cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8348772
title: Five-week DoH Dataset collected on ISP backbone lines

description: This dataset is an additional DoH dataset used for researching DoH traffic data drift phenomena. It contains anonymized packet captures (pcaps) from the following days: 2022-11-28 2022-12-05 2022-12-12 2022-12-19 2022-12-26 The traffic was captured on the CESNET2 network and anonymized. The packet capturing and anonymization follow the methodology described in [1]. The list of IP addresses used for DoH recognition is also included within the dataset in <code>doh_resolver_ip.csv</code> file.<br> The structure of the dataset is as follows: <pre><code>. ├── doh_resolver_ip.csv ├── pcap │ ├── 2022-11-28 │ │ ├── DoH-20221128180002.pcapng │ │ └── HTTPS-20221128180002.pcapng │ ├── 2022-12-05 │ │ ├── DoH-20221205180001.pcapng │ │ └── HTTPS-20221205180001.pcapng │ ├── 2022-12-12 │ │ ├── DoH-20221212180001.pcapng │ │ └── HTTPS-20221212180001.pcapng │ ├── 2022-12-19 │ │ ├── DoH-20221219180001.pcapng │ │ └── HTTPS-20221219180001.pcapng │ └── 2022-12-26 │ ├── DoH-20221226180001.pcapng │ └── HTTPS-20221226180001.pcapng └── README.md</code></pre> [1] Jeřábek, K., Hynek, K., Čejka, T., & Ryšavý, O. (2022). Collection of datasets with DNS over HTTPS traffic. Data in Brief, 42, 108310. https://www.sciencedirect.com/science/article/pii/S2352340922005121
DOI: 10.6084/m9.figshare.24015129.v1
title: Supplementary Material for: SALL4 phenotype in four generations of one family: An interplay of the upper limb, kidneys, and the pituitary

description: Introduction: The SALL4 gene encodes a transcription factor that is essential for early embryonic cellular differentiation of the epiblast and primitive endoderm. It is required for the development of neural tissue, kidney, heart, and limbs. Pathogenic SALL4 variants cause Duane-radial ray syndrome (Okihiro syndrome), acro-renal-ocular syndrome and Holt-Oram syndrome. We report a family with vertical transmission of a SALL4 pathogenic variant leading to radial hypoplasia and kidney dystopia in several generations with additional growth hormone deficiency (GHD) in the proband. Case Presentation: Our male proband was born at the 39th week of gestation. He was born small for gestational age (SGA; birth weight 2550 g, -2.2 SDS; length 47 cm, -2.0 SDS). He had bilateral asymmetrical radial ray malformation (consisting of radial hypoplasia, ulnar flexure, and bilateral aplasia of the thumb) and pelvic kidney dystopia, but no cardiac malformations, clubfoot, ocular coloboma or Duane anomaly. He was examined for progressive short stature at the age of 3.9 years, where his IGF-1 was 68 ug/l (-1.0 SD), and growth hormone (GH) after stimulation 6.2 ug/l. Other pituitary hormones were normal. A brain CT revealed normal morphology of the cerebral midline and the pituitary. He had a dental anomaly – a central mandibular ectopic canine. MRI could not be done due to the presence of metal after multiple corrective plastic surgeries of his hands. His mother’s and father’s heights are 152.3 cm (-2.4 SD) and 177.8 cm (-0.4 SD) respectively. His father has a milder malformation of the forearm. The affected paternal grandfather (height 164 cm; -2.3 SD) has a radial ray defect with missing opposition of the thumb. The family reports a similar phenotype of radial dysplasia in the paternal grandfather’s mother. The proband started GH therapy at age 6.5 years when his height was 109 cm (-2.8 SDS) and he experienced catch-up growth as expected in GHD. Puberty started spontaneously at the age of 12.5 years. At age 13 his height was 158.7 cm (-0.2 SDS). Whole exome sequencing revealed a nonsense variant in the SALL4 gene c.1717C&gt;T (p.Arg573Ter) in the proband, his father, and paternal grandfather. Conclusion: This is the first observation of a patient with a congenital upper limb defect due to a pathogenic SALL4 variant who has isolated GHD with no apparent cerebral or facial midline anomaly, and has been successfully treated with growth hormone.
DOI: 10.34740/kaggle/dsv/6478308
title: COVID Vaccination in World (updated daily)
DOI: 10.5281/zenodo.3937695
title: Test dataset for RABIES

