cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7776371
title: A multifaceted isoneutral eddy transport diagnostic framework and its application in the Southern Ocean -- datasets

description: We propose a multifaceted isoneutral eddy transport diagnostic framework and apply it in the Southern Ocean to analyze eddy potential vorticity (PV) transport dynamics. We leverage a thickness-weighted spatiotemporal scale separation to define a generalized form of eddy flux. A local sampling method is employed and validated to estimate the transport tensor. We introduce Leonard’s decomposition and stationary-transient decomposition to diagnose the role of multiscale interactions. The non-Reynolds term under Leonard’s decomposition and the stationary effect perform prominently in determining the transport property. The Reynolds and transient parts have distinctions, that show oceanic mesoscale dynamics are not synergistic in time and spatial scales. We investigate the spatial scale dependence of each part and find that the transient and stationary components of the Reynolds (non-Reynolds) term have consistent (dissimilar) scale dependence. The scale dependence of the total eddy flux and the transport eigenvalues is controlled by the non-Reynolds term. We further investigate the eigenvalues in terms of the potential enstrophy budget and anisotropy. The potential enstrophy in the Southern Ocean holistically has a forward cascade on the researched scales. The Reynolds and transient effects efficiently promote the forward enstrophy cascade. The non-Reynolds and stationary effects stimulate drastically anisotropic eddy transport. The PV gradient barrier mechanism dominates the drastic anisotropic case. When the anisotropy is weak, a special anisotropic case with a locally balanced potential enstrophy budget overwhelms the case of real isotropy. The results urge future diagnostic works to examine the generalized eddy flux form in a spatiotemporal sense.
DOI: 10.5281/zenodo.7813772
title: MD simulations of FVa membrane binding 2/4

description: For details see the publication:<br> "Understanding the complex membrane binding of a protein with multiple anchoring domains"<br> By J. J. Madsen & Y. Z. Ohkubo
DOI: 10.5281/zenodo.7958199
title: Satellite-derived sunshine duration product - DISSM/INPE

description: This dataset is the satellite-derived sunshine duration (SDU) product developed at the Satellite and Meteorological Sensors Division of the National Institute of Space Research for the period from September 2013 to December 2017. The data is delivered as daily SDU in hours, it has a spatial resolution of 0.04 degree on a regular latitude-longitude grid of 1800x1800 pixels within latitudes 50°S to 21.96°N and longitudes 100°W to 28.04°W. Each netCDF file correspond to a day and has a size of 26MB. Validation with in situ measurements and intercomparison with other satellite product is currently being submitted for peer review.
DOI: 10.5281/zenodo.7963354
title: GOES 13 - visible reflectance

description: This dataset is the GOES 13 visible reflectance provided by the Satellite and Meteorological Sensors Division of the National Institute of Space Research. Each file is the reflectance for a given observation time, varying from 0 to 1. The files are binary data in int16, big-endian. The data corresponds to the observations within 14 and 16 UTC for January, April, July and October from 2013 to 2017. It has a spatial resolution of 0.04 degree on a regular latitude-longitude grid of 1800x1800 pixels within latitudes 50°S to 21.96°N and longitudes 100°W to 28.04°W. S11235426_yyyymmddhhmm.ref yyyy - year mm - month dd - day hh - hour mm - minute
DOI: 10.5281/zenodo.8023760
title: Supporting data to Heterogeneity in spatiotemporal variability of High Mountain Asia's runoff and its underlying mechanisms

description: This dataset includes (1) the boundary of 12 basins over the southern High Mountain Asia, (2) their climate and catchment properties, (3) significance of interannual, interdecadal and multidecadal variability of runoff and corresponding climate variables, and (4) the decomposed timeseries of runoff and its related atmospheric drivers. Please see the publication for more details.
DOI: 10.6084/m9.figshare.21669851.v1
title: Trends in animal translocation research

description: Data associated with 'Trends in translocation research'.
DOI: 10.6084/m9.figshare.21710975
title: Raw Data Pantelleria

