cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25345/c5pn55
title: MassIVE MSV000086776 - Differentially expressed proteins in Human Primary Keratinocytes upon IL-9 stimulation
title: HPKs from 3-5 healthy individual donors were pre-stimulated with TGFb (10ng/ml) plus IL-4 (20ng/ml) to upregulated the IL-9R (Das et al., 2019). Next day, HPKs were stimulated with IL-9 (50ng/ml) or in combination with IFNg (10ng/ml) for 24 hours at 37 degree C with 5% CO2. Sample preparation for LC-MS/MS was performed as described previously with few modifications. HPKs were lysed in TRIzol reagent (Invitrogen, Carlsbad, CA) and proteins were extracted as per the guidelines by the manufacturer. The instruments were set to MS1 resolution of 70000 and MS2 resolution of 17500. The MS spectra were analysed using the Thermo-scientific mass informatics platform Proteome discoverer version 2.2. Workflows for discovery proteomics were used with both Mascot and SequestHT as search engines. For label-free quantification, the standard LFQ workflows by Thermo were used. The samples were normalized with respect to the peak-area based total peptide amount. The permitted retention time shift (RT) was set to 2 min. Fragment mass tolerance was set to 0.02 Da and the precursor mass tolerance to 2ppm. The false discovery rate (FDR) was set to 0.01 (Strict). Importantly, only unique peptides were considered for peak-area based quantification. For statistical analysis of identified proteins, null hypothesis testing was performed using ANOVA (background based).
DOI: 10.6084/m9.figshare.12015846.v1
title: Data sets S1-S4

description: Data sets S1-S4
DOI: 10.6084/m9.figshare.12651074.v4
title: Extended Data for A rooted phylogeny resolves early bacterial evolution

description: Extended Data for A rooted phylogeny resolves early bacterial evolution
DOI: 10.6084/m9.figshare.13655708
title: Supplementary Material for: Local Regulation of Adrenal Steroidogenesis: Subtle in vitro Effects of IL-1β on the Human Cell Line NCI-H295R Steroid Production along with Changes in MicroRNA Profile and Orphan Nuclear Receptors NR4As

description: <b><i>Introduction:</i></b> IL-1β, a cytokine from the innate immune response, is well known for its proinflammatory effects and stimulating activity on the hypothalamus-pituitary-adrenal axis, leading to the pituitary synthesis of adrenocorticotropic hormone followed by cortisol (and dehydroepiandrosterone – DHEA) release by the adrenal gland. While IL-1β modulates the adrenal steroidogenesis at the central level, it is unclear whether it also exerts an effect on the adrenal gland. <b><i>Method:</i></b> We studied the effect of IL-1β on adrenal steroid production and steroidogenic enzyme RNA expression in the human cell line NCI-H295R. We also explored eventual changes in the microRNA (miRNA) profile from IL-1β-treated NCI-H295R cells. <b><i>Results:</i></b> Transcripts encoding IL-1β receptors 1 and 2 were noticeable in the cell line, with cortisol and DHEA production showing a subtle increase after cytokine treatment. Transcripts from key enzymes in the steroidogenic pathway were analyzed, with no noticeable changes on them. The miRNA profile was modified by IL-1β treatment to an extent which bears some relationship with the regulatory mechanisms underlying adrenal steroid production. Since orphan nuclear receptors NR4As have emerged as potential key factors for coordinating inflammatory and metabolic responses, cell expression studies were also carried out to show an NR4As transcript augmentation following IL-1β treatment. <b><i>Discussion/Conclusions:</i></b> The subtle increase in adrenal steroid production in response to IL-1β stimulation without any modification in the transcription of the steroidogenic enzymes analyzed suggests an additional inflammatory/anti-inflammatory loop, wherein NR4As receptors may participate. Besides its physiological role, this process might be implied in pathological states accompanied by an unbalanced immune-endocrine relationship.
DOI: 10.6084/m9.figshare.13655708.v1
title: Supplementary Material for: Local Regulation of Adrenal Steroidogenesis: Subtle in vitro Effects of IL-1β on the Human Cell Line NCI-H295R Steroid Production along with Changes in MicroRNA Profile and Orphan Nuclear Receptors NR4As

