cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/jd48mk925f.1
title: Assembled transcriptome sequences of Miscanthus sinensis

description: Miscanthus-Unigene.fa: This unigene file was based on an integrated analyses of PacBio- and Illumina-based transcriptomic data, which uncovered 408,801 non-redundant transcripts with an average length of 1,685 bp. This file is associated with the work by Wang et al. submitted to the journal BMC Geomics.
DOI: 10.17632/2grm3z7cb6.2
title: Datasets for the data collection method and examples of the material flows at city level

description: Two excel files serve as the datasets for the publication “H. Gao et al., 2021. Datasets for the data collection method and examples of the material flows at city level, Data in Brief.” It provided the detailed instructions of how to use the standardized method to obtain the material flow data with the general data sources at city level. For the application of this method in case of 16 cities in Shandong Province, China, as well as more illustrations of the results based on these datasets of the material flows, they can be found in the publication “H. Gao, X. Tian, Y. Zhang, L. Shi, F. Shi, 2021. Evaluating circular economy performance based on ecological network analysis: A framework and application at city level. 105257. Resources, Conservation & Recycling,https://doi.org/10.1016/j.resconrec.2020.105257.”
DOI: 10.17632/7wh9xvvmgk.2
title: OpenScience Slovenia document metadata dataset

description: The OpenScience Slovenia metadata dataset contains metadata entries for Slovenian public domain academic documents which include undergraduate and postgraduate theses, research and professional articles, along with other academic document types. The data within the dataset was collected as a part of the establishment of the Slovenian Open-Access Infrastructure which defined a unified document collection process and cataloguing for universities in Slovenia within the infrastructure repositories. The data was collected from several already established but separate library systems in Slovenia and merged into a single metadata scheme using metadata deduplication and merging techniques. It consists of text and numerical fields, representing attributes that describe documents. These attributes include document titles, keywords, abstracts, typologies, authors, issue years and other identifiers such as URL and UDC. The potential of this dataset lies especially in text mining and text classification tasks and can also be used in development or benchmarking of content-based recommender systems on real-world data.
DOI: 10.17632/jxdg9kgnxf.1
title: Linear epitope landscape of the SARS-CoV-2 Spike protein constructed from 1,051 COVID-19 patients-A study of Yang Li et al

description: This dataset includes the Table S1-S7 of the study.
DOI: 10.17632/ymn3ykkmyx.2
title: A systematic CRISPR screen defines mutational mechanisms underpinning signatures caused by replication errors and endogenous DNA damage

description: Mutational signatures are imprints of pathophysiological processes arising through tumorigenesis. Here, we generate isogenic CRISPR-Cas9 knockouts (∆) of 43 genes in human induced pluripotent stem cells, culture them in the absence of added DNA damage, and perform whole-genome sequencing of 173 daughter subclones. ∆OGG1, ∆UNG, ∆EXO1, ∆RNF168, ∆MLH1, ∆MSH2, ∆MSH6, ∆PMS1, and ∆PMS2 produce marked mutational signatures indicative of being critical mitigators of endogenous DNA changes. Detailed analyses reveal that 8-oxo-dG removal by different repair proteins is sequence-context-specific while uracil clearance is sequence-context-independent. Signatures of mismatch repair (MMR) deficiency show components of C&gt;A transversions due to oxidative damage, T&gt;C and C&gt;T transitions due to differential misincorporation by replicative polymerases, and T&gt;A transversions for which we propose a ‘reverse template slippage’ model. ∆MLH1, ∆MSH6, and ∆MSH2 signatures are similar to each other but distinct from ∆PMS2. We validate these gene-specificities in cells from patients with Constitutive Mismatch Repair Deficiency Syndrome. Based on these experimental insights, we develop a classifier, MMRDetect, to detect MMR-deficient tumors. Application of MMRDetect to 7359 WGS cancers shows improved clinical detection of patients with MMR deficient whom could have responsiveness to immunotherapy agents.
DOI: 10.17632/s6thnbmkjz.1
title: Stock market indices