description: The dataset contains raw files concerning Differential Scanning Calorimetry and Paleomagnetism measurements together with Thermal modeling simulations output and videos.
DOI: 10.6084/m9.figshare.22297906.v1
title: The crustal and uppermost mantle Vs structure of the middle and lower reaches of the Yangtze River Metallogenic Belt: implications for metallogenic process

description: The data set includes all the cross-correlation functions under the fold of CCF_s_SAC between all station pairs used as data to construct our velocity model and the resulting shear wave velocity model of this study (Vstruc_100_MYLMB.dat).
DOI: 10.6084/m9.figshare.23501553
title: Supplementary Material for: Assessment of Comfort during Less Invasive Surfactant Administration in Very Preterm Infants: A Multicenter Study

description: <b><i>Introduction:</i></b> This study was set up to investigate if and to what extent non-pharmacological analgesia is able to provide comfort to very preterm infants (VPI) during less invasive surfactant administration (LISA). <b><i>Methods:</i></b> This was a prospective non-randomized multicenter observational study performed in level IV NICUs. Inborn VPI with a gestational age between 22<sup>0/7</sup> and 31<sup>6/7</sup> weeks, signs of respiratory distress syndrome, and the need for surfactant replacement were included. Non-pharmacological analgesia was performed in all infants during LISA. In case of failure of the first LISA attempt, additional analgosedation could be administered. COMFORTneo scores during LISA were assessed. <b><i>Results:</i></b> 113 VPI with a mean gestational age of 27 weeks (+/− 2.3 weeks) and mean birth weight of 946 g (+/− 33 g) were included. LISA was successful at the first laryngoscopy attempt in 81%. COMFORTneo scores were highest during laryngoscopy. At this time point, non-pharmacological analgesia provided adequate comfort in 61% of the infants. 74.4% of lower gestational aged infants (i.e., 22<sup>0</sup>–26<sup>6</sup> weeks) were within the comfort zone during laryngoscopy compared to 51.6% of higher gestational aged infants (i.e., 27<sup>0</sup>–32<sup>0</sup> weeks) (<i>p</i> = 0.016). The time point of surfactant administration did not influence the COMFORTneo scores during the LISA procedure. <b><i>Conclusion:</i></b> Non-pharmacological analgesia provided comfort in as much as 61% of the included VPI during LISA. Further research is needed to both develop strategies to identify infants who, despite receiving non-pharmacological analgesia, are at high risk for experiencing discomfort during LISA and define patient-tailored dosage and choice of analgosedative drugs.
DOI: 10.6084/m9.figshare.23540910
title: Supplementary Material for: Minor Myocardial Scars in Association with Cardiopulmonary Function after COVID-19

description: <b><i>Background:</i></b> Myocardial scars detected by cardiovascular magnetic resonance (CMR) imaging after COVID-19 have caused concerns regarding potential long-term cardiovascular consequences. <b><i>Objective:</i></b> The objective of this study was to investigate cardiopulmonary functioning in patients with versus without COVID-19-related myocardial scars. <b><i>Methods:</i></b> In this prospective cohort study, CMR was performed approximately 6 months after moderate-to-severe COVID-19. Before (∼3 months post-COVID-19) and after (∼12 months post-COVID-19) the CMR, patients underwent extensive cardiopulmonary testing with cardiopulmonary exercise tests, 24-h ECG, and echocardiography. We excluded participants with overt heart failure. <b><i>Results:</i></b> Post-COVID-19 CMR was available in 49 patients with cardiopulmonary tests at 3 and 12 months after the index hospitalization. Nine (18%) patients had small late gadolinium enhancement-detected myocardial scars. Patients with myocardial scars were older (63.2 ± 13.2 vs. 56.2 ± 13.2 years) and more frequently men (89% vs. 55%) compared to those without scars. Cardiorespiratory fitness was similar in patients with and without scars, i.e., peak oxygen uptake: 82.1 ± 11.5% versus 76.3 ± 22.5% of predicted, respectively (<i>p</i> = 0.46). The prevalence of ventricular premature contractions and arrhythmias was low and not different by the presence of myocardial scar. Cardiac structure and function assessed by echocardiography were similar between the groups, except for a tendency of greater left ventricular mass in those with scars (75 ± 20 vs. 62 ± 14, <i>p</i> = 0.02 and <i>p</i> = 0.08 after adjusting for age and sex). There were no significant associations between myocardial scar and longitudinal changes in cardiopulmonary function from 3 to 12 months. <b><i>Conclusion:</i></b> Our findings imply that the presence of minor myocardial scars has limited clinical significance with respect to cardiopulmonary function after COVID-19.
DOI: 10.6084/m9.figshare.23574792.v1
title: Profiles of bacterial communities and environmental factors associated with proliferation of malaria vector mosquitoes within the Kenyan Coast