description: <b><i>Introduction:</i></b> IL-1β, a cytokine from the innate immune response, is well known for its proinflammatory effects and stimulating activity on the hypothalamus-pituitary-adrenal axis, leading to the pituitary synthesis of adrenocorticotropic hormone followed by cortisol (and dehydroepiandrosterone – DHEA) release by the adrenal gland. While IL-1β modulates the adrenal steroidogenesis at the central level, it is unclear whether it also exerts an effect on the adrenal gland. <b><i>Method:</i></b> We studied the effect of IL-1β on adrenal steroid production and steroidogenic enzyme RNA expression in the human cell line NCI-H295R. We also explored eventual changes in the microRNA (miRNA) profile from IL-1β-treated NCI-H295R cells. <b><i>Results:</i></b> Transcripts encoding IL-1β receptors 1 and 2 were noticeable in the cell line, with cortisol and DHEA production showing a subtle increase after cytokine treatment. Transcripts from key enzymes in the steroidogenic pathway were analyzed, with no noticeable changes on them. The miRNA profile was modified by IL-1β treatment to an extent which bears some relationship with the regulatory mechanisms underlying adrenal steroid production. Since orphan nuclear receptors NR4As have emerged as potential key factors for coordinating inflammatory and metabolic responses, cell expression studies were also carried out to show an NR4As transcript augmentation following IL-1β treatment. <b><i>Discussion/Conclusions:</i></b> The subtle increase in adrenal steroid production in response to IL-1β stimulation without any modification in the transcription of the steroidogenic enzymes analyzed suggests an additional inflammatory/anti-inflammatory loop, wherein NR4As receptors may participate. Besides its physiological role, this process might be implied in pathological states accompanied by an unbalanced immune-endocrine relationship.
DOI: 10.17894/ucph.0ed9c489-8e52-42fd-b072-a0a0bfc68ab2
title: Meteorological data from the Taastrup Climate and Water Balance Station 2014-2020

description: The dataset contains meteorological data from the Taastrup climate and water balance station operated by the Department of Plant and Environmental Sciences of Copenhagen University. The station is designed to provide data for the calculation of reference evapotranspiration according to the Penman equation, with air temperature, relative humidity wind speed and radiation sensors installed at the height of 2 m above a grass surface equipped with soil heat flux sensors installed 5 cm below the surface. Solid precipitation of rain and snow is measured using weighing gauges installed at 1.5 m and 0 m. The datasets cover the period 2014.01.01 to 2020.12.31 and are available in daily, hourly or 10 minutes time resolutions. A reference metadata file supplements each data set, providing information of data units, sensor type, logging intervals and quality assurance procedure.
DOI: 10.6084/m9.figshare.13633919.v1
title: Srecomendacion

description: Contiene la información de fecham ID, Cuenta, seguidores, seguidos y retwitts, de los Twitts extraídos entre el 30 de diciembre del 2020 hasta el 22 de enero del 2021, para el trabajo final del Master en Gestión Estratégica De La Información Y El Conocimiento De las Organizaciones llamado: ANÁLISIS DE SENTIMIENTOS SOBRE EL SISTEMA FINANCIERO COLOMBIANO UTILIZANDO HERRAMIENTAS DE MINERÍA DE OPINIÓN
DOI: 10.6084/m9.figshare.13633901.v1
title: FechasIDCuenta

