cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3629881
title: Public electrophysiological datasets collected in the Buzsaki Lab

description: The Buzsaki Lab is proud to present a large selection of experimental data available for public access: https://buzsakilab.com/wp/database/. We publicly share more than a thousand sessions (about 40TB of raw and spike- and LFP-processed data) via our public data repository. The datasets are from freely moving rodents and include sleep-task-sleep sessions (3 to 24 hrs continuous recording sessions) in various brain structures, including metadata. We are happy to assist you in using the data. Our goal is that by sharing these data, other users can provide new insights, extend, contradict, or clarify our conclusions. The databank contains electrophysiological recordings performed in freely moving rats and mice collected by investigators in the Buzsaki Lab over several years (a subset from head-fixed mice). Sessions have been collected with extracellular electrodes using high-channel-count silicon probes, with spike sorted single units, and intracellular and juxtacellular combined with extracellular electrodes. Several sessions include physiologically and optogenetically identified units. The sessions have been collected from various brain region pairs: the hippocampus, thalamus, amygdala, post-subiculum, septal region, and the entorhinal cortex, and various neocortical regions. In most behavioral tasks, the animals performed spatial behaviors (linear mazes and open fields), preceded and followed by long sleep sessions. Brain state classification is provided. <strong>Getting started</strong> The top menu “Databank” serves as a navigational menu to the databank. The metadata describing the experiments is stored in a relational database which means that there are many entry points for exploring the data. The databank is organized by projects, animal subjects, and sessions. <strong>Accessing and downloading the datasets</strong> We share the data through two services: our public Globus.org endpoint and our webshare: buzsakilab.nyumc.org. A subset of the datasets is also available at CRCNS.org. If you have an interest in a dataset that is not listed or is lacking information, please contact us. We pledge to make our data available immediately after publication. <strong>Support</strong> For support, please use our Buzsaki Databank google group. If you have an interest in a dataset that is not listed or is lacking information, please send us a request. Feel free to contact us, if you need more details on a given dataset or if a dataset is missing.
DOI: 10.6084/m9.figshare.24648345
title: Dataset 7 multipage figure 20.pdf

description: Multipage Version of Figure 20
DOI: 10.15128/r19k41zd56p
title: Rapid readout of terahertz orbital angular momentum beams using atom-based imaging [dataset]

description: We demonstrate the rapid readout of terahertz (THz) orbital angular momentum (OAM) beams using an atomic-vapour based imaging technique. OAM modes with both azimuthal and radial indices are created using phase-only transmission plates. The beams undergo terahertz to optical conversion in an atomic vapour, before being imaged in the far field using an optical CCD camera. In addition to the spatial intensity profile, we also observe the self-interferogram of the beams by imaging through a tilted lens, allowing the sign and magnitude of the azimuthal index to be read out directly. Using this technique, we can reliably read out the OAM mode of low-intensity beams with high fidelity in 10\,\si{\milli\second}. Such a demonstration is expected to have far-reaching consequences for proposed applications of terahertz OAM beams in communications and microscopy.
DOI: 10.15132/10000196
title: Out of Focus Ultrafast Processing of Metals for Reduced Secondary Electron Yield

description: Data related to the optical materials express publication 'Out of Focus Ultrafast Processing of Metals for Reduced Secondary Electron Yield', including relevant beam images, raw damage threshold and secondary electron yield measurements.
DOI: 10.1594/pangaea.605330
title: Relative abundance of euphausiids (Crustacea) in water samples of the Arabian Sea (Table 2)