description: This is a test dataset for testing the installation of RABIES (https://github.com/CoBrALab/RABIES). The dataset contains structural and functional scans from 2 mouse subjects. The workflow should run with the default parameters by running "rabies preprocess test_dataset/ output_folder/". The speed of testing can be increased by specifying lower anatomical resolution (i.e. --anatomical_resampling 0.4x0.4x0.4), and the workflow should still run completely, but the quality of the preprocessing will be impaired.
DOI: 10.5281/zenodo.3937697
title: Test dataset for RABIES

description: This is a test dataset for testing the installation of RABIES (https://github.com/CoBrALab/RABIES). The dataset contains structural and functional scans from 2 mouse subjects. The workflow should run with the default parameters by running "rabies preprocess test_dataset/ output_folder/". The speed of testing can be increased by specifying lower anatomical resolution (i.e. --anatomical_resampling 0.4x0.4x0.4), and the workflow should still run completely, but the quality of the preprocessing will be impaired.
DOI: 10.5281/zenodo.8349029
title: Test dataset for RABIES

description: This is a test dataset for testing the installation of RABIES (https://github.com/CoBrALab/RABIES). The dataset contains structural and functional scans from 2 mouse subjects. The workflow should run with the default parameters by running "rabies preprocess test_dataset/ output_folder/". The speed of testing can be increased by specifying lower anatomical resolution (i.e. --anatomical_resampling 0.4x0.4x0.4), and the workflow should still run completely, but the quality of the preprocessing will be impaired.
DOI: 10.17909/ttav-7j76
title: Data from paper: Little Red Dots or Brown Dwarfs? NIRSpec Discovery of Three Distant Brown Dwarfs Masquerading as NIRCam-Selected Highly-Reddened AGNs

description: Cold, substellar objects such as brown dwarfs have long been recognized as contaminants in color-selected samples of active galactic nuclei (AGNs). In particular, their near- to mid-infrared colors (1--5 $\mu$m) can closely resemble the V-shaped ($f_{\lambda}$) spectra of highly-reddened accreting supermassive black holes (``little red dots''), especially at $6 < z < 7$. Recently, a NIRCam-selected sample of little red dots over 45 arcmin$^2$ has been followed up with deep NIRSpec multi-object prism spectroscopy through the UNCOVER program. By investigating the acquired spectra, we identify three of the 14 followed-up objects as T dwarfs with temperatures between 650 and 1300 K and distances between 0.8 and 4.8 kpc. \textbf{At 4.8 kpc, Abell2744-BD1 is the most distant brown dwarf discovered to date.} We identify the remaining 11 objects as extragalactic sources at $z_{\rm spec} \gtrsim 5$. Given that three of these sources are strongly-lensed images of the same AGN (Abell2744-QSO1), we derive a brown dwarf contamination fraction of 25\% in this NIRCam-selection of little red dots. We find that in the near-infrared filters, brown dwarfs appear much bluer than the highly-reddened AGN, providing an avenue for distinguishing the two and compiling cleaner samples of photometrically selected highly-reddened AGN.
DOI: 10.21942/uva.22737074
title: Biased polar questions in Sign Language of the Netherlands - Annotation files

description: ELAN annotation files (.eaf) for the video files containing the productions of 6 signers of Sign Language of the Netherlands in a production experiment on biased polar questions. Each annotation file comprises annotations for non-manual and manual markers, as well as sentence structure, of five questions from one participant in one experimental condition. <br> File naming convention: participant number - version (related to presentation of stimuli) - condition <br> Condition names: declarative = declarative sentence (participants 03 to 07) baseline = regular polar question PosNeg etc. = first abbreviation indicates original speaker bias (positive/neutral/negative); second abbreviation indicates contextual evidence (positive/neutral/negative). <br> Video files can be found here: https://doi.org/10.21942/uva.21666203 <br> For details about the experimental design of the production task, see: https://doi.org/10.21942/uva.21701954
DOI: 10.17909/8enx-3310
title: Data from paper: Little Red Dots or Brown Dwarfs? NIRSpec Discovery of Three Distant Brown Dwarfs Masquerading as NIRCam-Selected Highly-Reddened AGNs