description: Supporting data for 'Profiles of bacterial communities and environmental factors associated with proliferation of malaria vector mosquitoes within the Kenyan Coast'. <br> Raw sequences obtained from Pacibo sequencing: The raw sequence were obtained from PacBio sequencing of 7 environmental samples and a positive control F8, F1, F2, F4, F5 and F7 were samples collected from sites which had mosquito larvae and were later named as P1, P2, P3, P4 and P5 respectively, while F3 and F6 were collected from sites which had no mosquito larvae and were renamed as N1 and N2 respectively. The positive control was not included in the downstream analysis. <br> PNG-Figures: The PNG-Figures are supplementary that were obtained after analysis of the raw data. <br> New_classification.zip and Positive control hits.xlsx: Sequencing of the full 16S rRNA generated 203,934 reads from 7 environmental water samples, either with mosquito larvae or without with an average of 29,133 reads per sample. The data depicts the abundance of bacterial phyla, Classes, orders, Families and genera in the 7 study samples. The negative group (Sites without mosquito larvae), represented by samples N1 and N2, and the positive group (sites with mosquito), represented by samples P1 to P5.
DOI: 10.17632/n5x9dnhyby.1
title: Niger Delta Nypa Palm Extent 2015-2020

description: 
These data are associated with an article submitted to the Journal of Remote Sensing (in review). In this study, the Sentinel 1 SAR, Sentinel 2 MSI, and ALOS 2 PALSAR 2 archives were used in Google Earth Engine to quantify the change in extent of invasive Nypa Palm in the Niger Delta over a period from 2015-2020. Areas of Nypa Palm were identified using Random Forest Classification models and a final model relying on Sentinel 1 SAR was produced for 2015 and 2020. Details regarding methods and Earth Engine code can be found in the manuscript.

File Description:

Classified_S1SAR_2015_NEWTRAINING_500Trees_4VarsTDX_Feb2022.tif:
Landcover Classification within Study Area in 2015. Resolution: 10m. Band: Class_mode
1 = Nypa Palm
4 =  Water
5 =  Mangrove

Classified_S1SAR_2020_NEWTRAINING_500Trees_4Vars_TDX_Feb2022.tif:
Landcover Classification within Study Area in 2020. Resolution: 10m. Band: Class_mode
1 = Nypa Palm
4 =  Water
5 =  Mangrove

ChangeDetection2015_2020Nigeria_Feb2022.tif:
Landcover change type between 2015-2020. Resolution: 10m. Band: remapped
6 = No Change Nypa
7 = Nypa to Water
8 = Nypa to Mangrove
12 = Water to Nypa
14 = No Change Water
16 = Water to Mangroves
18 = Mangrove to Nypa
21 = Mangrove to Water
24 = No Change Mangrove

Classified_S1SAR_2015_Confidence_Feb2022_NYPA.tif:
Confidence of Nypa Classification on a per-pixel level in 2015. Resolution: 10m. Band: confidence (0-1)

Classified_S1SAR_2015_Confidence_Feb2022_MANG.tif:
Confidence of Mangrove Classification on a per-pixel level in 2015. Resolution: 10m. Band: confidence (0-1)

Classified_S1SAR_2020_Confidence_Feb2022_NYPA.tif:
Confidence of Nypa Classification on a per-pixel level in 2020. Resolution: 10m. Band: confidence (0-1)


