cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.31113934.v1
title: Benchmarking ChatGPT and Other Large Language Models for Personalized Stage-Specific Dietary Recommendations in Chronic Kidney Disease

description: <b>In case of using our dataset, please cite our work:</b>Kairat, M., Adilmetova, G., Ibraimova, I., Gaipov, A., Varol, H. A., & Chan, M. Y. (2025). Benchmarking ChatGPT and Other Large Language Models for Personalized Stage-Specific Dietary Recommendations in Chronic Kidney Disease. <i>Journal of clinical medicine</i>, <i>14</i>(22), 8033. https://doi.org/10.3390/jcm14228033<b>Description:</b>This repository presents a structured evaluation of large language model (LLM)-generated nutritional recommendations for patients with chronic kidney disease (CKD). It includes 5 detailed mock patient profiles, standardized prompts, responses from three state-of-the-art LLMs, and expert evaluations. The goal is to assess how effectively LLMs can provide stage-appropriate, culturally relevant dietary guidance for CKD management.Patient profiles vary in complexity and represent different stages of CKD and common comorbidities, simulating real-world clinical use cases.LLMs Evaluated<br>Each patient case was submitted to the following LLMs:<br>ChatGPT-4 (OpenAI)Gemini (Google)Copilot (Microsoft)Each model generated responses to the same prompt, allowing for comparison across LLMs.Prompt Used<br>All LLMs received the same standardized prompt for each patient case:Provide a culturally appropriate, stage-specific dietary plan (breakfast, lunch, and dinner) for this patient with chronic kidney disease (CKD). Consider dietary restrictions (e.g., sodium, potassium, phosphorus, and protein intake) and incorporate foods commonly consumed in Central Asia.Evaluation Criteria<br>Three domain experts (nutritionists and/or nephrologists) evaluated each LLM-generated response<br>based on the following criteria:<br>Personalization – How well the response reflects the patient’s specific clinical condition and<br>context.Consistency with Guidelines – Adherence to evidence-based dietary recommendations for CKD.Practicality and Availability – Feasibility and cultural relevance of the proposed meal plan using<br>foods commonly consumed in Central Asia.The repository contains the following files and folders:CKD 5 cases.docx – Five detailed mock patient profiles with varying CKD stages and clinical complexity.Evaluation_Criteria.docx – Description of the evaluation rubric used by experts, including definitions for personalization, guideline consistency, and practicality/availability.Prompts-20250703T071939Z-1-001.zip – Contains standardized prompts and LLM-generated responses for each CKD case. Responses are organized by case and model (ChatGPT-4, Gemini, Copilot).Evaluations-20250703T071933Z-1-001.zip – Contains expert evaluation data, including scores and comments for each LLM response across all criteria.<br>
DOI: 10.5281/zenodo.18395842
title: DR items_Cone et al. Experimental Shock Metamorphism of Zircon, Apatite, and Whitlockite: Insights into Microstructural Responses from 5–40 GPa

description: This dataset (DR1) provides supporting information for a manuscipt for submisison to JGR: Planets, entitled

Experimental Shock Metamorphism of Zircon, Apatite, and Whitlockite: Insights into Microstructural Responses from 5–40 GPa.
DOI: 10.5281/zenodo.18147910
title: DR items_Cone et al. Experimental Shock Metamorphism of Zircon, Apatite, and Whitlockite: Insights into Microstructural Responses from 5–40 GPa

description: This dataset (DR1) provides supporting information for a manuscipt for submisison to JGR: Planets, entitled

Experimental Shock Metamorphism of Zircon, Apatite, and Whitlockite: Insights into Microstructural Responses from 5–40 GPa.
DOI: 10.57745/f85aug
title: Drying1_resi1.tab

description: :unav
DOI: 10.57745/pkhhsa
title: Drying1_capa1.tab

description: :unav
DOI: 10.5061/dryad.547d7wmfc
title: Call for a critical review of widespread use of animal tracking devices