description: Little Red Dots or Brown Dwarfs? NIRSpec Discovery of Three Distant Brown Dwarfs Masquerading as NIRCam-Selected Highly-Reddened AGNs
DOI: 10.6084/m9.figshare.23909829.v1
title: Supplementary Material for: Leisure-time television viewing and computer use, family history, and incidence of dementia

description: Background & Objectives: Time spent on screen-based sedentary activities are significantly associated with dementia risk, however, whether the associations vary by family history (FHx) of dementia is currently unknown. We aimed to examine independent associations of two prevalent types of screen-based sedentary activities (television [TV] viewing and computer use) with dementia and assess the modifying effect of FHx. Methods: We included 415,048 individuals free of dementia from the UK Biobank. Associations of TV viewing, computer use, and FHx with dementia risk were determined using Cox regression models. We estimated both multiplicative- and additive-scale interactions between TV viewing and computer use and FHx. Results: During a median follow-up of 12.6 years, 5,549 participants developed dementia. After adjusting for potential confounding factors, we observed that moderate (2-3 h/day; hazard ratio [HR] 1.13, 95% confidence interval [CI] 0.03-1.23) and high (&gt;3 h/day; 1.33, 1.21-1.46) TV viewing was associated with a higher dementia risk, compared with low (0-1 h/day) TV viewing. Using restricted cubic spline models, the relationship of TV viewing with dementia was nonlinear (relative to 0 hour/day; P for nonlinear = 0.005). We found that &gt;3 h/day of TV viewing was associated with a 42% (1.42, 1.18-1,71) higher dementia risk in participants with FHx while a 30% (1.30, 1.17-1.45) in those without FHx. For computer use, both low (0h/day; 1.41, 1.33-1.50) and high (&gt;2h/day; 1.17, 1.05-1.29) computer use were associated with elevated dementia risk, compared with moderate (1-2h/day) computer use. We observed a J-shaped relationship with dementia (relative to 2 hour/day; P for nonlinear &lt; 0.001). Compared with 1-2h/day of computer use, the HRs of dementia were 1.46 (1.29-1.65) and 1.10 (0.90-1.36) for 0h/day and &gt;2h/day of computer use in participants with FHx respectively; while the corresponding HRs were 1.40 (1.30-1.50) and 1.19 (1.06-1.33) in those without FHx. We observed a positive additive interaction (RERI 0.29, 0.06-0.53) between computer use and FHx, while little evidence of interaction between TV viewing and FHx. Conclusions: The adverse effects of time spent on TV viewing or computer use and FHx were independent on dementia risk. Our findings point to new behavioral targets for intervention on preventing an early onset of dementia, especially for those with FHx.
DOI: 10.5281/zenodo.8348280
title: Automated benchmarking of combined protein structure and ligand conformation prediction

description: The prediction of protein-ligand complexes (PLC), using both experimental and predicted structures, is an active and important area of research, underscored by the inclusion of the Protein-Ligand Interaction category in the latest round of the Critical Assessment of Protein Structure Prediction experiment CASP15. The prediction task in CASP15 consisted of predicting both the three-dimensional structure of the receptor protein as well as the position and conformation of the ligand. This paper addresses the challenges and proposed solutions for devising automated benchmarking techniques for PLC prediction. The reliability of experimentally solved PLC as ground truth reference structures is assessed using various validation criteria. Similarity of PLC to previously released complexes are employed to judge PLC diversity and the difficulty of a PLC as a prediction target. We show that the commonly used PDBBind time-split test-set is inappropriate for comprehensive PLC evaluation, with state-of-the-art tools showing conflicting results on a more representative and high quality dataset constructed for benchmarking purposes. We also show that redocking on crystal structures is a much simpler task than docking into predicted protein models, demonstrated by the two PLC-prediction-specific scoring metrics created. Finally, we introduce a fully automated pipeline that predicts PLC and evaluates the accuracy of the protein structure, ligand pose, and protein-ligand interactions. This repository contains: all_validation_clustering_data.tsv - X-ray validation data and MMSeqs cluster identifiers at different sequence identities for over a million small molecule and ion-binding pockets in the PDB. hqr_dataset.tsv - PDB IDs and ligand information for the high quality representative (HQR) dataset described in the manuscript score_files.tar.gz - Full docking results for all detected pockets for the PDBBind time-split test-set, the HQR dataset, and the subsets of AF models created for both datasets. One file per tool benchmarked with the following columns: Tool, Complex, Pocket, Rank, lDDT-PLI, lDDT-LP, BiSyRMSD, Reference_Ligand, Tool-generated Score errors_all_sets.csv - Report of failures running the pipeline with the following columns: Process, Complex/Ligand/Receptor, Problem
DOI: 10.5281/zenodo.8348279
title: Automated benchmarking of combined protein structure and ligand conformation prediction