description: Contiene la fecha, id y cuenta de los Twitts extraídos entre el 30 de diciembre del 2020 hasta el 22 de enero del 2021, para el trabajo final del Master en Gestión Estratégica De La Información Y El Conocimiento De las Organizaciones llamado: ANÁLISIS DE SENTIMIENTOS SOBRE EL SISTEMA FINANCIERO COLOMBIANO UTILIZANDO HERRAMIENTAS DE MINERÍA DE OPINIÓN
DOI: 10.6084/m9.figshare.13633871
title: TotalTwitts2201.xlsx

description: Contiene la información completa de los Twitts extraídos entre el 30 de diciembre del 2020 hasta el 22 de enero del 2021, para el trabajo final del Master en Gestión Estratégica De La Información Y El Conocimiento De las Organizaciones llamado: ANÁLISIS DE SENTIMIENTOS SOBRE EL SISTEMA FINANCIERO COLOMBIANO UTILIZANDO HERRAMIENTAS DE MINERÍA DE OPINIÓN
DOI: 10.6084/m9.figshare.13633928.v1
title: Replication Package of Our Study

description: This replication package is supplied for the paper "Replicability of Experimental Tool Evaluations in Model-Based Software and Systems Engineering with MATLAB/Simulink". This comes with the four parts:<br><br>I Models, which we found in "models"<br>II SPSS files of basic statistics in "spss"<br>III Matlab + python scripts for analyzing models in "SimuCompAnalysis"<br>IV Raw data and spread sheets of our literature review in "raw_data"<br><br>A concrete Readme is contained in the .zip file.
DOI: 10.6084/m9.figshare.12015846
title: Data sets S1-S4

description: Data sets S1-S4
DOI: 10.6084/m9.figshare.12015846.v3
title: Data sets S1-S4

description: Data sets S1-S4
DOI: 10.6084/m9.figshare.12015846.v2
title: Data sets S1-S4

description: Data sets S1-S4
DOI: 10.6073/pasta/d4f3284e8b1e2b795e822483e1ae394e
title: Global data set of long-term summertime vertical temperature profiles in 153 lakes

description: Climate change and other anthropogenic stressors have led to long-term changes in lake thermal structure, including surface temperatures, deepwater temperatures, and vertical thermal gradients. Though many studies highlight generally consistent warming of surface water temperatures in lakes around the world, less is known about long-term trends in full vertical thermal structure and deepwater temperatures, which have been changing less consistently in both direction and magnitude. Here, we present a globally-expansive data set of summertime in-situ vertical temperature profiles from 153 lakes, with some time series beginning as early as 1912. We also compiled lake geographic, morphometric, and water quality variables that can influence vertical thermal structure through a variety of potential mechanisms in these lakes. These long-term time series of vertical temperature profiles and corresponding lake characteristics serve as valuable data for understanding changes and drivers of lake thermal structure in a time of rapid global and ecological change.
DOI: 10.21335/nmdc-2121248861
title: Dissolved Inorganic Carbon and Total Alkalinity bottle data from Ocean Weather Station M (66 N, 2 E) from 2008 to 2019

description: Time series of inorganic carbon, alkalinity, and hydrography from the fixed station Ocean Weather Station M (OWSM) in the Norwegian Sea at 66 N 2 E. Measurements over the full water depth of 0-2000 m, with monthly resolution in 2008 and 2009 and seasonal resolution from 2010 and onwards. The current data delivery was collected by the weather ship Polarfront between 2008 to 2009, and by various research vessels from 2010 and onwards. Dissolved inorganic carbon and alkalinity data are from discrete bottle samples while hydrography are measured using sensors. Data submitted to SDG14.3.1 OA portal in 2021. November 2019 data points salinity-calibrated.
DOI: 10.6084/m9.figshare.13655507
title: Psygreffe Minful Non-judging-PTSD-HSCT data.sav

description: <b>Mindful non-judging and experiential avoidance predict symptoms of PTSD five months after Hematopoietic Stem Cell Transplantation<br></b>
DOI: 10.6084/m9.figshare.13655507.v2
title: Psygreffe Minful Non-judging-PTSD-HSCT data.sav

