cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27641532
title: Supplementary Material for: Validation of a urine- based proteomics test to predict clinically significant prostate cancer: complementing mpMRI pathway

description: INTRODUCTIONː Prostate cancer (PCa) is the most frequently diagnosed cancer among men. A major clinical need is to accurately predict clinically significant PCa (csPCa). A proteomics-based 19-biomarker model (19-BM) was previously developed using capillary electrophoresis-mass spectrometry (CE-MS) and validated in 1000 patients at risk for PCa. This study aimed to validate 19-BM in a multicenter prospective cohort of 101 biopsy-naive patients using current diagnostic pathways. 

METHODSː Urine samples from 101 patients with PCa were analyzed using CE-MS. All patients underwent MRI using a 3-T system. The 19-BM score was estimated using support vector machine-based software (MosaCluster v1.7.0), employing a previously established cut-off criterion of -0.07. Previously developed diagnostic nomograms were calculated along with MRI.
 
RESULTSː Independent validation of 19-BM yielded a sensitivity of 77% and a specificity of 85% (AUC:0.81). This performance surpassed those of PSA (AUC:0.56) and PSA density (AUC:0.69). For PI-RADS≤ 3 patients, 19-BM showed a sensitivity of 86% and a specificity of 88%. Integrating 19-BM with MRI resulted in significantly better accuracy (AUC:0.90) compared to individual investigations alone (AUC19BM=0.81; p=0.004 and AUCMRI:0.79; p=0.001). Examining the decision curve analysis, 19-BM with MRI surpassed other approaches for the prevailing risk interval from a 30% cut-off. 

CONCLUSIONSː 19-BM exhibited favorable reproducibility for the prediction of csPCa. In patients with PI-RADS≤3, 19-BM correctly classified 88% of the patients with insignificant PCa at the cost of one missed csPCa patient. Utilizing the 19-BM test could prove valuable in complementing MRI and reducing the need for unnecessary biopsies.
DOI: 10.6084/m9.figshare.27645822
title: Supplementary Material for: Predictors for Upgrade to Breast Cancer in Patients with B3 Lesions Diagnosed by Core Biopsy: A Retrospective Cohort Study

description: Background
The optimal approach to B3 lesions is controversial, and the risk of malignant upgrade varies between studies. This study aimed to evaluate the factors affecting the risk of upgrading to breast cancer in patients diagnosed with B3 lesions by core biopsy.
Methods
A total of 410 patients diagnosed with B3 lesions by core biopsy and subsequently undergoing surgical excision were evaluated. Patients who did not undergo surgical excision or were not followed up at our center were excluded. Patients were analyzed based on demographic, clinical, radiological and pathological findings.
Results
All 410 patients included in the study were women, with a median age of 47 years (range 21-78). An upgrade to in-situ or invasive disease was observed in 117 of the 410 patients (28.5%). In univariate analysis, age, mammographic findings, histopathological type, and atypia in core biopsy were identified as significant factors affecting the upgrade rate (p=0.046, p=0.028, p&lt;0.001, and p&lt;0.001, respectively). In multivariate analysis, the presence of atypia (p&lt;0.001) and a diagnosis of ADH (p=0.026) were determined to be independent variables that increase the upgrade rate.
Conclusion
Surgical excision or Vacuum-assisted excision may be more appropriate for atypical ductal hyperplasia and B3 lesions with atypia on core biopsy.
DOI: 10.6084/m9.figshare.7734767
title: A multimodal dataset of human gait at different walking speeds established on injury-free adult participants

description: Human motion capture is used in various fields to analyse, understand and reproduce the diversity of movements that are required during daily-life activities. The proposed dataset of human gait has been established on 50 adults injury-free for lower and upper extremities in the most recent six months, with no lower and upper extremity surgery in the last two years. Participants were asked to walk on a straight level walkway at 5 speeds during one unique session: 0–0.4 m.s-1, 0.4–0.8 m.s-1, 0.8–1.2 m.s-1, self-selected spontaneous and fast speeds. Three dimensional trajectories of 52 reflective markers spread over the whole body, 3D ground reaction forces and moment, and electromyographic signals were simultaneously recorded. For each participants, a minimum of 3 trials per condition have been made available in the dataset for a total of 1.145 trials. This dataset could lead to increase the sample size of similar datasets, analyse the effect of walking speed on gait, or conduce unusual analysis of gait thanks to the full body markerset used. <br>
DOI: 10.5281/zenodo.11235068
title: Additional raw video and pose estimation data of top view mouse behavior recordings (marble burying test, light-dark box, fear conditioning box) of acute and chronic stress models