description: Animal tracking has undergone a technological revolution providing insight
 into biological details that were impossible to address until now.
 However, the increasing ease of access to tracking devices (biologgers)
 may lead to trivializing this technology. Consequently, many projects may
 not extract as much scientific knowledge as possible and neglect the
 ethical duties towards the tagged animals. Here we demonstrate this
 process of trivialization empirically on a local and global scale and
 propose some guidelines to avoid it.
description: # Call for a critical review of widespread use of animal tracking devices
 DOI: 10.5061/dryad.547d7wmfc Three sets of data are presented here.
 Firstly, data on the proportion of projects registered on Movebank.org
 with less than 10 biologgers per project by starting year. These data
 clearly show how this proportion is following an upward trajectory.
 Secondly, the data corresponding to the biologging projects on raptors in
 the Iberian Peninsula (years 1978-2020) are shown. Included are: starting
 year of each project, number of biologgers used and whether the project
 generated scientific publications, grey literature or was not published at
 all. The data shows how projects generate less and less scientific
 knowledge and how the number of biologgers used is a good proxy for
 whether the project will generate scientific knowledge or not. Finally,
 data from interviews carried out with 29 biologging experts on the
 existing animal handling laws in each country, their effectiveness and the
 proportion of biologging projects that generate scientific publications
 are shown. In general, it appears that although laws exist in most
 countries, they do not seem to be effective and experts believe that a
 significant proportion of projects do not generate scientific
 publications. ## Description of the data and file structure Three blocks
 of files are presented, one for each dataset analyzed (Movebank, Raptors,
 Surveys). The data tables can be split for better data handling. In that
 case they are numbered and in the script, it is explained which
 analysis/figure they generate. Each data table consists of two sheets, a
 main sheet containing the data and a secondary sheet describing the
 variables. The scripts are also named according to the data group they
 work with (Movebank, Raptors, Surveys).
DOI: 10.57745/dwxobe
title: Drying1_resi3.tab

description: :unav
DOI: 10.57745/ch5igq
title: Drying1_capa3.tab

description: :unav
DOI: 10.57745/zlwi7v
title: Drying2_capa1.tab

description: :unav
DOI: 10.57745/hhpebu
title: Drying2_capa3.tab

description: :unav
DOI: 10.57745/hwj4yn
title: Drying2_resi1.tab

description: :unav
DOI: 10.57745/ctvpri
title: Drying2_resi3.tab

description: :unav
DOI: 10.57745/81wggu
title: ANR-SCaNING_ReadMe_EM.pdf

description: :unav
DOI: 10.57745/hs8bte
title: Electromagnetic database on the monitoring of a concrete slab subjected to controlled temperature variations by means of resistive and capacitive embedded sensors

description: This database contains the results of low-frequency electromagnetic (EM) non-destructive (ND) measurements performed during two monitoring campaigns on an instrumented concrete slab during controlled temperature variations in an oven.
DOI: 10.15468/dl.8tnkaf
title: Occurrence Download

description: A dataset containing 725 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((0.28561840659646 46.17117603692679, 0.28027290502943 46.17226727773722, 0.278631439669804 46.16933119125343, 0.274880027081448 46.1710451137792, 0.275116403479982 46.17821570702802, 0.255571455870107 46.178018325515886, 0.256312107906649 46.17978060395745, 0.24664246681318 46.18090816849746, 0.244357648261933 46.17983461501791, 0.222118714384233 46.18438129693559, 0.216641994336424 46.18228030585418, 0.225621663480329 46.17724773348439, 0.226343538334939 46.17374679274158, 0.231597621862253 46.16902103969992, 0.229465423518156 46.16732916813996, 0.229657735391977 46.1614942159537, 0.227907490913998 46.16151368767421, 0.226089945625411 46.158428300356924, 0.228374263868167 46.15779386682807, 0.226588391198476 46.15475070520338, 0.241993967818668 46.151733446333544, 0.240291763804919 46.14343409177548, 0.243018313978626 46.142366819508695, 0.243059557150508 46.139662909892905, 0.246697795452118 46.139459254599466, 0.246998157924515 46.143677072730725, 0.253513254960104 46.14323655258109, 0.258371625659745 46.14103200232541, 0.257363712994726 46.13962097563001, 0.260822138030555 46.13556603117397, 0.266503111378754 46.13410362325111, 0.268353483978635 46.13135137146303, 0.277208173765516 46.12958903731894, 0.284812338502025 46.13064334797444, 0.285864949205709 46.134069867730354, 0.282656558570064 46.13560234692165, 0.288659096895787 46.14044556076226, 0.286573533794126 46.14086517284502, 0.285781476958229 46.145111668055684, 0.280393301256563 46.14423851024793, 0.277298687724792 46.14552669965792, 0.27834271779862 46.14752856903123, 0.282248059558429 46.148926775140595, 0.289211816723406 46.148462499157475, 0.285275509587881 46.15043811240675, 0.285124232649233 46.15257802059109, 0.281995298581695 46.154813398637984, 0.290636841494822 46.15772201660804, 0.289798180951722 46.161522319722735, 0.28561840659646 46.17117603692679))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 725 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003687-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.sxksn038h
title: Leech-derived iDNA complements traditional surveying methods, enhancing species detections for rapid biodiversity sampling in the tropics

