cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19649910.v1
title: Supplementary Material for: Nanomolar responsiveness of marine Phaeobacter inhibens DSM 17395 toward carbohydrates and amino acids

description: Phaeobacter inhibens DSM 17395 is a heterotrophic member of the ubiquitous, marine Roseobacter group and specialized in the aerobic utilization of carbohydrates and amino acids via pathways widespread among roseobacters. The in vivo responsiveness of P. inhibens DSM 17395 was studied with non-adapted cells (succinate-grown), which were exposed to a single pulse (100-0.01 µM) each of N-acetylglucosamine, mannitol, xylose, leucine, phenylalanine or tryptophan (effectors). Responsiveness was then determined by time-resolved transcript analyses (qRT-PCR) of 'degradation' and 'uptake' genes selected based on previously reported substrate-specific proteome profiles. The transcriptional response thresholds were: 50-100 nM for nagK (N-acetylglucosamine kinase), paaA (ring 1,2-phenylacetyl-CoA epoxidase), and kynA (tryptophan 2,3-dioxygenase), 10-50 nM for xylA (xylose isomerase), and around 10 nM for mtlK (mannitol 2-dehydrogenase). A threshold for leucine could not be determined due to the elevated intrinsic presence of leucine in the exometabolome of succinate-grown cells (no effector addition). Notably, the response thresholds for presumptive carbohydrate-binding proteins of ABC-transporters were in the same range or even lower: 10-100 nM for c27930 (N-acetylglucosamine) and even below 10 nM for c13210 (mannitol) and xylF (xylose). These results shed new light on the sensory/regulatory sensitivity of a well-studied roseobacter for recognizing potential substrates at low ambient concentrations and on the concentration threshold below which these might escape biodegradation ('emergent recalcitrance' concept of DOM persistence).
DOI: 10.6084/m9.figshare.21744299.v1
title: Climate change helps polar invasives establish and flourish: evidence from long-term monitoring of the blowfly Calliphora vicina

description: Long-term meteorological monitoring (temperature, precipitation, snow, sun) at the Kerguelen Islands (Port aux Français). The files also report the invasion trajectory of the blowfly <em>Calliphora vicina</em> Robineau-Desvoidy (1830) from the sub-Antarctic Kerguelen Islands. In the 1970s, it is thought to have persisted only in sheltered microclimates for several decades. The phenology and invasion dynamics was monitored at the Kerguelen Islands since it has been first recorded using baited traps and opportunitic observation from 1978 onwards.
DOI: 10.6084/m9.figshare.24448450.v1
title: Supplementary Material for: Expression of apelin and apelin receptor protein in the hypothalamo–pituitary–ovarian axis during estrous cycle of mice

description: Introduction: Apelin is an endogenous neuropeptide expressed in the hypothalamus, pituitary and ovary; binds to apelin receptor for various functions. Hypothalamus, pituitary and ovarian axis is tightly regulated during estrous cycle. The status of apelin and its receptor has not been investigated in HPO axis during estrous cycle. Methods: To explore the expression of apelin and APJ in HPO axis of mice during estrous cycle, mice were divided into four groups as proestrus, estrus, metestrus and diestrus, and apelin and apelin receptor were checked. Further, to explore the role of apelin in the gonadotropin secretion, in vitro study of pituitary was performed at proestrus and estrus stages. Result: The expression apelin and APJ in the hypothalamus showed elevation during estrous cycle of post-ovulatory phases, metestrus and diestrus. The immunolocalization of apelin and APJ in the anterior pituitary showed more abundance in the estrus and diestrus. In vitro results showed that GnRH agonist simulated LH secretion was suppressed by the apelin13 peptide from pituitary of proestrus and estrus phases. This suggests an inhibitory role of apelin on the gonadotropin secretion. The ovary also showed conspicuous changes in the presence of apelin and APJ during estrous cycle. The expression of apelin and APJ coincides with folliculogenesis and corpus luteum formation and expression of apelin system in the different cell types of ovary suggest its cell specific role. Apelin has shown stimulatory role in the ovarian steroid secretion, proliferation and corpus luteum. Conclusion: Overall our results showed that apelin system changes along HPO axis during estrous cycle and might have an inhibitory at level of hypothalamus and pituitary and stimulatory at ovarian level.
DOI: 10.6084/m9.figshare.814471.v1
title: Gaussian Job Archive for C18H25NO4