description: <b>Mindful non-judging and experiential avoidance predict symptoms of PTSD five months after Hematopoietic Stem Cell Transplantation<br></b>
DOI: 10.6084/m9.figshare.13655507.v1
title: Psygreffe Minful Non-judging-PTSD-HSCT data.sav

description: <b>Mindful non-judging and experiential avoidance predict symptoms of PTSD five months after Hematopoietic Stem Cell Transplantation<br></b>
DOI: 10.5281/zenodo.4475709
title: bachelor-thesis: Rapid Review - Distribution of the included papers

description: This item contains the distribution of the included results from the search engines
DOI: 10.5281/zenodo.4475708
title: bachelor-thesis: Rapid Review - Distribution of the included papers

description: This item contains the distribution of the included results from the search engines
DOI: 10.6084/m9.figshare.13655801
title: Supplementary Material for: Does the Trimester of Smoking Matter in the Association between Prenatal Smoking and the Risk of Early Childhood Caries?

description: <b><i>Introduction:</i></b> Development of the primary tooth bud commences at the end of the 5th week of gestation, with mineralization starting at about the 13th week and continuing throughout pregnancy to the end of the first year of life. During this critical period, exposure to maternal lifestyle factors, specifically, prenatal smoking can negatively affect the quality (i.e., tooth calcification and mineralization) and timing of tooth eruption. <b><i>Methods:</i></b> This study evaluated the association between the trimester of smoking and offspring caries experience at 3 time points (31, 43, and 61 months) by analyzing data from 1,429 mother-offspring participants in the 1991/92 Avon Longitudinal Study of Parents and Children, conducted in Bristol, England. Prenatal smoking in the first, second, and third trimesters were self-reported during pregnancy while offspring caries experience was determined by clinical oral examinations. Adjusted for confounders, log-binomial regression estimated the risk ratio (RR) and 95% confidence interval (CI) of the association between trimester of smoking and the risk of offspring caries. <b><i>Results:</i></b> Twenty percent smoked in the first trimester of their pregnancy, 15% in the second, and 17% in the third. Forty-six percent of children whose mothers smoked during pregnancy had caries experience (i.e., dmft ≥1) with a mean dmft count of 1.58, versus children whose mothers did not smoke during pregnancy (33% of whom had dmft ≥1 with a mean dmft count of 0.33). Smoking in the first, second, and third trimesters were independently associated with a higher adjusted RR (95% CI) of caries experience at 61 months, i.e., 1.16 (0.93–1.43), 1.11 (0.75–1.65), and 1.60 (1.09–2.32), respectively. <b><i>Conclusions:</i></b> Within the limitations of covariates adjusted for, with the caveat that residual confounding and bias from unmeasured covariates are likely present, our findings suggest that smoking during pregnancy may be harmful to the oral health of the offspring irrespective of the trimester during which the smoking occurred. Nevertheless, these results should be interpreted cautiously because the findings might not generalize broadly.
DOI: 10.6084/m9.figshare.13655801.v1
title: Supplementary Material for: Does the Trimester of Smoking Matter in the Association between Prenatal Smoking and the Risk of Early Childhood Caries?