description: In the present paper, the ecology and feeding habits of euphausiids are described. The samples were taken at the time of the NE-monsoon (1964/65) by R. V. "Meteor" in the Arabian Sea and adjacent waters. 24 species were determined. According to distribution of the species, the following marine areas can be distinguished:Arabian Sea: 24 species, dominant are Euphausia diomedeae, E. tenera, E. distinguenda, Stylocheiron carinatum.Gulf of Aden: 10 species, dominant are Euphausia diomedeae, E. distinguenda.Red Sea: 6 species, dominant are Euphausia diomedeae, E. distinguenda.Gulf of Oman : 5 Species, dominant are Euphausia distinguenda, Pseudeupbaufia latifrons.Persian Gulf: 1 species - Pseudeuphausia latifrons.The total number of euphausiids indicate the biomass of this group. High densities of euphausiids (200-299 and &gt; 300 individuals/100 m**3) occur in the innermost part of the Gulf cf Aden, in the area south of the equator near the African east coast, near Karachi (Indian west coast) and in the Persian Gulf. Comparison with data relating to production biology confirms that these are eutrophic zones which coincide with areas in which upwelling occurs at the time of the NE-monsoon. The central part of the Arabian Sea differs from adjacent waters by virtue of less dense euphausiid populations (&gt; 199 individuals/100 m**3). Measurements relating to production biology demonstrate a relatively low concentration of primary food sources.Food material was ascertained by analysis of stomach content. The following omnivorous species were examined: Euphausia diomedeae, E. distinguenda, E. tenera, Pseudeuphausia latifrons and Thysanopoda tricuspidata. Apart from crustacean remains large numbers of Foraminifera, Radiolaria, tintinnids, dinoflagellates were found in the stomachs. Quantitatively crustaceans form the most important item in the diet. Food selection on the basis of size and form appears to be restricted to certain genera of tintinnids. The genera Stylocheiron and Nematoscelis are predators. Only crustacean remains were found in the stomachs of Stylocheiron abbreviatum, whereas Radiolaria, Foraminifera and tintinnids occurred to some extent in Nematasceli sp.Different euphausiids in the food chain in the Arabian Sea. In omnivorous species the position is variable, since they not only feed by filtering autotrophic and heterotrophic Protista, but also by predation on zooplankton. Carnivorous species without filtering apparatus feed exclusively on zooplankton of the size of copepods. Only these species are well established as occupying a higher position in the food chain.The parasitic protozoan Tbalassomyces fagei was found on Euphausia diomedeae, E. fenera, E. distinguenda and E. sanzoi.
description: Supplement to: Weigmann, Renate (1970): Zur Ökologie und Ernährungsbiologie der Euphausiaceen (Crustacea) im Arabischen Meer. Meteor Forschungsergebnisse, Deutsche Forschungsgemeinschaft, Reihe D Biologie, Gebrüder Bornträger, Berlin, Stuttgart, D5, 11-52
DOI: 10.17861/8925ebc6-e029-459c-9de1-99da56be9265
title: Axi-Stack A method for manufacturing freeform air-silica optical fibre_DATA

description: Data underlying results presented in Manuscript titled "Axi-Stack: A method for manufacturing freeform air-silica optical fibre"
DOI: 10.5281/zenodo.11189975
title: Figure data to "Quantitative description of long-range order in the spin-1/2 XXZ antiferromagnet on the square lattice"

description: This collection contains the data of the figures shown in the publication "Quantitative description of long-range order in the spin-1/2 XXZ antiferromagnet on the square lattice" as txt files.

The CST datasets "Fig1_Gap_CST.txt",  "Fig1_Energy_CST.txt" and "Fig3_CST.txt" are already published in https://doi.org/10.5281/zenodo.7528316 and included here for the sake of completeness.
DOI: 10.5281/zenodo.12634211
title: Data for Hawkins papers v1.0

description: Releasing data for "Communicating long-term changes in local climate risk using a physically plausible causal chain" by Hawkins, Arnell, Hannaford & Sutton, published in Geoscience Communication
DOI: 10.5281/zenodo.8116153
title: Simulation data from GLIFS - rotating turbulence on a sphere

description: Simulation results for two-dimensional turbulence on a sphere, obtained using the code GLIFS: Geometric Lie-Poisson Isospectral Flow Solver. The folder contains three test cases: (i) rotating 2D Navier-Stokes flow, (ii) quasi-geostrophic turbulence at a Lamb parameter of 10^3 and (iii) quasi-geostrophic turbulence at a Lamb parameter of 10^4.
DOI: 10.6084/m9.figshare.12807872
title: Study data and dictionary - Evaluation of Pneumococcal Serotyping of Nasopharyngeal- Carriage Isolates by Latex Agglutination, Whole-Genome Sequencing (PneumoCaT), and DNA Microarray in a High- Pneumococcal-Carriage-Prevalence Population in Malawi

description: Serotyping results with relevant metadata and dictionary used for evaluating concordance between three serotyping methods
DOI: 10.6084/m9.figshare.14066498.v2
title: O.lurida_Temperature