description: Shanghai Stock Exchange Composite Index (SSE Composite Index) and Shenzhen Stock Exchange Component Index (SZSE Component Index) are used to verify the validity of this proposed model.The time range for both SSE Composite Index and SZSE Component Index is from January 4, 2010 to December 31, 2020, with a total of 2674 samples over 11 years. During these years, the economic level of China has steadily improved, and the financial system has been constantly perfected.
DOI: 10.17632/54rxxvrwxr.1
title: GSK3 inhibitor ameliorates steatosis through the modulation of mitochondrial dysfunction in hepatocytes of obese patients. Yaqiong Li et al
DOI: 10.17632/wzrr3t6nnz.3
title: In silico ultrasound phantoms for mimicking the proper volar forefinger artery

description: These ultrasound numerical phantoms mimic the systolic-diastolic cycle of i) an ideal cylindrical artery, ii) a true proper forefinger artery. The phantoms are used for validating and comparing a method for assessing the vibration-altered wall shear stress in the digital arteries. These in silico B-mode cineloops are intended to define a reference case for testing our method. In both cases, we presented also the geometry and scatters used to perform the ultrasound simulation.
DOI: 10.17632/dkf65jd9fc.2
title: Data on A Goal Programming Model for Optimizing the Reverse Logistics Network of Glass Containers, and an Application in Turkey

description: Since there is no data available in the literature or through internet, we really made an effort to find real data and try to estimate non-available data through available ones, correctly. Scalar and parameters of the mathematical model in the study are estimated according to assumptions shown as below, and are given in folders. Assumptions • There are 3 source of glass containers. These are from recycle bins, HORECA and other waste recyclers, and those amounts are estimated according to some past data. • All cost parameters are foreknown which are calculated from real data, and will be shown in detail. • Cost parameters will be determined with estimated inflation rate for the future periods and revenue parameters will be determined according to government payments per ton of recycled glass. • Glass container consumption is directly proportional with the population of a town. So, for districts in which this data does not exist, the amount of glass can be collected through recycle bins is estimated according to their populations. • The glass container source from other recyclers are assumed as 10% of total amount of glass containers available through recycle bins in each period. • At the beginning of first period, 10 million Turkish Liras (TL) budget is available. Thereby, Bp parameter becomes 10,000,000 for the first period and 0 for the rest of periods. • For operational side of glass recycling facility, we have stayed in touch with a real firm named “Cam Kırığı” located in Gebze/Istanbul through telephone interviews to get data (telephone interview, March 2019). • The information about the glass manufacturer belongs to Sisecam Company, which is biggest glass manufacturer in Turkey. • Equivalent cost parameters for future periods will be adjusted according to official price increases and inflation expectations. • 1 year consists of 250 workdays. So, WD scalar becomes 250. • Distances between facilities and glass container sources are based on highway routes. • One driver and one assistant are required for each truck type 1 whereas only a driver is needed for truck type 2. So, these are summed with the required number of workers in the facility in order to find total number of personnel.
DOI: 10.17632/h74fx6996c.1
title: Supplemental table 1

description: Supplemental table for jds.2020-19569
DOI: 10.17632/6tx2dybmjg.1
title: supplementary material 3

description: results of Canonical Variance Analyses
DOI: 10.17632/zxxh8xn3nj.1
title: supplementary material 2

description: Morphometric data of the three studied species
DOI: 10.17632/7psyyvctb6.1
title: JAAD Mendeley Supplemental: Female sex is associated with higher rates of dermatologic adverse events among patients with melanoma receiving immune checkpoint inhibitor therapy: a retrospective cohort study

description: JAAD Research Letter Supplemental Figure: Female sex is associated with higher rates of dermatologic adverse events among patients with melanoma receiving immune checkpoint inhibitor therapy: a retrospective cohort study
DOI: 10.17632/jg7d5bwk54.1
title: LINF_360016800

description: ribosomal protein L24; Leishmania infantum
DOI: 10.17632/s5mzb2zyzv.1
title: LINF_360016500

description: ribosomal protein L24; Leishmania infantum
DOI: 10.17632/cvgdz93p5z.2
title: Effectiveness of Hot Pack on Labor Pain, Duration of Labor, and Satisfaction of Primigravida: A Randomized Controlled Trial