description: Deforestation, exploitation, and other drivers of biodiversity loss in
 Madagascar leave its highly endangered and predominantly endemic wildlife
 at risk of extinction. Decreasing biodiversity threatens to compromise
 ecosystem functions and vital services provided to people. New,
 economical, and diverse methods of biodiversity monitoring can help to
 establish reliable baseline and long-term records of species richness.
 Metabarcoding with invertebrate-derived DNA (iDNA) has emerged as a
 promising new biosurveillance tool. An unexpected wet forest fragment
 tucked in the dry cliffs of Madagascar’s southcentral plateau, the
 Ivohibory Protected Area (IPA), hosts a unique mosaic of species
 diversity, featuring both dry and wet forest species. Recently elevated to
 protected status, the IPA has been surveyed for flora and fauna with a
 range of inventory methods over three years and six expeditions (2016,
 2017, & 2019). We collected 1,451 leeches over 12 days from the
 IPA to supplement known species richness and to compare results against
 current records. With iDNA, we pooled tissues, and isolated, and amplified
 bloodmeal DNA with five sets of primers. We detected 20 species of which
 four are species of frogs previously undetected and three of which are
 previously unknown to exist in this region. iDNA surveys can provide
 complementary data to traditional surveying methods like camera traps,
 line transects, and bioacoustic methods.
description: # Leech-derived iDNA complements traditional surveying methods, enhancing
 species detections for rapid biodiversity sampling in the tropics
 [https://doi.org/10.5061/dryad.sxksn038h](https://doi.org/10.5061/dryad.sxksn038h) Data are raw sequence files in .fa format of pooled leech tissues.
DOI: 10.25345/c5513v88b
title: MassIVE MSV000100622 - ESCRT-0 regulates AMPA receptor conductance and Ca2+- dependent signaling
title: Membrane protein trafficking is essential for synaptic growth, maintenance, function, and plasticity and involves the regulated exocytosis and endocytosis of proteins to and from the pre- and post-synaptic membranes. Defects in membrane protein trafficking can lead to the accumulation of ubiquitinated membrane proteins and contribute to neurodegenerative disease. The ESCRT (endosomal sorting complexes required for transport) machinery binds and sorts ubiquitinated membrane proteins into lysosomes for degradation, yet the presence and function of ESCRTs in sorting ubiquitinated AMPA and other receptors at the post-synapse remain unclear. Here we show that the ubiquitin-binding ESCRT-0 protein, Hrs, localizes to both pre- and post-synapses, and levels are modulated by neuronal activity, increasing and decreasing with higher and lower neuronal activity, respectively. Phosphoproteomic profiling of Hrs-depleted post-synaptic membranes revealed a role for Hrs in glutamatergic synaptic transmission, including long-term potentiation. In addition, Hrs-depleted neurons showed faster AMPAR current kinetics and reduced amplitude in whole-cell patch-clamp recordings. Furthermore, genetic deletion of neuronal Hgs in mice led to reductions in phosphorylated CaMKII-alpha and -beta (T286/T287) and in the structural proteins, PSD-95 and gephyrin, suggestive of long-term depression (LTD)-like synaptic depression. Hrs overexpression led to increased Ca2+-responsive signaling, including phosphorylation of protein kinase C (PKC) substrates and AMPAR subunit GluA1-S831, which increases conductance. Together these findings identify a dynamic, bidirectional role for Hrs at the post-synapse as it both senses and is modulated by neuronal activity, ultimately impacting excitatory synaptic strength
DOI: 10.15468/dl.sakase
title: Occurrence Download

description: A dataset containing 49237 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Astronium graveolens"
 ]
}