description: The prediction of protein-ligand complexes (PLC), using both experimental and predicted structures, is an active and important area of research, underscored by the inclusion of the Protein-Ligand Interaction category in the latest round of the Critical Assessment of Protein Structure Prediction experiment CASP15. The prediction task in CASP15 consisted of predicting both the three-dimensional structure of the receptor protein as well as the position and conformation of the ligand. This paper addresses the challenges and proposed solutions for devising automated benchmarking techniques for PLC prediction. The reliability of experimentally solved PLC as ground truth reference structures is assessed using various validation criteria. Similarity of PLC to previously released complexes are employed to judge PLC diversity and the difficulty of a PLC as a prediction target. We show that the commonly used PDBBind time-split test-set is inappropriate for comprehensive PLC evaluation, with state-of-the-art tools showing conflicting results on a more representative and high quality dataset constructed for benchmarking purposes. We also show that redocking on crystal structures is a much simpler task than docking into predicted protein models, demonstrated by the two PLC-prediction-specific scoring metrics created. Finally, we introduce a fully automated pipeline that predicts PLC and evaluates the accuracy of the protein structure, ligand pose, and protein-ligand interactions. This repository contains: all_validation_clustering_data.tsv - X-ray validation data and MMSeqs cluster identifiers at different sequence identities for over a million small molecule and ion-binding pockets in the PDB. hqr_dataset.tsv - PDB IDs and ligand information for the high quality representative (HQR) dataset described in the manuscript score_files.tar.gz - Full docking results for all detected pockets for the PDBBind time-split test-set, the HQR dataset, and the subsets of AF models created for both datasets. One file per tool benchmarked with the following columns: Tool, Complex, Pocket, Rank, lDDT-PLI, lDDT-LP, BiSyRMSD, Reference_Ligand, Tool-generated Score errors_all_sets.csv - Report of failures running the pipeline with the following columns: Process, Complex/Ligand/Receptor, Problem
DOI: 10.21227/h36a-8w35
title: AzerNewsV1: Azerbaijani News Classification Dataset

description: Our dataset encompasses a comprehensive collection of Azerbaijani news texts from the Azertac (https://azertag.az/) State Agency, drawn from a variety of news articles. Azertac, established on March 1, 1920, was recognized as a pioneering entity within the framework of international information agencies. It has played a pivotal role in the establishment and coordination of various associations, including the Association of National Information Agencies comprising nations affiliated with the Commonwealth of Independent States, the Association of News Agencies representing Turkish-speaking countries, and the Association of National News Agencies associated with countries participating in the Black Sea Economic Cooperation Organization. AZERTAC has engaged in collaborative endeavors with several renowned news agencies to foster global information exchange and cooperation. This extensive network of collaborations underscores Azertac's global reach and influence in international news dissemination.The dataset comprises approximately three million rows, with each row representing a sentence extracted from diverse Azerbaijani news sources. These sentences cover a wide spectrum of subjects, including but not limited to politics, the economy, culture, sports, technology, and health. The Labeled dataset, which has been posted and publicly shared in the link, is organized to facilitate rigorous analysis and classification tasks, with essential metadata provided for each sentence.The dataset is enriched with crucial metadata attributes that enhance its utility and applicability to various research tasks:News Category: Each sentence is linked to a specific news category, covering subjects such as politics, economy, culture, sports, technology, and health.    News Subcategory: Further enhance granularity, each sentence is classified into a subcategory, enabling fine-tuned analysis and specialized classification tasks.    News Index: A unique identifier for each news article maintains the dataset integrity and supports cross-referencing.    News Sentence Order: Sequential order aids in preserving sentence context, which is essential for text generation and summarization.    Link: Hyperlinks to original articles provide direct access for researchers to delve into the sentence context.    Sentence: The core textual content, which varies in length and complexity, covers a spectrum of linguistic styles and themes.
DOI: 10.5517/ccdc.csd.cc2fntqn
title: CCDC 2254342: Experimental Crystal Structure Determination