description: Abstract Background: Labor pain is an intense pain experienced by women. One of the nonpharmacologic measures used for managing labor pain is heat therapy. However, there is a lack of evidence on the effectiveness of single-use hot packs for labor pain and duration. Objectives: To determine the effect of single-use instant hot pack applied on the lower back in the active phase of labor on pain intensity and labor duration and to determine the satisfaction of primigravid women. Design: Randomized controlled trial. Setting: A labor unit of an Armed Forces Hospital in Saudi Arabia. Participants: Primigravida in the active phase of the first stage of labor, with a normal onset of labor. Methods: This randomized controlled trial was conducted between August 2018 and July 2019. Participants were randomly selected and assigned to either the intervention group (n = 45) or the control group (n = 46). The intervention group received an application of a single-use instant hot pack (Dynarex) on the lower back for 30 min and rest for 10 min. The intervention was continued until delivery of the fetus. The control group received routine care, including intermittent Entonox inhalation. The outcome variable, labor pain intensity was assessed every 30 min using a visual analog scale, at 30, 60, 90,120,150 and 210 min, and the duration of labor was assessed using the WHO Modified partograph. The participant’s satisfaction with the labor experience was assessed 2 h after delivery using the Labor and Delivery Satisfaction Scale, which was developed by the authors. Results: The intervention and control group did not differ significantly in characteristics at baseline. In the intervention group, the use of hot packs significantly lowered the intensity of labor pain at all assessment points (30, 60, 90, 120, 150, and 210 min) as compared with the control group (p≤0.05). The duration of labor did not differ significantly between the two groups (p≥0.05). Furthermore, the intervention group expressed significantly higher satisfaction with the labor and delivery experience as compared with the control group (p≤0.05). Conclusions: The single-use instant hot pack is an effective, convenient, and easy nonpharmacologic approach to pain reduction during labor and provides women an overall satisfactory labor and delivery experience. However, it is not effective in shortening the duration of labor. It can be recommended for managing the pain of women in labor.
DOI: 10.17632/vpxprvpz22.1
title: Condom use dataset

description: Dataset for a survey of 286 University students on attitudes towards condom use, hyperopia, Ubuntu and Self control
DOI: 10.17632/9fvmkxx5kp.1
title: Data on Land Tenure and Food Security

description: This dataset presents data collected from the household survey in Northern Nigeria to examine land tenure and property rights among smallholder rice farmers and the influence it has on household food security. Data collection was by personal interviews of adult members of the farmers’ households, focusing on the households’ socio-economics, United States Department of Agriculture’- 18 Household Food Security questions for households, land titling status, and land tenure type on farmland cultivated during the 2016/17 farming season.
DOI: 10.17632/c52p5x5zxs.1
title: Acidic pH is Required for the Multilamellar Assembly of Skin Barrier Lipids in Vitro

description: Lipid membrane remodeling belongs to the most fundamental processes in the body. The skin barrier lipids, which are ceramide-dominant and highly rigid, must attain an unusual multilamellar nanostructure with long periodicity to restrict water loss and prevent the entry of potentially harmful environmental factors. Our data suggest that the skin “acid mantle”, apart from regulating enzyme activities and keeping away pathogens, may also be a prerequisite for the multilamellar assembly of the skin barrier lipids. Atomic force microscopy on monolayers composed of synthetic or human SC lipids showed multilayer formation (ca 10 nm step height) in an acidic but not neutral environment. X-ray diffraction, Fourier-transform infrared spectroscopy, and permeability studies showed markedly altered lipid nanostructure and increased water loss at neutral compared to acidic pH. These findings are consistent with the altered organization of skin lipids and increased transepidermal water loss in conditions with inadequate skin acidification, e.g., in neonates, elderly, and patients with atopic dermatitis.
DOI: 10.17632/fxhjmmtrbv.1
title: LINF_090016900

description: hypothetical protein - conserved; Leishmania infantum
DOI: 10.17632/xm23f9mkdx.1
title: Data for Comparative analysis of mites genome reveals positive selection of diet adaptation

description: Genome annotation for mites and serpin family tree
DOI: 10.17632/kz5pn2whyd.1
title: Family of experiments MDD VS Traditional