description: This repository contains raw data for 296 different behavioral recordings of mice (marble burying test, light-dark box, fear conditioning box). These include top view raw video .mp4 files (Videos.zip) and the corresponding .csv pose estimation data (data.zip) obtained with DeepLabCut. The data is from multiple different experiments. The METADATA.csv or METADATA.xlsx files contain all grouping variables and help linking the pose estimation files (located in multiple subfolders of /data) to the video files. Visit https://github.com/ETHZ-INS/BehaviorFlow to find out more about how this data has be used by us.
DOI: 10.5281/zenodo.11235915
title: Additional raw video and pose estimation data of top view open field mouse behavior recordings after diazepam injections

description: This repository contains raw data for 32 different open field recordings of mice. These include top view raw video .mp4 files (Videos.zip and Videos_2.zip) and the corresponding .csv pose estimation data (data.zip) obtained with DeepLabCut. The data is from a single diazepam injection experiment at Roche, where animals were injected with saline, 1 mg/kg, 2 mg/kg or 3 mg/kg of diazepam. The METADATA_ROCHE.csv or METADATA_ROCHE.xlsx files contain all grouping variables and help linking the pose estimation files (located in data/) to the video files. Visit https://github.com/ETHZ-INS/BehaviorFlow to find out more about how we have used this data.
DOI: 10.5281/zenodo.2620293
title: CODEBRIM: COncrete DEfect BRidge IMage Dataset

description: <strong>CODEBRIM: COncrete DEfect BRidge IMage Dataset</strong> for multi-target multi-class concrete defect classification in computer vision and machine learning.

Dataset as presented and detailed in our CVPR 2019 publication: http://openaccess.thecvf.com/content_CVPR_2019/html/Mundt_Meta-Learning_Convolutional_Neural_Architectures_for_Multi-Target_Concrete_Defect_Classification_With_CVPR_2019_paper.html or https://arxiv.org/abs/1904.08486 . If you make use of the dataset <strong>please cite it as follows</strong>:

<strong>"Martin Mundt, Sagnik Majumder, Sreenivas Murali, Panagiotis Panetsos, Visvanathan Ramesh. <em>Meta-learning Convolutional Neural Architectures for Multi-target Concrete Defect Classification with the COncrete DEfect BRidge IMage Dataset</em>. IEEE Conference on Computer Vision and Pattern Recognition (CVPR), 2019"</strong>

We offer a supplementary GitHub repository with code to reproduce the paper and data loaders: https://github.com/ccc-frankfurt/meta-learning-CODEBRIM

For ease of use we provide the dataset in multiple different versions.

Files contained:<br>
* CODEBRIM_original_images: contains the original full-resolution images and bounding box annotations<br>
* CODEBRIM_cropped_dataset: contains the extracted crops/patches with corresponding class labels from the bounding boxes <br>
* CODEBRIM_classification_dataset: contains the cropped patches with corresponding class labels split into training, validation and test sets for machine learning<br>
* CODEBRIM_classification_balanced_dataset: similar to "CODEBRIM_classification_dataset" but with the exact replication of training images to balance the dataset in order to reproduce results obtained in the paper.
DOI: 10.5281/zenodo.4718373
title: Smart home data set - temperature, humidity, motion, sound, and smart water meter data

description: Smart home dataset including a file with readings from temperature, humidity, sound, motion and a file with data from a smart water meter from a two floor house where a family of four lives in Cyprus.
DOI: 10.5281/zenodo.8186065
title: Raw video and pose estimation data of top view open field mouse behavior recordings of acute and chronic stress models

description: This repository contains raw data for 411 different open field recordings of mice. these include top view raw video .mp4 files (Videos.zip) and the corresponding .csv pose estimation data (data.zip) obtained with DeepLabCut. The data is from multiple different experiments. The METADATA.csv or METADATA.xlsx files contain all grouping variables and help linking the pose estimation files (located in multiple subfolders of /data) to the video files. Visit https://github.com/ETHZ-INS/BehaviorFlow to find out more about how this data has be used by us.
DOI: 10.6084/m9.figshare.23909694
title: Lepidoptera records from Northern Austria 1900-2022