description: <b><i>Introduction:</i></b> Development of the primary tooth bud commences at the end of the 5th week of gestation, with mineralization starting at about the 13th week and continuing throughout pregnancy to the end of the first year of life. During this critical period, exposure to maternal lifestyle factors, specifically, prenatal smoking can negatively affect the quality (i.e., tooth calcification and mineralization) and timing of tooth eruption. <b><i>Methods:</i></b> This study evaluated the association between the trimester of smoking and offspring caries experience at 3 time points (31, 43, and 61 months) by analyzing data from 1,429 mother-offspring participants in the 1991/92 Avon Longitudinal Study of Parents and Children, conducted in Bristol, England. Prenatal smoking in the first, second, and third trimesters were self-reported during pregnancy while offspring caries experience was determined by clinical oral examinations. Adjusted for confounders, log-binomial regression estimated the risk ratio (RR) and 95% confidence interval (CI) of the association between trimester of smoking and the risk of offspring caries. <b><i>Results:</i></b> Twenty percent smoked in the first trimester of their pregnancy, 15% in the second, and 17% in the third. Forty-six percent of children whose mothers smoked during pregnancy had caries experience (i.e., dmft ≥1) with a mean dmft count of 1.58, versus children whose mothers did not smoke during pregnancy (33% of whom had dmft ≥1 with a mean dmft count of 0.33). Smoking in the first, second, and third trimesters were independently associated with a higher adjusted RR (95% CI) of caries experience at 61 months, i.e., 1.16 (0.93–1.43), 1.11 (0.75–1.65), and 1.60 (1.09–2.32), respectively. <b><i>Conclusions:</i></b> Within the limitations of covariates adjusted for, with the caveat that residual confounding and bias from unmeasured covariates are likely present, our findings suggest that smoking during pregnancy may be harmful to the oral health of the offspring irrespective of the trimester during which the smoking occurred. Nevertheless, these results should be interpreted cautiously because the findings might not generalize broadly.
DOI: 10.25442/hku.13503291
title: Raw data for "Adiponectin-expressing Treg facilitate T lymphocyte development in thymic nurse cell complexes"

description: This file contains the raw data for all Figures in the manuscript entitled "Adiponectin-expressing Treg facilitate T lymphocyte development in thymic nurse cell complexes" to be published by the journal Communications Biology (COMMSBIO-20-1888B). Data has been organized in different worksheets according to the order of Figures.<br>
DOI: 10.20363/gbol-20200426
title: German Barcode of Life Dataset Release
DOI: 10.6073/pasta/704fb47f04bcc37aca6f8488dd63dc84
title: Light Environment in Hemlock Removal Experiment at Harvard Forest since 2004

description: The impending loss of hemlock trees due to hemlock woolly adelgid (Adelges tsugae) infestation is expected to lead to changes in the light environment of the forest understory. These changes will both drive succession and will themselves be altered by successional processes. The light reaching the forest floor is measured using hemispherical canopy photographs. Photographs were taken in December 2004 and May 2005 (both deciduous-tree leaf-off condition), prior to the application of the logging and girdling treatments, and then in September 2005 (deciduous tree leaf-on condition) after logging and girdling. Subsequent photographic series will be taken annually in spring (leaf-off) and summer/fall (leaf-on).
DOI: 10.6084/m9.figshare.13655453
title: DT_result_JTUT_JCUC_JCJT_UCUT _

description: data
DOI: 10.6084/m9.figshare.13655453.v4
title: DT_result_JTUT_JCUC_JCJT_UCUT _

description: data
DOI: 10.6084/m9.figshare.13655453.v3
title: DT_result_JTUT_JCUC

description: data
DOI: 10.5281/zenodo.4475905
title: Multiple sequence alignments of full-length L1 elements with evidence of retrotransposition activity.

description: DNA sequences for full-length L1 elements showing evidence of retrotransposition activity were aligned using MUSCLE v3.8 with default number of iterations. Manual inspection of the multiple alignments was performed with Jalview v2.11 in order to remove upstream and downstream spurious sequences. <em>selected_active_L1sOK_aligned_trimmed.fa</em> file includes aligned DNA sequences for 86 full-length L1Hs with medium-high activity and for 1 active L1Pt (outgroup). <em> all_active_L1sOK_aligned_trimmed.fa</em> file includes aligned DNA sequences for 143 active L1Hs and for 1 active L1Pt (outgroup).
description: Additional details about this dataset can be provided by the author upon request.
DOI: 10.5281/zenodo.4475904
title: Multiple sequence alignments of full-length L1 elements with evidence of retrotransposition activity.