description: Family of experiments to compare MDD VS a Traditional Method. Research questions • RQ1: Is software quality affected by MDD? Measured through columm "Accuracy_simple_problem" and "Accuracy_simple_problem" • RQ2: Is a developer’s effort developing a system affected by MDD? Measured through columm "Time_simple_problem" • RQ3: Is a developer’s satisfaction developing a system affected by MDD? Measured through columm "PEOU", PU", "ITU" Factors are is the Method, columm "Method" Block vairable is the problem, columm "Problem" Moderator variables are the course where each replication was conducted (columm "Replication") and the MDD tool used (columm "MDD_tool")
DOI: 10.17632/t2b295b4gc.1
title: Long-term gene expression changes in irradiated male and female rhesus macaque

description: Purpose: Long-term transcriptome changes can be expected in survivors after lethal irradiation. We aimed to characterize these changes in males and females and after different cytokine treatments. Material and Methods: Peripheral blood was drawn in male and female rhesus macaque (n=142), which survived whole-body exposure with 700 cGy (LD66/60). Peripheral whole blood was drawn pre-exposure and before sacrificing the surviving animals after 60 days. Results: We evaluated gene expression in a three-phase study design where phase I was a whole-genome screening (NGS) for mRNAs using five pre- and post-exposure RNA samples (n=20). Differential gene expression (DGE) was calculated separately for each sex between samples of survivors and pre-exposure samples, utilized as the reference. Altogether 1,243 up- and down-regulated genes were identified. Altogether 37 candidate mRNAs were chosen for validation in phase II using the remaining samples (n=117) and utilizing qRT-PCR. Altogether 17 genes showed significant or borderline significant (t-test) DGE in groups of untreated or treated males and females, but nine most promising genes (CD248, EDAR, FAM19A5, GAL3ST4, GCNT4, HBG2/1, LRRN1, NOG, SYT14). For phase III, we validated our 41 rhesus macaque candidate genes with results from an earlier conducted study on male baboons. Altogether 34% (14 out of 41) genes showed a concordantly DGE in males of both species (DGE defined as (FC) &gt; |1.5|). Conclusions: 60 days after radiation exposure, we identified (1) cytokine treatment independent long-term transcriptional changes, (2) females with almost twice as much deregulated genes appeared more radio-responsive than males on gene expression level but interestingly did not show a correlation between hematopoietic nadirs and sex in corresponding clinical data and (3) Panther analysis revealed a strong association with immunological processes as well as the WNT pathway for both sexes, highlighting a possible correlation of secondary malignancy development due to immunological alterations.
DOI: 10.17632/gfkkvvm7w8.2
title: Tahoe Rain or Snow Citizen Science Precipitation Phase Data, Winter 2020

description: The CSV file contains precipitation phase observations and other related data from the Tahoe Rain or Snow citizen science project. Between January and May 2020 volunteers reported 1003 observations of precipitation phase (rain, snow, or mixed). Please see the Arienzo et al. (2021) manuscript for details on data collection and processing. Arienzo MM, Collins M and Jennings KS (2021) Enhancing Engagement of Citizen Scientists to Monitor Precipitation Phase. Front. Earth Sci. 9:617594. doi: 10.3389/feart.2021.617594. https://www.frontiersin.org/articles/10.3389/feart.2021.617594/full The README file contains column names and descriptions.
DOI: 10.17632/8jyg659twy.1
title: Ex-Offender Variables used by Doleac with additional 6 variables added with DePaul replication

