cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13026/v64v-d857
title: Early Prediction of Sepsis from Clinical Data: The PhysioNet/Computing in Cardiology Challenge 2019

description: Sepsis is a life-threatening condition that occurs when the body's response to
infection causes tissue damage, organ failure, or death ([Singer _et al._ ,
2016](https://www.ncbi.nlm.nih.gov/pubmed/26903338)). In the U.S., nearly 1.7
million people develop sepsis and 270,000 people die from sepsis each year;
over one third of people who die in U.S. hospitals have sepsis
([CDC](https://www.cdc.gov/sepsis/datareports/index.html)). Internationally,
an estimated 30 million people develop sepsis and 6 million people die from
sepsis each year; an estimated 4.2 million newborns and children are affected
([WHO](https://www.who.int/news-room/fact-sheets/detail/sepsis)). Sepsis costs
U.S. hospitals more than any other health condition at $24 billion (13% of
U.S. healthcare expenses) a year, and a majority of these costs are for sepsis
patients that were not diagnosed at admission ([Paoli _et al._ ,
2018](https://www.ncbi.nlm.nih.gov/pubmed/30048332)). Sepsis costs are even
greater globally with the developing world at most risk. Altogether, sepsis is
a major public health issue responsible for significant morbidity, mortality,
and healthcare expenses.

Early detection and antibiotic treatment of sepsis are critical for improving
sepsis outcomes, where each hour of delayed treatment has been associated with
roughly an 4-8% increase in mortality ([Kumar _et al._ ,
2006](https://www.ncbi.nlm.nih.gov/pubmed/16625125); [Seymour _et al._ ,
2017](https://www.ncbi.nlm.nih.gov/pubmed/28528569)). To help address this
problem, clinicians have proposed new definitions for sepsis ([Singer _et al._
, 2016](https://jamanetwork.com/journals/jama/fullarticle/2492881)), but the
fundamental need to detect and treat sepsis early still remains, and basic
questions about the limits of early detection remain unanswered. The
PhysioNet/Computing in Cardiology Challenge 2019 provides an opportunity to
address these questions.
DOI: 10.17632/vpps4vhryg.1
title: COVID-19 related trajectory data of 10 microseconds all atom molecular dynamics simulation of SARS-CoV-2 dimeric main protease

description: Raw trajectory data (GROMACS format) of 10 microseconds all atom molecular dynamics simulation of COVID-19 related SARS-CoV-2 dimeric main protease without ligand based on PDB 6LU7, were caclulated on a special purpose computer, MDGRAPE-4A, at RIKEN BDR, JAPAN. We can observe relaxation dynamics and fluctuations of the dimeric protease over the microseconds timescale. We hope that this raw data can help drug development efforts targeting the SARS-CoV-2 main protease. Preparation details and summaries will be submitted to "Data in Brief". More data might be added as new version or another dataset.
DOI: 10.25739/4ty0-ye98
title: GOMAP Sbicolor.BTx623.v3.0.1.r1

description: This dataset is produced by GOMAP is a new high-coverage and reproducible functional annotation of Sorghum bicolor protein coding genes based on Gene Ontology (GO) term assignments that covers the BTx623.v3.0.1.r1 genome assembly.
DOI: 10.34740/kaggle/dsv/848307
title: Bitter Taste of Natural Products
DOI: 10.4225/08/57511c42603df
title: Contributing Area - Multiple Flow Direction (Partial) derived from 1" SRTM DEM-H

description: CA_MFD_PARTIAL is contributing area in m2 computed using multiple flow directions on hillslopes and ANUDEM-derived flow directions in channels. The contributing area was computed on 1 degree tiles with 200 cell (about 5 km) overlaps so the areas in channels do not account for catchments beyond that size (hence the use of PARTIAL in the name). The primary purpose of this product was to calculate topographic wetness index (TWI; Gallant and Wilson, 2000) for which full contributing areas in channels are not necessary. Do not use this product to represent contributing areas of catchments larger than 5 km across.

The CA_MFD_PARTIAL product was derived from the Hydrologically enforced Digital Elevation Model (DEM-H; ANZCW0703014615), which was derived from the 1 arc-second resolution SRTM data acquired by NASA in February 2000. 

This data is available in tiled format at 1 arc-second and 3 arc-second resolution.