description: Repo for the pre-print manuscript "Latent effects of winter warming on Olympia oyster reproduction and larval viability". This repo release currently contains extraneous data and scripts that will be removed and updated / re-released prior to publication. <br>https://github.com/laurahspencer/O.lurida_Temperature/releases/tag/v1.0-preprint<br>
DOI: 10.6084/m9.figshare.22122881
title: Supporting Material.zip

description: SEM images
DOI: 10.6084/m9.figshare.22293763
title: Event-based AF Dataset (EAD).zip

description: This is the numpy file version of the EAD dataset corresponding to section 4.2 of the article, which can be directly applied to our open-source code. The material of the complete EAD dataset is available from the link applied in the paper. In this experiment, the aedat4 files in the original EAD dataset were converted to .npy format to facilitate python code processing, and only the event information was retained. The start timestamp, end timestamp and ground truth timestamp used in the code are taken from the .mat file provided with the EAD dataset.
DOI: 10.6084/m9.figshare.22661554
title: Supplement 2.xlsx

description: Wavelength-dependent experimental refractive index of tantala (Ta2O5).
DOI: 10.6084/m9.figshare.24290395
title: Surporting datasheet.xlsx

description: Datasheet of the online measurement results.
DOI: 10.6084/m9.figshare.24648330
title: Dataset 3 multipage figure 11.pdf

description: Multipage Version of Figure 11
DOI: 10.6084/m9.figshare.25183106
title: Dataset 2.mat

description: The sets of the evolution of a sample across generations
DOI: 10.6084/m9.figshare.25183118
title: Dataset 1.zip

description: The mphbin files of the evolution of a sample across generations
DOI: 10.6084/m9.figshare.25329994
title: Supplementary Material for: Comparing efficacies of different exercises on androgen deprivation therapy adverse effects in prostate cancer patients: a network meta-analysis

description: Introduction: Previous studies showed exercise have efficacies for androgen deprivation therapy (ADT) adverse effects. To compare the efficacies of different exercises on ADT adverse effects, we conducted the network meta-analysis (NMA).
Methods: Literature retrieval was performed in PubMed, Embase, Cochrane Central Register of Controlled Trials (CENTRAL). 19 studies (1184 participants) were included. All analyses were performed in R 4.1.2 or RevMan 5.4.1. 
Results: NMA results showed that compared with the control group, both aerobic + resistance training (ART) (MD = 5.92, 95% CI [0.38; 11.46]) and resistance exercise (RE) (MD = 5.62, 95% CI [2.70; 8.55]) improved quality of life (QoL). ART (P score: 0.72) may have superiority over RE (P score: 0.7). ART (MD = -10.89, 95% CI [-17.67; -4.11]) significantly improved the performance of 400-m test. RE could significantly improve leg strength (MD = 118, 95% CI [78.75; 157.25]) and chest strength (MD = 13.30 [4.07; 22.53]). RE ranked first for strength improvements of leg and chest.
Conclusion: ART showed better efficacy for the QoL, and significantly improved the performance of 400-m test. RE might be superior for the strengths of leg and chest. ART may be appropriate for patients with less significant muscle strength decline but also other adverse effects of ADT, such as decreased cardiopulmonary function.
DOI: 10.6084/m9.figshare.25478716
title: Supplementary Material for: A study of pupil response to light as a digital biomarker of recent cannabis use

description: Introduction: Given the roadside safety and occupational injury prevention implications associated with cannabis impairment, there is a need for objective and validated measures of recent cannabis use. Pupillary light response may offer an approach for detection. 
Method: 84 participants (mean age: 32, 42% female) with daily, occasional, and no-use cannabis use histories participated in pupillary light response tests before and after smoking cannabis ad libitum or relaxing for 15 minutes (no use). The impact of recent cannabis consumption on trajectories of the pupillary light response was modeled using functional data analysis tools. Logistic regression models for detecting recent cannabis use were compared, and average pupil trajectories across cannabis use groups and times since light test administration were estimated. 
Results: Models revealed small, significant differences in pupil response to light after cannabis use comparing the occasional use group to the no use control group, and similar statistically significant differences in pupil response patterns comparing the daily use group to the no use comparison group. Trajectories of pupillary light response estimated using functional data analysis found that acute cannabis smoking was associated with less initial and sustained pupil constriction compared to no cannabis smoking.
Conclusion: These analyses show the promise of pairing pupillary light response and functional data analysis methods to assess recent cannabis use.
DOI: 10.6084/m9.figshare.26198357
title: Supplementary Material for: Outcome Prediction Model for radiofrequency Uvulopalatopharyngoplasty with Tonsillectomy in Adult Obstructive Sleep Apnea: retrospective cohort study