Classified_S1SAR_2020_Confidence_Feb2022_MANG.tif:
Confidence of Mangrove Classification on a per-pixel level in 2020. Resolution: 10m. Band: confidence (0-1)

Abigail Barenblitt; Lola Fatoyinbo; Nathan Thomas; Atticus Stovall; Celio de Sousa; Chukwuebuka Nwobi (in review). Invasion in the Niger Delta: Remote sensing of mangrove conversion to invasive Nypa fruticans from 2015-2020. Journal of Remote Sensing.
DOI: 10.5281/zenodo.7693092
title: gigas-ploidy-heatwave

description: # gigas-ploidy-heatwave Data and code repository for publication, "Triploid Pacific oysters exhibit stress response dysregulation and elevated mortality following marine heatwaves." The preprint on bioRXiv can be found at: This project was funded by the National Oceanographic Partnership Program (IWG-NOPP) and investigates the impact of marine heatwaves (temperature and/or desiccation) on diploid (2n) and triploid (3n) Pacific oysters. Hatchery experiments were conducted at the Jamestown S'Klallam Point Whitney Shellfish Hatchery located on Dabob Bay, Washington, USA (47°45"N 122°50'W). # Table of Contents<br> ### `analyses`<br> Output of R markdown files listed in `code` folder ### `code`<br> R markdown files for each dataset analysis in `data` folder ### `data`<br> Raw data for each analysis. Each subfolder can be analyzed from the `gigas-ploidy-heatwave.Rproj`. Additional data processing for respirometry data was first carried out in the `data/respirometry` folder using the `respirometry.Rproj` and R markdown files listed in `data/respirometry/code`. Additional data processing for tag-seq data was first carried out in `data/tag-seq` folder using the `tag-seq.Rproj` and R markdown files listed in `data/tag-seq/code`. ### `figures`<br> Polished figures used in the publication ### `stats`<br> Output of statistical tests from R markdown files in `data` folder ### `suppl_figures`<br> Supplemental figures used in the publication ### `suppl_tables`<br> Supplemental tables detailing DEG and GOterm lists for each treatment
DOI: 10.5281/zenodo.7905526
title: Data and scripts for Fudan-NSA cloud fraction scheme

description: Data and scripts for preparing the Fudan-NSA cloud fraction scheme.
DOI: 10.5439/1498736
title: arsclwacr1kolliasshp.c1

description: WACR-ARSCL provides cloud boundaries and best-estimate time-height fields of radar moments. WACR ship correction observations are corrected for ship motion (pitch, roll, heave). The corrected WACRSHIPCOR measurements are combined with observations from the micropulse lidar, ceilometer, low-level clutter is identified and removed. The datastream includes best-estimate time-height fields of radar moments.
DOI: 10.15138/c11n-kd82
title: NOAA Global Greenhouse Gas Reference Network Flask-Air PFP Sample Measurements of N<sub>2</sub>O at Tall Tower and other Continental Sites, 2005-Present
DOI: 10.17632/jdkx76y8fz.1
title: COVID-19: Raw data from study of severity of alopecia versus hospital outcomes

description: Pilot study conducted in India in 2020, evaluating confirmed COVID-19 men admitted to the hospital due to severe respiratory symptoms. They were examined by a dermatologist who recorded alopecia severity under Hamilton-Norwood Scale (HNS), as well as co-morbidities such as Hypertension, Diabetes, Chronic Kidney Disease (CKD).
DOI: 10.48420/22787444
title: Raw Data for 'The effects of coagulation factors and their inhibitors on proliferation and migration in colorectal cancer'.