description: The data contain 248,018 single records of 2,266 lepidopteran species from 1900 to 2022 that were collected across an altitudinal range from 380 to 3105 m asl. For 247,371 records of 2,264 species, the exact date (day, year) as well as the exact place of capture (place of sampling converted to a GPS-coordinate) was available. The coordinates were recalculated to altitude at a precision of about 15 m.The data also contain the observed annual time series for all species as well as kernel density smoothed time series with a bandwidth of 15 days. Time series and kernel estimates are from cumulated data of two time windows (1960-1990 and 2000-2022) and three altitudinal bands (&lt;800 m asl., 800-1500 m asl., and &gt;1500 m asl.).The Fortran Source code file contains the code to generate time series and kernel density estimates from the data. The code call several additional standard statistics and file sorting routines not provided with this file.<br>
DOI: 10.6084/m9.figshare.25368598
title: NanoBit assay data

description: OD (600 nm) and luminescence (460 nm) readings for NanoBit assays.
DOI: 10.6084/m9.figshare.27165168
title: Data and Code for <b>Regulation of humid heat by</b><b> </b><b>urban greenspace</b><b> </b><b>across a climate wetness gradient</b>

description: Greenspaces are a common strategy for adaptation to urban warming. While they have been demonstrated to reduce air temperature, much less is known about their effect on air humidity. Because human heat stress is contributed by both temperature and humidity, it is important to quantify the relationship between the effects of both. Using mobile measurements in 15 cities, we show that the daytime temperature effect is negatively correlated with the humidity effect, resulting in an insignificant change in the wet-bulb temperature or humid heat. A net reduction in humid heat was observed at night in intermediate (summer precipitation: 180 to 570 mm) and wet climates (summer precipitation &gt; 570 mm). A model simulation revealed that the nighttime reduction resulted mostly from reduction in soil heat storage in vegetated land. These nuanced microclimate responses to urban vegetation caution against a one-size-fits-all solution to climate adaptation.
DOI: 10.6084/m9.figshare.27230874
title: Supplementary Material for: Splice variant of retinal G-protein-coupled receptor deletion (RGR-d)-mediated dysregulation of autophagy increases the susceptibility to age-related macular degeneration-like defects

description: Introduction: The splice variant of retinal G-protein-coupled receptor deletion (RGR-d) is a persistent component of drusen and may be involved in the pathogenesis of dry age-related macular degeneration (AMD). Increasing evidence has demonstrated the critical role of autophagy in AMD. In this study, we investigated whether RGR-d disrupts autophagy in early dry AMD in vivo and in vitro.
Methods: Fundus imaging and fluoroscopy were performed on RGR-d mice created by multiplex gene editing. The retina microstructure was evaluated by performing hematoxylin and eosin (H&E) staining as well as transmission electron microscopy (TEM). Retinal function was assessed by full-field electroretinography (ERG). After lentivirus transfection and stimulation, the permeability, phagocytosis, and tight junctions of ARPE-19 cells were evaluated. Western blotting of ATG5, beclin-1, LC3II/I, and P62 was performed to detect the changes in autophagy pathways.
Results: Atrophy and patchy penetrating hyperfluorescent foci, consistent with early AMD-like defects, were observed in the fundus of 12-month-old RGR-d mice. H&E staining of retinal tissues indicated thinning of each layer of the retinal structure. H&E staining of retinal tissues indicated thinning of each layer of the retinal structure. TEM analysis showed some diffuse granular deposits. And the morphology of choroidal microvascular endothelial cells was degraded and distorted. The morphology of the photoreceptor outer segments showed structural damage and Bruch’s membrane was thickened. ERG indicated that the photoreceptor of RGR-d mice were dysfunctional. Changes in autophagy-related protein expression were observed in the retinal pigment epithelium and retinal neuroepithelium, and autophagy regulation was decreased. Palmitic acid (PA) stimulation caused permeability, phagocytosis, and tight junction dysfunction in cells overexpressing RGR-d. Beclin-1 and LC3II/I expression levels were significantly decreased and that of P62 was elevated in RGR-d cells after PA stimulation.
Conclusions: RGR-d disrupts the autophagy pathway, causing the development of an early AMD-like pathophysiology.
DOI: 10.6084/m9.figshare.27627258
title: Supplementary Material for: Prevalence of Autoantibodies in patients with Hereditary Alpha Tryptasemia