description: Introduction: Knowing an individualized outcome prediction is essential when counseling patients before surgery. We aim to identify predictors and build a model for the outcome of radiofrequency-uvulopalatopharyngoplasty with tonsillectomy (rfUPPP+TE).
Methods: All adult patients undergoing rfUPPP+TE for sleep-disordered breathing from 2015-2022 in our institution were included. Preoperative evaluations included detailed upper airway examinations and standardized questionnaires. Postoperative outcomes were measured through home sleep apnea testing and repeated questionnaires three months post-surgery. The primary endpoint was the postoperative apnea-hypopnea index (AHI) and the AHI responders using the Sher criteria.
Results: We analyzed 247 patients with a mean age of 46±11 years, predominantly male (88.7%), and a mean BMI of 29.0kg/m^2. The mean AHI was reduced from 26.4±18.6/h preoperatively to 16.2±14.6/h postoperatively. Daytime sleepiness improved from 8.9±48 to 4.0±3.1 and snoring from 7.9±2.1 to 3.3±2.2. Multivariate analysis indicated that higher tonsil grades, preoperative AHI, and snoring levels were associated with a greater reduction in AHI. Age and body weight were negative predictors for AHI reduction. For AHI responders, according to Sher, tonsil grade was the only predictor in a multivariate analysis. The ROC curve of this simple model, with a corrected AUC of 0.625, compared favorably against two established models.
Conclusion: Our study highlights that tonsil grade, preoperative AHI, snoring, and, to a smaller extent, age, and weight are key determinants of AHI reduction, emphasizing the importance of preoperative evaluation. Despite the multifactorial nature of obstructive sleep apnea, preoperative evaluation can predict the outcome of rfUPPP+TE and guide surgical planning.
DOI: 10.6084/m9.figshare.26310061
title: Supplementary Material for: Micronutrients and Allergic Diseases: A Mendelian Randomization Study

description: Introduction: Previous studies have indicated a controversy regarding the association between dietary micronutrient concentrations and the risk of allergic diseases. In this study, we employed Mendelian randomization (MR) analysis using data from two samples to investigate the causal relationship between circulating micronutrient concentrations and three allergic diseases. 
Methods: In this study, we considered 16 circulating micronutrients as exposure variables (beta carotene, calcium, copper, folate, iron, lycopene, magnesium, phosphorus, selenium, vitamins A1, vitamins B6, vitamins B12, vitamins C, vitamins D, vitamins E, and zinc); and three common allergic diseases (AA, AD, and AR) as outcomes. The inverse variance weighted (IVW) method was primarily applied for MR analysis, supplemented by MR-Egger and weighted-median methods to corroborate the IVW results; and sensitivity analysis was conducted to ensure the robustness of the MR assumptions.
Results: Our results revealed that an increase in serum phosphorus and zinc concentrations may diminish the risk of AA, while for AD an increase in serum zinc concentration may reduce the risk, but an increase in serum vitamin C concentration may elevate the risk. As for AR, an increase in serum phosphorus and selenium concentrations appeared to be associated with a reduced risk. We did not find evidence for an association between other micronutrients and the risk of allergic diseases. 
Conclusion: Our study indicates that an increase in serum phosphorus and zinc concentrations may reduce the risk of AA, while an increase in serum zinc concentration may reduce the risk of AD, but an increase in serum vitamin C concentration may elevate the risk of AD. An increase in serum phosphorus and selenium concentrations is associated with a reduced risk of AR. This provides additional support for research on the effects of micronutrients on allergic diseases.
DOI: 10.6084/m9.figshare.26425489
title: Supplementary Material for: Distinct Patterns of Brain Atrophy in amnestic Mild Cognitive Impairment and Motoric Cognitive Risk Syndromes