description: One Excel file consisting of raw data from the paper 'The effects of coagulation factors and their inhibitors on proliferation and migration in colorectal cancer' by Rees et al. 09MAY2023. <br> The Excel file is divided into tabs showing the raw data used for each of the Figures presented in the paper, e.g. Tab 1 = Figure 1A. Each tab contains a header row identifying the colorectal cancer cell line used and the experiment conditions. <br> Figures 1 provides the raw data for proliferation experiments conducted using the colorectal cancer cell lines SW620 and DLD-1 with the addition of the coagulation factors thrombin (Fig 1A/1B), factor Xa (Fig 1C/1D) and tissue factor (Fig 1E/1F). Fold change in fluorescence normalised to time point 0 hours is shown. <br> Figure 2 provides the raw data for proliferation experiments conducted using the colorectal cancer cell line SW620 with the addition of the coagulation factor thrombin and its inhibitor dabigatran, solely and in combination, plus its untreated vehicle control. Fold change in fluorescence normalised to time point 0 hours is shown. <br> Figure 3 provides the raw data for migration experiments conducted using the colorectal cancer cell line DLD-1 with the addition of the coagulation factors thrombin (Fig 3A), factor Xa (Fig 3B) and tissue factor (Fig 3C). Number of migrated cells per x200 field on light microscopy is shown. <br> Figure 4 provides the raw data for migration experiments conducted using the colorectal cancer cell line DLD-1 with the addition of the coagulation factors and their respective inhibitors: thrombin and dabigatran (Fig 4A), factor Xa and rivaroxaban (Fig 4B) and tissue factor and anti-tissue factor antibody 10H10 (Fig 4C). Number of migrated cells per x200 field on light microscopy is shown.
DOI: 10.5281/zenodo.7086127
title: Input data for Bayesian and information theoretic model selection and similarity analysis

description: This data serves as input to the codes found in the following repository https://github.com/MariaFMoralesOreamuno/Bayesian_Information_theoretic_model_selection.git
DOI: 10.5281/zenodo.7813482
title: MD simulations of FVa membrane binding 1/4

description: For details see the publication:<br> "Understanding the complex membrane binding of a protein with multiple anchoring domains"<br> By J. J. Madsen & Y. Z. Ohkubo
DOI: 10.5281/zenodo.7813913
title: MD simulations of FVa membrane binding 3/4

description: For details see the publication:<br> "Understanding the complex membrane binding of a protein with multiple anchoring domains"<br> By J. J. Madsen & Y. Z. Ohkubo
DOI: 10.5281/zenodo.7814051
title: MD simulations of FVa membrane binding 4/4

description: For details see the publication:<br> "Understanding the complex membrane binding of a protein with multiple anchoring domains"<br> By J. J. Madsen & Y. Z. Ohkubo
DOI: 10.6084/m9.figshare.22147163
title: Standards for Reporting Qualitative Research (SRQR ) CHECKLIST for "Perceptions of professional nurses towards the inclusion of spiritual activities in oncology practice in the uMgungundlovu and eThekwini Health Districts, KwaZulu-Natal, South Africa’.

description: SRQR indicates in which sections the items applicable will be reported on in the manuscript.
DOI: 10.6084/m9.figshare.22361932
title: Supplementary Material for: Essential fatty acid supplementation and early inflammation in preterm infants: Secondary analysis of a randomized clinical trial

description: Introduction: Postnatal inflammation is associated with increased mortality and adverse outcomes in preterm infants. The essential fatty acids arachidonic acid (ARA) and docosahexaenoic acid (DHA) are precursors of lipid mediators with a key role in resolving inflammation. Our aim was to investigate the effect of ARA and DHA supplementation on systemic inflammation in very preterm infants and to identify clinical factors associated with early inflammation. Methods: Secondary analysis of data from a randomized clinical trial (ImNuT study). Infants with gestational age (GA) less than 29 weeks were randomized to receive a daily enteral supplement with ARA 100 mg/kg and DHA 50 mg/kg (ARA:DHA group) or MCT-oil (control group) from the second day of life to 36 weeks postmenstrual age. ARA, DHA and four pro-inflammatory cytokines (IL-1beta, IL-6, IL-8, and TNF-alpha) were analyzed in repeated dried blood samples from birth to day 28 and the area under the curve (AUC) for each variable was calculated. Results: The intention to treat population included 120 infants with mean (SD) GA 26.4 (1.7). The ARA:DHA group had significantly lower IL-6 levels from day 3 to day 28 compared to the control group, mean difference AUC log10 (95% CI) 0.16 (0.03-0.30) pg/mL, p= 0.018. There was no correlation between ARA or DHA blood concentrations and cytokine levels. Having a low gestational age was independently associated with increased levels of all cytokines during the first 4 weeks of life. Conclusions: Enhanced supplementation with ARA and DHA may modulate inflammation in very preterm infants.
DOI: 10.6084/m9.figshare.23314055
title: Supplementary Material for: Combining MRI and Spectral EEG for Assessment of Neurocognitive Outcomes in Preterm Infants