 The dataset includes 49237 records from 332 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003684-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.31119144
title: Prediction model for cardiovascular mortality risk in asthma patients based on machine learning

description: Asthma is a common chronic respiratory disease, cardiovascular disease (CVD) mortality constitutes a major public health concern. At present, no personalized tools are available to accurately estimate CVD mortality risk in this population. Accordingly, a machine learning model was developed to predict incident CVD mortality of asthma. Data were extracted from NHANES (2007–2012). Predictors were selected by LASSO and multivariable Cox regression. Discrimination and calibration were quantified with ROC curves and calibration curves, nomogram and web calculator were subsequently deployed. Incremental predictive value relative to ASCVD risk and Framingham risk scores were assessed with the integrated discrimination improvement and net reclassification improvement. Six machine learning algorithms were trained, and feature importance of the optimal model was interpreted with SHAP values. Among 2,033 adults participants with asthma, with mean age 44 years, and they comprised 834 males (41.02%) and 1199 females (58.98%). Twelve variables (age, sex, smoking, hypertension, diabetes, CKD, SBP, LYM, UA, K, FENO, and PEF) were retained as predictors of CVD mortality. Calibration was stable across training sets (C-index = 0.863) and validation sets (C-index = 0.832). The pulmonary function test augmented NHANES model outperformed both ASCVD risk and Framingham risk scores. RF and XGB model achieved the highest discrimination. A machine learning model integrating routine clinical and pulmonary function test indices was developed. The model enables accurate estimation of long term CVD mortality risk with asthma, facilitating early identification of high risk individuals and informing personalized preventive strategies.
DOI: 10.6084/m9.figshare.31119144.v1
title: Prediction model for cardiovascular mortality risk in asthma patients based on machine learning

description: Asthma is a common chronic respiratory disease, cardiovascular disease (CVD) mortality constitutes a major public health concern. At present, no personalized tools are available to accurately estimate CVD mortality risk in this population. Accordingly, a machine learning model was developed to predict incident CVD mortality of asthma. Data were extracted from NHANES (2007–2012). Predictors were selected by LASSO and multivariable Cox regression. Discrimination and calibration were quantified with ROC curves and calibration curves, nomogram and web calculator were subsequently deployed. Incremental predictive value relative to ASCVD risk and Framingham risk scores were assessed with the integrated discrimination improvement and net reclassification improvement. Six machine learning algorithms were trained, and feature importance of the optimal model was interpreted with SHAP values. Among 2,033 adults participants with asthma, with mean age 44 years, and they comprised 834 males (41.02%) and 1199 females (58.98%). Twelve variables (age, sex, smoking, hypertension, diabetes, CKD, SBP, LYM, UA, K, FENO, and PEF) were retained as predictors of CVD mortality. Calibration was stable across training sets (C-index = 0.863) and validation sets (C-index = 0.832). The pulmonary function test augmented NHANES model outperformed both ASCVD risk and Framingham risk scores. RF and XGB model achieved the highest discrimination. A machine learning model integrating routine clinical and pulmonary function test indices was developed. The model enables accurate estimation of long term CVD mortality risk with asthma, facilitating early identification of high risk individuals and informing personalized preventive strategies.
DOI: 10.5066/p9bltstz
title: Forest Canopy Gap Data Products: Mississippi & Illinois Rivers (partial coverage)

description: As part of Upper Mississippi River Restoration (UMRR) Program, the U.S. Army Corps of Engineers (USACE) is conducting a study to understand what environmental factors are contributing to the failure of floodplain forests to regenerate. 