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.8867645.v1
title: classification1d.nc

description: A synthetic one dimensional logistic regression dataset with latent slope and intercept, passed into a Bernoulli random variable. One hundred data points, fit with PyMC3.<br>True slope and intercept are included as deterministic variables.
DOI: 10.6084/m9.figshare.24126585.v1
title: Race Matters STUDY 1 (data and syntax, SPSS)

description: Data reflects the results of a 3 (Disorder; Depression, Schizophrenia, Health control) by 3 (Race: Asian, Black, White) experimental study in which we measured stigma and racial stereotypicality as outcome measures.
DOI: 10.6084/m9.figshare.12906878.v2
title: SF2_optical bandgap.txt

description: Absorption and photoluminescence spectra of neat donors and acceptors films, as presented in supplementary information figure S2.<br>
DOI: 10.6084/m9.figshare.15377112.v4
title: Supplemental Information S12: Effect of two successive stimulation experiment LabChart data file

description: LabChart data file of effect of two successive stimulation experiment. The file can be opened using LabChart reader software provided freely by ADInstruments, Australia at https://www.adinstruments.com/products/labchart-reader. The inter-pulse interval was changed by changing the frequency of stimulation between the two stimuli from 2 Hz-1000 Hz.
DOI: 10.6084/m9.figshare.27087673.v2
title: Supplementary Material for: Vitamin A deficiency disturbs Ret expression and induces urinary tract developmental abnormalities in mice

description: Abstract
Introduction: Moderate vitamin A levels during pregnancy are strongly related to normal embryonic development in both animal models and population studies. Abnormal development of urinary tract system is linked to either an excess or a shortage of vitamin A. The relationships among maternal vitamin A deficiency prior to conception, moderate vitamin A supplementation during pregnancy, and abnormal urinary system development in offspring are unclear. 
Methods: By creating preconception and preconception + pregnancy vitamin A insufficiency mouse models, we investigated whether moderate vitamin A treatment during pregnancy may reduce the prevalence of CAKUT and increase distant vitamin A levels in offspring, as well as any potential pathways involved. 
Results: We effectively established a prepregnancy vitamin A-deficient mouse model by providing a particular diet with or without vitamin A for four weeks. The offspring of the hypovitaminosis A model group presented a greater proportion of neonatal urinary tract developmental malformations. Abnormalities in ureteral bud emergence and key molecules during renal development, such as p-Plcγ and Ret, may be the primary causes of offspring development of CAKUT as a result of mothers’ hypovitaminosis A. Normal vitamin A diets, on the other hand, may help mitigate the teratogenic consequences of prepregnancy hypovitaminosis A, as well as defects produced by ureteral budding and major molecular changes.
Conclusion: In contrast, the administration of normal vitamin A feeds during pregnancy may ameliorate the teratogenic effects of prepregnancy hypovitaminosis A to a certain extent and may also ameliorate the abnormalities associated with ureteral budding and key molecular changes.
DOI: 10.6084/m9.figshare.8035235.v1
title: Mobile_and_Stationary_Anemometer_Wind-SoutheasternSK_May2017.csv

description: A .csv file containing mobile and stationary anemometer measurements sampled along a square route with 12.8 km perimeter in Southeastern Saskatchewan, Canada. Mobile anemometer measurements of wind speed and wind direction were sampled at 1 Hz on public roads using a RM Young 86004 ultrasonic anemometer mounted on a 1.2 m tall mast above the cap of a 2016 Toyota Tacoma. The anemometer was positioned 0.5 m from the longitudinal axis of the truck on the driver’s side, and 0.3 m behind the start of the truck’s cap. Stationary anemometer measurements were collected using Decagon Device DS-2 sonic anemometers mounted at a height of 3 m above the ground. Measurements of time, wind speed, maximum gust, and direction were recorded with a Decagon Device Em50 datalogger in one minute intervals at the same time the mobile anemometer measurements were sampled. The GPS Coordinates of the Stationary Anemometers are Station 1 : N 49°26.678 W 103°49.350; Station 2: N 49°27.881 W 103°49.040; Station 3: N 49°27.762 W 103°46.664; Station 4: N 49°26.122 W 103°46.890. All sample times have been converted to Central Standard Time (CST). Wind speed and wind gust measurements are in km/h, and wind direction measurements are in degrees.
DOI: 10.6084/m9.figshare.15001182.v5
title: greenteg-core-axillary-5min