description: <b><i>Introduction:</i></b> Predicting impairment in preterm children is challenging. Our aim is to explore the association between MRI at term-equivalent age (TEA) and neurocognitive outcomes in late childhood and to assess whether the addition of EEG improves prognostication. <b><i>Methods:</i></b> This prospective observational study included forty infants with gestational age 24 + 0–30 + 6. Children were monitored with multichannel EEG for 72 h after birth. Total absolute band power for the delta band on day 2 was calculated. Brain MRI was performed at TEA and scored according to the Kidokoro scoring system. At 10–12 years of age, we evaluated neurocognitive outcomes with Wechsler Intelligence Scale for Children 4th edition, Vineland adaptive behavior scales 2nd edition and Behavior Rating Inventory of Executive Function. We performed linear regression analysis to examine the association between outcomes and MRI and EEG, respectively, and multiple regression analysis to explore the combination of MRI and EEG. <b><i>Results:</i></b> Forty infants were included. There was a significant association between global brain abnormality score and composite outcomes of WISC and Vineland test, but not the BRIEF test. The adjusted <i>R</i><sup>2</sup> was 0.16 and 0.08, respectively. For EEG, adjusted <i>R</i><sup>2</sup> was 0.34 and 0.15, respectively. When combining MRI and EEG data, adjusted <i>R</i><sup>2</sup> changed to 0.36 for WISC and 0.16 for the Vineland test. <b><i>Conclusion:</i></b> There was a small association between TEA MRI and neurocognitive outcomes in late childhood. Adding EEG to the model improved the explained variance. Combining EEG and MRI data did not have any additional benefit over EEG alone.
DOI: 10.5281/zenodo.7896896
title: Nitrous oxide and Hydroxylamine in the East China Sea in 2015

description: The first analyses of N<sub>2</sub>O isotopocule signatures in the East China Sea (ECS) are presented, along with hydroxylamine (NH<sub>2</sub>OH) and N<sub>2</sub>O concentrations, to clarify the dominant N<sub>2</sub>O production processes in the coastal water. In the ECS in October 2015, N<sub>2</sub>O ranged from 6.3 to 33.1 nmol L<sup>-1</sup>, equivalent to 99% – 251% in saturation, leading to the air-sea fluxes of 1.6 – 10.5 μmol m<sup>-2 </sup>d<sup>-1</sup> (4.8±2.5 μmol m<sup>-2 </sup>d<sup>-1</sup>) using the W2014 formula. The coexistence of high levels of NH<sub>4</sub><sup>+</sup>, NH<sub>2</sub>OH, and NO<sub>2</sub><sup>-</sup> indicated the potential for nitrification and/or hybrid N<sub>2</sub>O formation. In the shallow water (&lt; 300 m), the concentration (~9.3 nmol L<sup>-1</sup>), δ<sup>15</sup>N<sup>bulk</sup>-N<sub>2</sub>O (~6.8‰), δ<sup>18</sup>O-N<sub>2</sub>O (~45.1‰), and <sup>15</sup>N site preference (SP, ~14.8‰) of N<sub>2</sub>O were close to those isotopic signatures in atmospheric N<sub>2</sub>O; whereas those values in the deep water increased downward, reaching their maxima of 33.1 nmol L<sup>-1</sup>, 8.6‰, 54.7‰, and 18.7‰, respectively.