description: DNA sequences for full-length L1 elements showing evidence of retrotransposition activity were aligned using MUSCLE v3.8 with default number of iterations. Manual inspection of the multiple alignments was performed with Jalview v2.11 in order to remove upstream and downstream spurious sequences. <em>selected_active_L1sOK_aligned_trimmed.fa</em> file includes aligned DNA sequences for 86 full-length L1Hs with medium-high activity and for 1 active L1Pt (outgroup). <em> all_active_L1sOK_aligned_trimmed.fa</em> file includes aligned DNA sequences for 143 active L1Hs and for 1 active L1Pt (outgroup).
description: Additional details about this dataset can be provided by the author upon request.
DOI: 10.15468/e9wkah
title: Generic relationships of New World Jerusalem crickets (Orthoptera: Stenopelmatoidea: Stenopelmatinae), including all known species of Stenopelmatus

description: This dataset contains the digitized treatments in Plazi based on the original journal article Weissman, David B., Vandergast, Amy G., Song, Hojun, Shin, Seunggwan, Mckenna, Duane D., Ueshima, Norihiro (2021): Generic relationships of New World Jerusalem crickets (Orthoptera: Stenopelmatoidea: Stenopelmatinae), including all known species of Stenopelmatus. Zootaxa 4917 (1): 1-122, DOI: https://doi.org/10.11646/zootaxa.4917.1.1
DOI: 10.6084/m9.figshare.13655822
title: Dataset used to investigate healthcare workers' pursuit of happiness in Kenya RNDKM.xlsx

description: This data was collected among healthcare workers (n=553) in public and private-not-for-profit (mission/faith-based) hospitals in Meru County, Kenya.The dataset includes some demographic and work-related variables from variable 1 to 25 and, the results from the Orientations to happiness (OTH) questionnaire (Var 26-43) reference: Reference: Peterson, C.; Park, N.; Seligman, M. Orientations to happiness and life satisfaction: the full life versus the empty life. Journal of Happiness Studies 2005, 6, 25-41, doi:http://dx.doi.org/10.1007/s10902-004-1278-zThe healthcare workers' overall happiness scores were calculated based on the responses from Var 26-43, which are presented in Var 44.Below the dataset on the same data spreadsheet, are variable definitions. It includes the variable label e.g., Var 1, Var 2 etc; the variable definitions and coding descriptions.<br>Ethical approval to collect this data was sought from:1. The University of Pretoria, Faculty of Health Sciences Research Ethical Committee, South Africa (Reference number: <i>718/2019</i>).2. The United States International University-Africa, Institutional Review Board (IRB), Kenya (Reference number: <i>USIU-A/IRB/130-2020</i>).3. The National Commission for Science, Technology, and Innovation (NACOSTI), Kenya (Research licence number: <i>901924</i>). <br>
DOI: 10.5281/zenodo.3254386
title: Benchmarking Smartphone Fluorescence-Based Microscopy with DNA Origami Nanobeads: Reducing the Gap toward Single-Molecule Sensitivity

description: Smartphone-based fluorescence microscopy has been rapidly developing over the last few years, enabling point-of-need detection of cells, bacteria, viruses, and biomarkers. These mobile microscopy devices are cost-effective, field-portable, and easy to use, and benefit from economies of scale. Recent developments in smartphone camera technology have improved their performance, getting closer to that of lab microscopes. Here, we report the use of DNA origami nanobeads with predefined numbers of fluorophores to quantify the sensitivity of a smartphone-based fluorescence microscope in terms of the minimum number of detectable molecules per diffraction-limited spot. With the brightness of a single dye molecule as a reference, we compare the performance of color and monochrome sensors embedded in state-of-the-art smartphones. Our results show that the monochrome sensor of a smartphone can achieve better sensitivity, with a detection limit of ∼10 fluorophores per spot. The use of DNA origami nanobeads to quantify the minimum number of detectable molecules of a sensor is broadly applicable to evaluate the sensitivity of various optical instruments.