The 3 arc-second resolution product was generated from the 1 arc-second CA_MFD (partial) product and masked by the 3” water and ocean mask datasets.
DOI: 10.5063/f19s1pb9
title: Blue crab Callinectes sapidus and soft-shell clam Mya arenaria index of abundance time series 1958-1992

description: This time series was used in a Lotka-Volterra predator-prey model to predict prey densities and predation rates in a natural environment. Agreement between model predictions and field data in this crab-clam predator-prey system indicates that relatively simple models can be used to predict phase shifts and identify alternative stable states. The approach described here can be adapted to a variety of predator-prey systems to predict the impact of phase shifts on ecological communities. The code for all modeling is also included in this data package. Please cite the following manuscript: Glaspie, C. N., R. D. Seitz, and R. N. Lipcius. Empirical test of crab-clam predator-prey model predictions: storm-driven phase shift to a low-density stable state. Submitted to Proceedings of the National Academy of Sciences. Manuscript archived at https://doi.org/10.1101/224097.
DOI: 10.5067/modis/mod09cma.nrt.006
title: MOD09CMA MODIS/Terra Aerosol Optical Thickness Daily L3 Global 0.05Deg CMA
DOI: 10.5258/soton/d2736
title: Dataset in support of the journal article 'Radiation-resistant cerium co-doped erbium-doped fibers for C- and L-band amplifiers in a high-dose gamma-radiation environment'

description: This dataset supports the journal article 'Radiation-resistant cerium co-doped erbium-doped fibers for C- and L-band amplifiers in a high-dose gamma-radiation environment' Published in the Optics Express. The data is an excel file containing all experimental data used for generating Fig.2, Fig.3, Fig.4, Fig.5, Fig.6, Fig.7, Fig.8, Fig.9, and Fig.10. in the article. Dataset is available under a CC BY 4.0 licence
DOI: 10.5281/zenodo.10149177
title: Dataset for 'Coherent x-ray magnetic imaging with 5 nm resolution'

description: Dataset for the paper "Coherent x-ray magnetic imaging with 5 nm resolution", undergoing peer review on Optica.This dataset contains raw data and code useful to produce the results found in the paper.
DOI: 10.5281/zenodo.10152749
title: Supplementary datasets and code for: Instability and mesoscale eddy fluxes in an idealized 3-layer Beaufort Gyre

description: This dataset contains the configuration files and scripts used to initialise the Aronnax simulations described in the manuscript; processed output from the simulations; and code used for the linear stability analysis.
DOI: 10.5281/zenodo.10580920
title: Theory of universal diode effect in three-terminal Josephson junctions - code and data
DOI: 10.5281/zenodo.6884342
title: TRENDYv10 DGVM output for: Process-oriented analysis of dominant sources of uncertainty in the land carbon sink

description: <strong>*** SEE VERSION 3 FOR NCDF FILES ***</strong> <strong>Data</strong> Post-processed TRENDYv10 DGVM data covering the period 1901-2020. Each file contains monthly/annual mean values for 19 models: CABLE-POP, CLASSIC, CLASSIC-N, CLM5.0, DLEM, IBIS, ISAM, ISBA-CTRIP, JSBACH, JULES-ES-1.1, LPJ-GUESS, LPJ, LPX-Bern, OCN, ORCHIDEE, ORCHIDEEv3, SDGVM, VISIT, YIBs. See https://blogs.exeter.ac.uk/trendy/ List of variables can be found at https://blogs.exeter.ac.uk/trendy/documents/ . File name: 'trendy_listofvariables_GCP2021'. Data for three experiments (S1 - S3) is provided. For experiment details, see 'GlobalCarbonBudget-Protocol-2021-web' at https://blogs.exeter.ac.uk/trendy/documents/ Global, regional, and gridded values are provided. Global mean files are named "variable_experiment.RData". Structure = [time,models]=[120,19]. Flux units = PgC/yr, stock units = PgC. Regional mean files are named as "variable_experiment_2lats.RData" and contain values for 2 regions; northern lands (&gt;30N) and tropics/southern lands (&lt;30N). Structure = [region,time,models]. For fluxes (gpp, nbp, npp, rh), files contain two variables: 1) "variable_experiment" (structure=[2,1440,19]) and 2) "variable_experiment_annual" (structure=[2,120,19]). Variable 1 contains monthly mean data and variable 2 contains annual mean. Units for regional fluxes are kgC/m2/s. For stocks (cCwd, cLitter, cSoil, cVeg), files contain annual mean values only [2,120,19]. Units for regional stocks are PgC. Gridded files are named as "variable_grid_experiment_annual.RData" and contain annual mean values for each land grid point, year, and model. Structure is [lon,lat,time,models]=[360,180,120,19]. Flux units = kgC/m2/s, stock units = kgC. <strong>Code</strong> All data processing code is also provided. Files starting "raw#..." are run in order 1-4. Then the figure/manuscript files are executed, starting with "proc1.." - "proc3..". The remaining Figure scripts (Figures 1-5 and S1-S8) and "temp_changes.R" can be run in any order. Any enquiries, contact Mike O'Sullivan at m.osullivan@exeter.ac.uk
DOI: 10.5281/zenodo.8167442
title: The impact of energy releasing B-vitamin intake on indices of obesity and cardiac function: a cross-sectional study