description: Readings from the GreenTEG CORE sensor, which measures the core body temperature non-invasively continuously 24/7 from an axially/apically placed sensor maintained with a Polar Pro chest strap. See the dataset greenteg-core-axillary for more infos. <br> <br> The difference with the greenteg-core-axillary dataset is that this one is generated by the cloud (cloud.corebodytemp.com), which is accessible to all users even without a Research license. It is however limited to a sampling resolution of one sample every 5 min (0.0033... Hz), whereas with the Research license as in the greenteg-core-axillary dataset, the sampling rate is 1 Hz (one sample per second). However, most if not all past studies on core body temperature used sampling rates of 5min or more (usually 10min), so this sampling rate should be sufficient for most experimental purposes. <br> This dataset is also likely more complete than the greenteg-core-axillary dataset, as the memory on the CORE device is of 3.5 days for a 1 Hz resolution, and 6 days for a one sample per 5 min resolution (by connecting to the cloud at least once every 48h), but is more coarsely grained as a trade-off. Both datasets are acquired simultaneously, the CORE can do both with a Research license using the same sensor. <br> This is the only sensor that was brought for travel during the period of 2021-08-21 to 2021-09-13.
DOI: 10.6084/m9.figshare.5848221.v1
title: Dataset of monitoring of ceramic grinding tools

description: This repository contains the data that were used in following article: <br>Monitoring of ceramic grinding tools using amplitude modulation of vibration acceleration (under review.)<br>Test01, 02 and 03.txt are the results of the side-face grinding tests using a cylindrical tool with a diameter of 20 mm, corresponding to the Table 1 and the Figure 5–10. <br>Test04.txt is the result of the additional side-face grinding test, corresponding to the Table 2 and the Figure 11. <br>Test05, 06 and 07.txt are the results of the side-face grinding tests using a cylindrical tool with a diameter of 9 mm and divided edge, corresponding to the Table 3 and the Figure 15–17. <br>Test08–16.txt are the results of the upper-surface grinding tests using a cylindrical tool with a diameter of 10 mm, corresponding to the Table 4 and the Figure 19, 20. <br>ToolProfile_DamagedPart.txt, ToolProfile_UndamagedPart.txt are surface shape of tool after crash damage to tool, corresponding to the Figure 13. <br>
DOI: 10.6084/m9.figshare.13414697.v3
title: Middle Miocene (~14 Ma) and Late Miocene (~6 Ma) Paleogeographic Boundary Conditions

description: Two sets of paleotopographic and paleobathymetric boundary conditions for the middle Miocene (~14 Ma) and late Miocene (~6 Ma).
DOI: 10.6084/m9.figshare.3553881.v1
title: Appendix A. Site characteristics and experimental design for 15N tracer studies included in the meta-analysis.

description: Site characteristics and experimental design for 15N tracer studies included in the meta-analysis.
DOI: 10.6084/m9.figshare.13482810.v1
title: Source Data.xls

description: This is the Source Data file of the article entitled Efficacy and Tolerability of Bevacizumab in Patients with Severe Covid-19.
DOI: 10.17633/rd.brunel.28524245.v1
title: Usability evaluation of a physical activity smartphone application in wheelchair users with spinal cord injury

description: This dataset contains raw quantitative data collected to evaluate system usability, e-loyalty, user experience and intentions to use a physical activity App (MvBii) that was evaluated within this project. Participants completed the following questionnaires to evaluate system usability, user experience and intentions to use the App. Each item used a 7-point Likert scale ranging from “Strongly disagree” to “Strongly agree” to evaluate the following constructs: System Usability Scale (SUS): a 10-item questionnaire to provide a global subjective opinion of usability (Brooke, 1996). E-loyalty: assessed using three items that measured intention to use the App again in the future (Crutzen et al., 2011). User Experience: assessed using four items that evaluated perceived efficiency, effectiveness, trustworthiness, enjoyment and active trust (Crutzen et al., 2011). Intention to use the App: a single item derived from socio-cognitive models (e.g. Theory of Planned Behaviour and I-Change Model) to reflect the most proximal determinant of behaviour (e.g. adoption of an intervention) (K. L. Cheung et al., 2018).
DOI: 10.6084/m9.figshare.19243578.v1
title: Concerto pre-built reference

description: We have built a multi-tissue and multi-donor references of mouse cells, including a FACS reference and a droplet reference (Tabula Muris Senis). We also demonstrate the ability to build a million scale reference by integrating multi-protocol datasets, which consist of 1.46 million cells (Ren et al) sequenced by 10X protocol and 42,752 cells (Zhu et al) sequenced by DNBelab C4 system.
DOI: 10.6084/m9.figshare.24550507.v1
title: Supplementary Material for: Analysis of rare variants in 470,000 exome-sequenced UK Biobank participants implicates novel genes affecting risk of hypertension