description: Introduction: Hereditary alpha-tryptasemia (HT) is associated with postural orthostatic tachycardic syndrome (POTS), hypermobile Ehlers Danlos Syndrome (hEDS), and mast cell activation syndrome (MCAS). While POTS, hEDS and MCAS have all demonstrated increased prevalence of autoimmunity, this has not been investigated in HT populations. Our objective was to describe the prevalence of autoantibodies in individuals with HT.
Methods: We retrospectively studied a cohort of patients with positive genotyping for HT at a tertiary care allergy clinic. Demographic data including previous autoimmune history and autoantibody serologies were extracted on chart review. A literature search was conducted to determine the prevalence of specific autoimmune and autoantibody prevalences in the general population. We compared the proportions of autoantibody positivity and established autoimmune diseases in our cohort of HT individuals against those in general populations. 
Results: We identified 101 patients with HT. Median age was 43 years (range 15-75) and most were female (87/101; 86.1%). Prevalence of self-reported drug hypersensitivity was 52/101 (52.5%) patients. The proportion of individuals with HT with positive tTG antibody (3/61, 4.9%) was significantly higher than that reported in the general population (133/16667, 0.8%) (p&lt;0.001). The prevalence of SLE (1/101, 1%) and celiac disease (5/101, 5%) in our cohort were found to be significantly higher than the prevalence in the general population [194/96996, 0.2% (p=0.035) and 26/2845, 0.9% (p&lt;0.001), respectively]. 
Conclusion: Patients with HT have increased prevalence of celiac disease, SLE and positive anti-tTG serology as well as self-reported drug hypersensitivity, relative to general populations.
DOI: 10.15468/dl.8rznuj
title: Occurrence Download

description: A dataset containing 282371 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mantodea"
 ]
}

 The dataset includes 282371 records from 2315 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011910-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25582/data.2023-12.2990573/2552403
title: Data for EMSL Project 60579 from December 2023
DOI: 10.25582/data.2023-12.2990574/2552404
title: Data for EMSL Project 60579 from December 2023
DOI: 10.25582/data.2023-12.2990586/2552405
title: Data for EMSL Project 60579 from December 2023
DOI: 10.25582/data.2023-12.2990588/2552406
title: Data for EMSL Project 60579 from December 2023
DOI: 10.25582/data.2023-12.2990589/2552407
title: Data for EMSL Project 60579 from December 2023
DOI: 10.25582/data.2023-12.2990590/2552408
title: Data for EMSL Project 60579 from December 2023
DOI: 10.34740/kaggle/dsv/13185530
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.15468/dl.ntnevs
title: Occurrence Download

description: A dataset containing 3460 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ictiobus cyprinellus"
 ]
}

 The dataset includes 3460 records from 56 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022341-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dtcwt4
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eryngium stenophyllum",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022343-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6e5wrm
title: Occurrence Download

description: A dataset containing 13849 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bidens alba",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 13849 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022344-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h5bvfu
title: Occurrence Download

description: A dataset containing 9556 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Tsuga dumosa, Tsuga forrestii, Tsuga sieboldii, Tsuga ulleungensis, Xanthocyparis, Xanthocyparis vietnamensis, Zamia integrifolia)",
 "HasCoordinate is true",
 "Year is greater than 1900"
 ]
}

 The dataset includes 9556 records from 206 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022346-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17212422
title: Data and R scripts for 'The amount of reachable habitat determines population fate' (Argote et al., 2025)

description: This Zenodo repository contains all datasets and R scripts used in the article "The amount of reachable habitat determines population fate" (Argote et al., 2025, Ecography).

Files include:





Datasets: main and supplementary CSV files, plus R objects with landscape and trajectory data.




R scripts: analyses for the main article and supplementary materials.



All scripts assume datasets are in the same folder and can be run in R to fully reproduce the results from the article.

License: CC-BY 4.0
DOI: 10.15468/dl.vw4mpv
title: Occurrence Download

description: A dataset containing 19308 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Labidesthes sicculus"
 ]
}

 The dataset includes 19308 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022347-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z8r3pn
title: Occurrence Download

description: A dataset containing 220 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydrocotyle ranunculoides",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 220 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022348-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eme28m
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydrocotyle ranunculoides",
 "Country is Georgia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022349-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6mbs4m
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydrocotyle ranunculoides",
 "Country is Yemen",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022350-250920141307145/datasets/export for details.
DOI: 10.15468/dl.w2jrrg
title: Occurrence Download

description: A dataset containing 6074 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bidens pilosa",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 6074 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022351-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rf5d57
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leptodera"
 ]
}

 The dataset includes 3 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022353-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c9qv82
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydrocotyle ranunculoides",
 "Country is Zambia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022354-250920141307145/datasets/export for details.