description: Consent form
DOI: 10.5523/bris.250jeya5avudl2pdsgf6tmq7cj
title: Integrate and scale: a source of spectrally separable photon pairs
title: Ben_Source

description: Dataset corresponding with modelling, simulation and measurement results regarding a new integrated photonic resonant cavity device used for the generation of ultra-pure and bright photon pairs.
DOI: 10.6073/pasta/3eefb45dbfb784c3cabe3690ea46fe9e
title: Daily weather averages for Palmer Station, Antarctica (1989-2023)

description: Daily averages of weather data collected at Palmer Station, Antarctica were generated from averages of manual observations (1989-2003) and automatic weather station measurements (2003-present). Weather data was originally acquired by manual observers 4 times per day. An automated weather data system was installed in Nov 2001. Measurements began shifting from manual to automated observations in June 2003 until the manual observations were ended on December 12, 2003, except for snow stake depth, sea ice coverage, and sea water temperature which remain as manual observations. Data are collected, compiled, and distributed by the U.S. Antarctic Program’s polar contractor. Data is archived by the Antarctic Meteorological Research Center (AMRC) at the University of Wisconsin-Madison, and made available online at https://amrc.ssec.wisc.edu/usap/palmer/. This dataset contains a compiled version of the daily averaged data provided by the archive.
DOI: 10.6073/pasta/87dda12bed2271ce3d91abdb7864c50c
title: Interagency Ecological Program: Over four decades of juvenile fish monitoring data from the San Francisco Estuary, collected by the Delta Juvenile Fish Monitoring Program, 1976-2018

description: The United States Fish and Wildlife Service Delta Juvenile Fish Monitoring Program (DJFMP) has monitored juvenile Chinook Salmon Oncorhynchus tshawytscha and other fish species within the San Francisco Estuary (Estuary) since 1976 using a combination of surface trawls and beach seines. Since 2000, three trawl sites and 58 beach seine sites have been sampled weekly or biweekly within the Estuary and lower Sacramento and San Joaquin Rivers. As part of the Interagency Ecological Program (IEP) that manages the Estuary, the DJFMP has tracked the relative abundance and distribution of naturally and hatchery produced juvenile Chinook Salmon of all races as they outmigrate through the Sacramento-San Joaquin Delta for over four decades. The data that DJFMP collected has been used not only to help inform the management of Chinook Salmon, but also to monitor the status of native species of interest such as the previously listed Sacramento Splittail Pogonichthys macrolepidotus and invasive species such as Mississippi Silverside Menidia beryllina and Largemouth Bass Micropterus salmoides. For more information: https://www.fws.gov/lodi/juvenile_fish_monitoring_program/jfmp_index.htm
DOI: 10.6073/pasta/9d0c1561ca8c5540227df6efa37c61b5
title: Photosynthetic pigments of water column samples and analyzed with High Performance Liquid Chromatography (HPLC), collected aboard Palmer LTER annual cruises off the coast of the Western Antarctica Peninsula, 1991 - 2020.

description: Phytoplankton pigment sampling was led by Prezelin from 1991-1994, and then by Vernet from 1995-2008. Schofield is the third, and current lead, beginning in 2009. Methods have been kept consistent as much as possible over the full time series and different Principal Investigators. Phytoplankton have a suite of accessory pigments in addition to Chlorophyll a, including other Chlorophyll’s (e.g. Chlorophyll b), Xanthophylls, and Carotenes. These accessory pigments can be used as chemotaxonomic markers to assess the composition and distribution of the phytoplankton community. For example, Fucoxanthin is a marker pigment of Diatoms, whereas Alloxanthin is a marker pigment of Cryptophytes. Accessory pigments also assist in photoacclimation and photoprotective processes. Water samples are collected throughout the water column along the Western Antarctic Peninsula at regular LTER grid stations where CTD casts are preformed and in surface waters at underway stations, where CTD casts are not done, using the ship’s flow-through seawater system. Water samples are filtered onto GF/F filters, and filters kept frozen at -80C until analysis. HPLC analysis is completed following Wright et al (1991). Following the guidelines set by NASA SeaHARRE, we use an internal standard and replicate injects on the HPLC to track recovery and replicability of the pigment extraction methods and the HPLC. Data is unavailable for the LMG10-01 cruise due to instrumentation problems and for the LMG12-01 cruise due to a freezer failure which resulted in the loss of samples. There is a temporary data gap for the 2019 cruise because those samples have not been analyzed yet.
DOI: 10.6080/k0mk6b2q
title: Basal forebrain LFP recordings from rats in home cage and during arena exploration
title: CRCNS.org bf-1