Broken Forest Canopy Identified by Lidar data sets:
As part of Upper Mississippi River Restoration (UMRR), the U.S. Army Corps of Engineers (USACE) is conducting a study to understand what environmental factors are contributing to the failure of floodplain forests to regenerate. This dataset uses lidar derivatives to identify broken forest canopy along the Mississippi River and Illinois River. A broken forest refers to an area that has a canopy height of greater than or equal to 10 meters. From this layer, forest canopy gaps can be identified by locating areas within the broken forest that have at least a 9.144 meter radius, or a 1-tree gap.
Digital Elevation Model, First Return data sets:
In 2007, the U.S Army Corps of Engineers’ Upper Mississippi River Restoration (UMRR) program partnered with the Iowa Department of Natural Resources (IDNR) to collect FEMA-grade, bluff-to-bluff lidar for Navigation Pools 8-24 of the UMRS. In 2009, with American Recovery and Reinvestment (ARRA) funds awarded to UMRR, the remaining lidar for the Upper Mississippi River, to the confluence with the Ohio River, and the Illinois River was contracted. Data acquisition was completed in 2011. Lidar data are remotely sensed, high-resolution elevation data collected by airplane. The Upper Midwest Environmental Sciences Center is processing these data to create Digital Elevation Models (DEMs), 0.5 meter contour lines, and pool-wide hillshade images.
Forest Canopy Gaps Identified by Lidar data sets:
As part of Upper Mississippi River Restoration (UMRR), the U.S. Army Corps of Engineers (USACE) is conducting a study to understand what environmental factors are contributing to the regeneration of floodplain forest. These datasets use lidar derivatives to identify forest canopy gaps along select portions of the Mississippi River and Illinois River. USACE will use this dataset to select field sites to collect data in forest canopy gaps. This will also serve as the baseline for long-term forest canopy gap study.
DOI: 10.5061/dryad.80gb5mkwp
title: Phylogenetic classification of living and fossil ray-finned fishes (Actinopterygii)

description: Classification of the tremendous diversity of ray-finned fishes
 (Actinopterygii) began with the designation of taxonomic groups based on
 morphological similarity. Starting in the late 1960s morphological
 phylogenetics became the basis for the classification of Actinopterygii
 but failed to resolve many relationships, particularly among lineages
 within the hyperdiverse Percomorpha. The introduction of molecular
 phylogenetics led to a dramatic reconfiguration of actinopterygian
 phylogeny. Refined phylogenetic resolution afforded by molecular studies
 revealed an uneven diversity among actinopterygian lineages, resulting in
 a proliferation of redundant group names in Linnean-ranked
 classifications. Here we provide an unranked phylogenetic classification
 for actinopterygian fishes based on a summary phylogeny of 830 lineages of
 ray-finned fishes that includes all currently recognized actinopterygian
 taxonomic families and 287 fossil taxa. We provide phylogenetic
 definitions for 90 clade names and review seven previously defined names.
 For each of the 97 clade names we review the etymology of the clade name,
 clade species diversity and constituent lineages, clade diagnostic
 morphological apomorphies, a review of synonyms, and discuss the
 clade's nomenclatural and systematic history. The new classification
 is free of redundant group names and includes only one new name among the
 97 clade names we review and describe, yielding a comprehensive
 classification that is based explicitly on the phylogeny of ray-finned
 fishes that has emerged in the 21st century and rests on the foundation of
 the previous 200 years of actinopterygian systematic research.
description: This is a phylogenetic tree constructed from hypotheses resulting
 from analyses of morphological and genetic character data as reported in
 the literature. 
description: # Phylogenetic classification of living and fossil ray-finned fishes
 (Actinopterygii) "Actinopterygii\_Near\_and\_Thacker\_2023.phy"
 file containing a phylogenetic tree in Phylip/Newick format. Can be opened
 using any available tree reading software, e.g., FigTree.
DOI: 10.57745/lqsavb
title: Shape files - LL Romania

description: Shape files for boundary of LL Romania
DOI: 10.15468/dl.5ua3sv
title: Occurrence Download

description: A dataset containing 1761758 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((140 36,139 36,139 35,140 35,140 36))",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 1761758 records from 647 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003576-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60593/ur.d.31100752
title: "Developmental exposure to a PFAS mixture impairs the anamnestic response to influenza A virus infection in mice": T follicular helper (Tfh) cell panel FCS files.

description: Flow cytometry standard (FCS) files for staining panel to identify CD8+ T cells, CD4+ T cells, and T follicular helper cells on days 0, 9, 70, 75, and 77 relative to primary influenza A virus infection. In the publication, the analyzed data from these files is presented in Figure 3 and Tables S5 and S6 (CD8+ T cells and CD4+ T cells) and Figure 4 and Tables S7 and S8 (Tfh cells).