description: Introduction A previous study of 200,000 exome-sequenced UK Biobank participants to test for association of rare coding variants with hypertension implicated two genes at exome-wide significance, DNMT3A and FES. A total of 42 genes had an uncorrected p value &lt; 0.001. These results were followed up in a larger sample of 470,000 exome-sequenced participants. Methods Weighted burden analysis of rare coding variants in a new sample of 97,050 cases and 172,263 controls was carried out for these 42 genes. Those showing evidence for association were then analysed in the combined sample of 167,127 cases and 302,691 controls. Results The association of DNMT3A and FES with hypertension was replicated in the new sample and they and the previously implicated gene NPR1, which codes for a membrane bound guanylate cyclase, were all exome-wide significant in the combined sample. Also exome-wide significant as risk genes for hypertension were GUCY1A1, ASXL1 and SMAD6, while GUCY1B1 had a nominal p value of &lt; 0.0001. GUCY1A1 and GUCY1B1 code for subunits of a soluble guanylate cyclase. For two genes, DBH, which codes for dopamine beta hydroxylase, and INPPL1, rare coding variants predicted to impair gene function were protective against hypertension, again with exome-wide significance. Conclusion The findings offer new insights into biological risk factors for hypertension which could be the subject of further investigation. In particular, genetic variants predicted to impair the function of either membrane-bound guanylate cyclase, activated by natriuretic peptides, or soluble guanylate cyclase, activated by nitric oxide, increase risk of hypertension. Conversely, variants impairing the function of dopamine beta hydroxylase, responsible for the synthesis of norepinephrine, reduce hypertension risk. This research has been conducted using the UK Biobank Resource.
DOI: 10.6084/m9.figshare.12212576.v1
title: Supplementary Material for: New Criterion to Evaluate Acute-on-Chronic Kidney Injury Based on the Creatinine Reference Change

description: <b><i>Background:</i></b> The lack of consensus criteria of acute on chronic kidney injury (ACKI) affects the judgment for its clinical prognosis. <b><i>Methods:</i></b> In this study, we analyzed the data from 711,615 hospitalized adults who had at least 2 serum creatinine (SCr) tests within 30 days. We estimated the reference change value (RCV) of SCr given initial SCr level in adults without known risks of acute kidney injury other than chronic kidney disease (CKD). We proposed a criterion for ACKI based on the RCV of SCr (cROCK), which defined ACKI as a ≥25% increase in SCr in 7 days. We validated cROCK by its association with the risks of in-hospital mortality, death after discharge, and CKD progression in a large cohort of patients with CKD stage 3. <b><i>Results:</i></b> In 21,661 patients with CKD stage 3, a total of 3,145 (14.5%), 1,512 (7.0%), and 221 (1.0%) ACKI events were detected by both cROCK and Kidney Disease Improving Global Outcomes (KDIGO), cROCK only, and KDIGO only, respectively. cROCK detected 40% more ACKI events than KDIGO. Compared with patients without ACKI by both definitions, those with cROCK- but not KDIGO-defined ACKI had a significantly increased risk of in-hospital mortality (hazard ratio [HR] 5.53; 95% CI 3.75–8.16), death after discharge (HR 1.51; 95% CI 1.21–1.83), and CKD progression (OR 5.65; 95% CI 3.05–10.48). <b><i>Conclusions:</i></b> RCV-based criterion (cROCK) for ACKI is clinically valid in that it has a substantially improved sensitivity in identifying patients with high risk of adverse outcomes.
DOI: 10.6084/m9.figshare.12578633.v1
title: Association of uterine dimensions and route of contained morcellation following laparoscopic hysterectomy

description: Larger uterine dimensions are associated with increased total operating and morcellation times. Uterine size and volume on pre-operative imaging were not associated with route of morcellation, but there was a trend towards failed vaginal extraction when uterine dimensions exceeded 16 centimeters.
DOI: 10.5281/zenodo.11559128
title: Supplementary data Guo et al. Brachiopod morphological evolution

description: Supplementary Data and Code of Guo et al. (2024, Nature Ecology & Evolution)

Contents:

1. The folder 'Morphological_data' includes the compiled morphological matrices, calculated distance matrices, and calculated disparities.The distance matrices and disparities can be used to plot figures.References used to encode continuous characters are provided in the Morphological_data_origination.xlsx.For a detailed description of characters, see Supplementary Information of the paper.

2. The folder 'Original_data' includes occurrences downloaded from the PBDB and Permian-Jurassic occurrences added by Guo et al. (2023).