description: The dataset contains LFP recordings from rats (wild type rattus norvegicus) obtained
                under two conditions (a) resting condition while animal is in home cage; (b) exploration
                of novel arena. Data is from waking state only and contains no sleep epochs.  The data
                is described in the following publication:
                Basal forebrain contributes to default mode network regulation.
                Jayakrishnen Nair, Arndt-Lukas Klaassen, Jozsef Arato, Alexei L. Vyssotski, 
                Michael Harvey, Gregor Rainer.  PNAS (2018) doi:10.1073/pnas.1712431115
DOI: 10.6084/m9.figshare.21331494
title: code and dataset

description: design code；train and test dataset；
DOI: 10.6084/m9.figshare.22293694
title: Event camera high-speed AF dataset.zip

description: This dataset includes the EvHF dataset discussed in Section 4.3, the raw data corresponding to article Fig. 1, and the raw data for the illumination mutation scenes discussed in Section 4.4. There are 16 folders included. Folder name meaning: the first letter D/L for Dark/Light, the second letter D/S for Dynamic/Static, followed by the word representing the scene of the sequence, such as focusboard, numbers, panda, street. Each folder includes: 1. The raw aedat4 file of the DAVIS346 output, including event information, synchronized output APS frames, and trigger level timestamps. (IMU information is not included because it is not needed in this paper.) 2. APS frames folder, exported from the aedat4 file, representing the frame images captured by APS during the whole focusing process. Note that the number of images is greater than 8, because the aedat4 file also records information before the start and after the end of focusing. 3. result folder. Contains the ground truth image, the image of the position corresponding to the result obtained by PBF, and the image of the position corresponding to the result obtained by EGS, labeled with the specific defocus amount. 4. .mat files: can be applied directly to the EGS public code with the same data format as required by the EAD dataset.
DOI: 10.6084/m9.figshare.24648324
title: Dataset 1 multipage figure 9.pdf

description: Multipage Version of Figure 9
DOI: 10.6084/m9.figshare.24648327
title: Dataset 2 multipage figure 10.pdf

description: Multipage Version of Figure 10
DOI: 10.6084/m9.figshare.24648333
title: Dataset 4 multipage figure 13.pdf

description: Multipage Version of Figure 13
DOI: 10.6084/m9.figshare.24648348
title: Dataset 8 multipage figure 22.pdf

description: Multipage Version of Figure 22
DOI: 10.6084/m9.figshare.24779619
title: Dataset 1.zip

description: 1.This zip contains a folder, a python file and a readme file. The folder 'train_set' contains subfolders 'transmitted' and 'received', which are the original OAM intensity patterns and distorted patterns respectively.
2.The python file 'ccGAN' is our proposed network,which is based on pytorch.
3.the test sets are not included in this folder, readers can build their own according to their own needs.
3.If the readers have questions, find some better solutions to the issue，additional requirements to data or more concise and elegant description of the code, please contact the author, the author would be grateful.
e-mail: 22302438@muc.edu.cn
DOI: 10.6084/m9.figshare.25158050
title: Supplementary Material for: Associations between Sleep Disorders and Impulsive-Compulsive Behaviors in Parkinson's Disease: A Prospective Cohort Study