description: Related Article: Liang Jiang, Zhen Peng, Yimin Liang, Zheng-Bin Tang, Kejiang Liang, Jiali Liu, Zhichang Liu|2023|Angew.Chem.,Int.Ed.|62|e202312238|doi:10.1002/anie.202312238
description: Related Article: Liang Jiang|2023|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fntrp
title: CCDC 2254343: Experimental Crystal Structure Determination

description: Related Article: Liang Jiang, Zhen Peng, Yimin Liang, Zheng-Bin Tang, Kejiang Liang, Jiali Liu, Zhichang Liu|2023|Angew.Chem.,Int.Ed.|62|e202312238|doi:10.1002/anie.202312238
description: Related Article: Liang Jiang|2023|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fntsq
title: CCDC 2254344: Experimental Crystal Structure Determination

description: Related Article: Liang Jiang, Zhen Peng, Yimin Liang, Zheng-Bin Tang, Kejiang Liang, Jiali Liu, Zhichang Liu|2023|Angew.Chem.,Int.Ed.|62|e202312238|doi:10.1002/anie.202312238
description: Related Article: Liang Jiang|2023|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fnttr
title: CCDC 2254345: Experimental Crystal Structure Determination

description: Related Article: Liang Jiang, Zhen Peng, Yimin Liang, Zheng-Bin Tang, Kejiang Liang, Jiali Liu, Zhichang Liu|2023|Angew.Chem.,Int.Ed.|62|e202312238|doi:10.1002/anie.202312238
description: Related Article: Liang Jiang|2023|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.17909/g4k8-3922
title: J0107a: A Barred Spiral Dusty Star-forming Galaxy at $z=2.467$
DOI: 10.6084/m9.figshare.24014898
title: Invasive Fungal Infections in Patients with Recent COVID-19

description: Data pertaining to the study "Corticosteroids and Invasive Fungal Infections in Hospitalized COVID-19 Patients – A single-center cross-sectional study", updated with Key to datasheet
DOI: 10.6084/m9.figshare.24014898.v1
title: Invasive Fungal Infections in Patients with Recent COVID-19

description: Data pertaining to the study "Corticosteroids and Invasive Fungal Infections in Hospitalized COVID-19 Patients – A single-center cross-sectional study"
DOI: 10.6084/m9.figshare.24147444
title: Untitled Item

description: headache
DOI: 10.6084/m9.figshare.24147444.v1
title: Untitled Item

description: headache
DOI: 10.15124/4143bae2-c299-4591-8644-dd39fad99eb2
title: Raw data - Hydrogel crosslinking via thiol-reactive pyridazinediones

description: Raw data associated with the publication 'Hydrogel crosslinking via thiol-reactive pyridazinediones'. Details of how to access each data file are provided in the 'Guide to dataset' file in the parent folder
DOI: 10.5281/zenodo.8333908
title: Early-life experience determines the social stability of adult communities in female mice

description: Home cage RFID-based tracking data of female mice housed in three independent colonies. Data are in the compressed 'RData' format and constitute data objects generated by the R package 'ColonyTrack' (https://rupertoverall.net/ColonyTrack/). The files "YOUNG.RData", "OLD.RData" and "WIND.RData" contain "colonytrack_data" objects with all raw RFID antenna contacts. The files "YOUNG_metrics.RData", "OLD_metrics.RData" and "WIND_metrics.RData" contain "colonytrack_metrics" objects with derived features and processed data used for analysis. These files are supporting data for the manuscript "Early-life experience determines the social stability of adult communities in female mice".