inc., 640 × 480 pixel resolution, 45° FOV) positioned near the top of the US-NR1 tower. Similarly, the Harvard Forest dataset is obtained using an A655sc thermal infrared camera (FLIR Systems, Inc., 640 × 480 pixel resolution, 45° FOV) mounted on the Barn tower. Each column in the dataset represents a region of interest within the field of view of the thermal cameras, as described in Aubrecht et al. (2016).Aubrecht, D. M., Helliker, B. R., Goulden, M. L., Roberts, D. A., Still, C. J., & Richardson, A. D. (2016). Continuous, long-term, high-frequency thermal imaging of vegetation: Uncertainties and recommended best practices. <i>Agricultural and Forest Meteorology</i>,<i> 228-229</i>, 315-326. https://doi.org/https://doi.org/10.1016/j.agrformet.2016.07.017