description: Objective: To examine the associations of excessive daytime sleepiness (EDS) and probable rapid eye movement sleep behavior disorder (pRBD), respectively, with impulsive-compulsive behaviors (ICB) over a 5-year follow-up in patients with early Parkinson’s disease (PD). 
Methods: The Parkinson's Progression Markers Initiative is a multicenter cohort study based on an ongoing and open-ended registry. Longitudinal associations of sleep disorders with ICB over 5-year follow-up visits were estimated using generalized linear mixed-effects models among PD participants. 
Results: A total of 825 PD participants were enrolled at baseline. The study sample had a median baseline age of 63.1 (interquartile range [IQR]: 55.6-69.3) years and comprised 496 (61.5%) men. Among them, 201 (24.9%) had ICB at baseline. In the generalized mixed-effects models, EDS (odds ratio [OR] =1.09, 95% confidence interval [CI] 1.05, 1.12) and RBD (OR=1.07, 95% CI 1.03, 1.12) were substantially associated with higher odds of developing ICB over time in PD patients, after multivariate adjustment including age, gender, family history, GDS score, STAI-Y score, MDS-UPDRS part III score, LEDD, and disease duration. Consistent results were observed when stratifying by age at baseline, gender, and PD family history. 
Conclusions: The study findings suggest a longitudinal association between EDS and pRBD with an increased risk of developing ICB in patients with Parkinson’s disease. The findings emphasize the significance of evaluating and addressing sleep disorders in PD patients as a potential approach to managing ICB.
DOI: 10.6084/m9.figshare.25486351
title: Supplementary Material for: Association of Sevelamer Initiation with Gastrointestinal Bleeding Hospitalization in Individuals Requiring Hemodialysis

description: Introduction
Case reports have suggested a causative role between sevelamer use and subsequent gastrointestinal bleeding (GIB), but no large observational studies have evaluated this association. 

Methods
Using the United States Renal Data System database from 2015 to 2019, we examined the association between initiation of sevelamer (versus non-sevelamer containing phosphate binders) and GIB hospitalization as well as all-cause mortality among individuals on hemodialysis. We emulated a target trial using Cox regression models and inverse probability of treatment weights to estimate the adjusted hazard ratios (HR) across outcomes and subgroups.

Results
Among 21,354 new users of phosphate binders (11,276 sevelamer and 10,078 non-sevelamer) with baseline lab data (calcium, phosphorus, hemoglobin, and albumin), there were 2,811 GIB hospitalizations and 5,920 deaths after a median follow-up of 1.3 years. Compared with the initiation of non-sevelamer binders, sevelamer was not associated with an increased risk of GIB hospitalization (89 vs. 90 events per 1000 person-years; IPTW-HR 0.98, 95% CI 0.91 – 1.06) or all-cause mortality (220 vs. 224 events per 1000 person-years; IPTW-HR 0.98 95% CI 0.93 – 1.03). Subgroup analyses (such as diabetes and anti-coagulation use) were generally consistent, and there was no association between sevelamer dose and GIB hospitalization.

Conclusion 
Among patients requiring hemodialysis, sevelamer (vs non-sevelamer) containing phosphate binders was not associated with increased risk of GIB hospitalization.
DOI: 10.6084/m9.figshare.26312011
title: Supplementary tables of results from systematic reviews and meta-analyses

description: Information from the systematic analysis of Chagas Disease treatment possibilities applied to preclinical research with animal models.
DOI: 10.6084/m9.figshare.5400901
title: usALEX-smFRET raw data for figure S4

description: The dataset includes the raw data of usALEX-smFRET measurements (stored in photon-HDF5 file format) of 6 different doubly-labeled lacCONS promoter dsDNA constructs. This raw data is the basis for figure S3.
DOI: 10.6084/m9.figshare.5401522
title: FPS analysis - input - structure to compare against reconstructed structure

description: This is the pdb:4XLN file of the monomeric unit of bacterial RPo, including the full transcription bubble.The FPS reconstructed complex is compared against this pdb file.
DOI: 10.6084/m9.figshare.5401558
title: H2MM analysis - input files

description: H2MM input files, extracted from analysis of raw data of RPo measurements, using the ALiX software, following the procedure and criteria in the supplementary materials. For each doubly-labeled constructs, these include files with the suffix:<br>1. _H2MM.txt - tables with smFRET bursts and their properties2. _BG.txt - the calculated BG rates per each 2s of measurement3. _H2MM_photonID.txt - a list of identities of burst photons to photon streams (0 - DexDem, 1 - DexAem, 2 - AexDem, 3 - AexAem)4. _H2MM_timestamps.txt - a list of timestamps of burst photons, in units of clocktime (12.5 ns)
DOI: 10.6084/m9.figshare.5563240.v1
title: A python notebook summarizing the analysis of usALEX-smFRET for the formation of figure S10 - smFRET and BVA on simulated diffusion-based smFRET data

description: The following Python notebook summarizes the analysis performed by the FRETBursts software to form figure S10
DOI: 10.6084/m9.figshare.9911747
title: Dataset 1.STL

description: mould to give the phantom a realistic breast shape
DOI: 10.6084/m9.figshare.9911756
title: Dataset 4.STL

description: top part of mould to make a spherical tumor
DOI: 10.15468/dl.mzmat2
title: Occurrence Download

description: A dataset containing 69694658 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 69694658 records from 1577 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021892-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.