description: Introduction: Motoric Cognitive Risk (MCR) and amnestic Mild Cognitive Impairment (aMCI) syndromes are each reliable predictors of incident Alzheimer’s Disease (AD) – but MCR may be a stronger predictor of vascular dementia (VaD) than AD. This study contrasted cortical and hippocampal atrophy patterns in MCR and aMCI. 
Methods: Cross-sectional data from 733 older adults without dementia or disability (M Age= 73.6; 45% women) in the multi-country MCR consortium were examined. MCR was defined as presence of slow gait and cognitive concerns. Amnestic MCI was defined as poor episodic memory performance and cognitive concerns. Cortical thickness and hippocampal volumes were quantified from structural MRIs. Multivariate and univariate general linear models were used to examine associations between cortical thickness and hippocampal volume in MCR and aMCI separately, adjusting for age, sex, education, total intracranial volume, white matter lesions, and study site. 
Results: The prevalence of MCR and aMCI was 7.64% and 12.96%, respectively. MCR was associated with widespread cortical atrophy – including prefrontal, insular, cingulate, motor, parietal, and temporal atrophy. aMCI was associated with hippocampal atrophy. 
Conclusion: Distinct patterns of atrophy were associated with MCR and aMCI. A distributed pattern of cortical atrophy – that is more consistent with VaD or mixed dementia– was observed in MCR. A more restricted pattern of atrophy – that is more consistent with AD – was observed in aMCI. The biological underpinnings of MCR and aMCI likely differ and may require tailored interventions.
DOI: 10.6084/m9.figshare.5400769
title: usALEX-smFRET raw data for figure 2

description: The dataset includes the raw data of usALEX-smFRET measurements (stored in photon-HDF5 file format) of 3 different doubly-labeled lacCONS promoter dsDNA constructs. This raw data is the basis for figure 2.
DOI: 10.6084/m9.figshare.5401534.v3
title: FPS analysis - output for analysis of RPo state

description: The fileset include output of FPS analysis applied onto the <i>RPo state</i> conformation. It includes:<br>1. distances.txt - a table of the best fit D-A distances, and their deviations from the experimental mean D-A distances2. RMSD.txt - the RMSD of the fit3. Rtable_RDAMean.txt - a table that includes the calculated mean D-A distances4. .pml scripts that allow presentation of the outcome of FPS analysis in PyMOL5. .pse file that includes combined_file_RPo_dwells6. .xyz files that include the dyes' AVs for the optimized structure
DOI: 10.6084/m9.figshare.5401537.v3
title: FPS analysis - output for analysis of scrunched RPo state

description: The fileset include output of FPS analysis applied onto the <i>scrunched RPo state</i> conformation. It includes:<br>1. distances.txt - a table of the best fit D-A distances, and their deviations from the experimental mean D-A distances2. RMSD.txt - the RMSD of the fit3. Rtable_RDAMean.txt - a table that includes the calculated mean D-A distances4. .pml scripts that allow presentation of the outcome of FPS analysis in PyMOL5. .pse file that includes combined_file_scrunchedRPo_dwells6. .xyz files that include the dyes' AVs for the optimized structure
DOI: 10.6084/m9.figshare.5401540.v2
title: FPS analysis - output - combined PyMOL file

description: This PyMOL file includes all the layers that are shown in figure 5. <br>1. The original pdb file, 4XLN2. The reconstructed one with the constraints of <i>RPo state</i> distance set3. The reconstructed one with the constraints of <i>scrunched RPo state</i> distance set<br>4. for 1-3, all the available positions of the dye AVs5. pseudoatoms representing the mean positions of the dyes6. lines connecting the relevant mean positions of the relevant dyes
DOI: 10.6084/m9.figshare.5563210
title: H2MM analysis of simulated smFRET data

description: H2MM analysis of simulated diffusion-based smFRET data:<br>1. .csv files - input files for the analysis include a. burst data files b. timestamps - files that include all photon ID and photon timestamps of all photons in each selected burst c. BG - table of BG rates of different photon streams in the simulations per each 2s of the measurement.<br>2. Matlab files - include all the H2MM analysis variables, as is explained in https://doi.org/10.6084/m9.figshare.5401561
DOI: 10.6084/m9.figshare.9911750
title: Dataset 2.STL

description: mould for generating an undulating fat-fibroglandular tissue boundary
DOI: 10.6084/m9.figshare.9911759
title: Dataset 5.STL

description: bottom part of mould to make a spherical tumor