description: After baseline data were collected, participants were assessed every 6 months for the next 24 months. There were 270 participants, with 90 randomly assigned to each of the three conditions (more details about the characteristics of the sample and the methods are in Jason et al., 2015). We then tried to replicate Doleac et al.’s (2020) difference-in-differences approach, as we used their method in the current study, and we selected a baseline variable that more validly measures criminal justice involvement. In the Doleac et al. (2020) article, the replicators had found that over the past 30 days at baseline, those in the recovery home had 2.54 fewer days incarcerated than controls (means of 1.2 versus 3.7 days incarcerated for the recovery home versus the controls). As mentioned in the introduction, we found conceptual and methodological problems with this baseline measure. In contrast, in the current study, we employed a more valid variable collected at the start of the study, which involved the length of time of the most recent incarceration, and on this measure, recovery home residents evidenced 76.80 more days incarcerated than controls (Table 1 in Jason et al., 2015 indicated means of 16.59 versus 14.03 months for most recent incarceration for recovery home versus controls-- months were calculated into days for the current study). As indicated in the introduction, the baseline variable was changed in this current study to length of time of the most recent incarceration, to reflect what we considered to be a more valid measure of baseline criminal justice involvement. In addition, we investigated two different outcome variables for the waves following baseline. We used the outcome variable employed by Doleac et al. (2018), days incarcerated over the past 30 days, for each of the 4 follow-up assessments that occurred every 6 months. But we also used another outcome measure, a variable involving total months incarcerated over the assessment periods (we recoded months into their respective days for this variable as well as the baseline months of most recent incarceration). This second outcome variable used the full period rather than the final 30-days between each 6-month wave. In doing so, we compiled a more robust method for assessing incarceration activity in between each wave by asking participants how long they have been detained since we last interviewed them. In a study that can be obtained from Leonard Jason, our group assessed how changing the baseline measure of criminal justice involvement alters the difference-in-differences findings reported by Doleac et al. (2020). As their findings focused on the treatment-on-the-treated (TOT) effects (those who participated in the recovery homes for at least 30 days), we also focus on these results that are in a paper that can be obtained from Leonard Jason.
DOI: 10.17632/xktfcbsw4t.1
title: A Computational Framework for Assessment and Design of Sustainable and Circular Economies - Dataset

description: Jupyter Notebook for Illustrative Example Analysis and Synthesis problem in the paper: "Towards Sustainable and Circular Economy: A computational framework for Assessment and Design", J. of Cleaner production 2020. The notebook is based on the Julia Language, and operates with JuMP optimization package. Readme text for operating the notebook is attached within the dataset.
DOI: 10.17632/gf8pnt826y.1
title: Flor et al., Top1-HNE, 2020

description: Data related to 2020 manuscript by Flor et. al submitted to Cell Chemical Biology. Data supports hypothesis that Top1-targeting chemotherapeutic poisons induce off-target effects in tumor cells by generating reactive oxygen species (ROS). ROS production results in lipid peroxidation (LPO) and subsequent generation of lipid-derived electrophiles (LDEs) including 4-hydroxy-2-nonenal (HNE). We show that HNE and other LDEs are able to post-translationally modify topoisomerase 1, inhibit its enzymatic activity, and induce Top1-DNA covalent complexes in tumor cells. Also discussed are cellular effects of Top1 inhibition by various Top1 poisons including accelerated senescence in tumor cells, which may be mediated by Top1-HNE adduct formation.
DOI: 10.17632/zxztfzpbrf.1
title: Assessment of the applicability of COI and 16S gene regions for molecular genetic diagnostics of the species Bactrocera tryoni (Froggatt)

description: The Queensland fruit fly Bactrocera (Bactrocera) tryoni (Froggatt, 1897) is a member of the Tephritidae family and is a serious pest of a wide range of fruit and vegetable crops in Australia. The object of this study, Bactrocera tryoni, belongs to the complex of B. tryoni species, which, in addition to it, includes the species Bactrocera aquilonis (May, 1965), Bactrocera neohumeralis (Hardy, 1951), and Bactrocera melas (Perkins & May, 1949). Since these species are morphologically very similar and some may infect similar products, there is a need for molecular genetic diagnostic methods that will reliably distinguish these species from other species and among themselves. According to the obtained data on the COI gene generally in the sample matrix, there is a hiatus - a gap between intra- and interspecific distances. However, the species B. tryoni, B. aquilonis, and B. neohumeralis on the dendrogram form clades corresponding to the same species, therefore, it is impossible to distinguish them using the sequences of the COI gene region. However, based on this sequence, it is possible to narrow down the identification by molecular genetic methods to these three species, since they are well separated from other studied species. According to the graph of the distribution of pairwise genetic distances for the 16S gene, there is a lower variability than for the COI gene. On the dendrogram, the species B. tryoni, B. aquilonis, and B. neohumeralis form the one clade, but other species formed separate clades. It is necessary to increase the number of 16S gene sequences in the sample for each species. Thus, based on the COI gene sequence, it is possible to separate the species B. tryoni, B. aquilonis, and B. neohumeralis from other species of the genus Bactrocera studied by us. To study the relationships within the complex of B. tryoni species and search for a gene sequence by which it will be possible to reliably differentiate the B. tryoni species, another, possibly more rapidly evolving gene is required.