3. The folder 'R_script' includes functions and scripts to perform the analysis.

4. The folder 'Revised_data' includes the revised occurrence data.
DOI: 10.6084/m9.figshare.12376955.v1
title: Dissemination data from the book "Efficient Joint Analysis of Surface Waves and Introduction to Vibration Analysis: Beyond the Clichés" (Dal Moro Giancarlo, 2020), Springer, ISBN 978-3-030-46302-1

description: The "Data_Dissemination_Efficient_Surface_Waves_Vibrations_Springer2020_Dal_Moro.rar" archive contains a series of datasets presented and analyzed in the book "Efficient Joint Analysis of Surface Waves and Introduction to Vibration Analysis: Beyond the Clichés " (Dal Moro Giancarlo, 2020 - Springer [https://www.springer.com/gp/book/9783030463021]).<br><br>For each dataset, details are provided in the specific subfolder.<br><br>
DOI: 10.6084/m9.figshare.27312819.v1
title: PIs in potato tomato and tobacco

description: Phytopathogens and insect pests produce plant cell wall degrading proteases to degrade and inhabit the plant tissues. In response, plants produce protease inhibitors (PIs) that bind to and inactivate these proteases, playing a crucial role in disease resistance. The wild plants varieties, which have not been extensively exposed to multitude of phytopathogens, tend to possess more reselient disease resistant PIs. Given the importance of PIs from wild type species, we performed a comprehensive analysis of PIs from three solanaceae crops-potato, tomato and tobacco- across 23 wild and domesticated vatieties, with the objective of identifying potential candidates effective in combating devastating proteases produced by phytopathogens.
DOI: 10.6084/m9.figshare.7930577.v1
title: gVCF_NA19719

description: 1000 Genomes gVCF mapped to hs37d5 for NA19719. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.12017886.v2
title: Dataset of article: Is adherence to the 24-hour movement guidelines associated with a reduced risk of adiposity among children and adolescents?

description: This file contains data for an article entitled: Is adherence to the 24-Hour Movement Guidelines associated with a reduced risk of adiposity among children? published in BMC Public Health.
DOI: 10.6084/m9.figshare.12858176.v1
title: Protein Biomarkers and Risk Scores in Pulmonary Arterial Hypertension Associated with Ventricular Septal Defect: Integration of Multi-Omics and Validation

description: The molecular mechanisms underlying pulmonary arterial hypertension (PAH) in congenital ventricular septal defects (VSD) are unclear. We aimed to reveal molecular pathways and potential biomarkers by multi-omics analysis in VSD-PAH. Plasma from 160 children, including 120 VSD patients with/without PAH and 40 healthy children was studied by integrated proteomics, metabolomics, and bioinformatics analyses. Proteomics (iTRAQ) identified 107 differential proteins (DPs) between patients with/without PAH including significantly increased ADIPO, DBH, ANPEP, TRF1, GP1BA and decreased GNAS in VSD-PAH. Metabolomics discovered 191 differential metabolites between patients with/without PAH including elevation of 5-HT, taurine, creatine, sarcosine, and 2-oxobutanoate and decrease of vanillylmandelic acid, 3,4-dihydroxymandelate, 15-Keto-PGF2𝛼, fructose-6-phosphate , L-glutamine, dehydroascorbate, hydroxypyruvate, threonine, L-cystine, and 1-aminocyclopropane-1-carboxylate. The DPs differential proteins were validated in a new cohort of patients (N=80). Integrated analyses identified key pathways including cAMP, ECM-receptor interaction, AMPK, HIF-1, PI3K-Akt signaling pathways, and amino acid metabolisms. Increased plasma protein levels of DBH, ADIPO, and ANPEP were found to be independently associated with the occurrence of PAH with a new total risk score from these three proteins developed for clinical diagnosis. In this integrated multi-omics analysis in VSD-PAH patients, we have for the first time found that VSD-PAH patients present important differential proteins, metabolites, and key pathways. We have developed a total-risk-score (based on the plasma concentration of DBH, ANPEP and ADIPO) as predictor of development of PAH in CHD-VSD patients. Therefore, these proteins may be used as biomarkers and the new total-risk-score has significant clinical implications in the diagnosis of PAH.
DOI: 10.6084/m9.figshare.23898507.v1
title: SPMD2(DAS2)_car_following_set

description: SPMD2(DAS2)_car_following_set, including train, test and validation data.
DOI: 10.6084/m9.figshare.19499417.v1
title: patches and local annotations, slide 149, zoom 248x248 um2

description: patches and local annotations: data for slide with ID of the last 3 characters of the file name: local annotations in csv format and a folder with patches at zoom level indicated at the 6th character of the file name