cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5651390
title: Data and outputs for chapter 'The impacts of the 2019-20 wildfires on Australian fungi ' in 'Australia's Megafires: Biodiversity Impacts and Lessons from 2019-2020

description: <strong>Dataset includes raw data downloaded from the following sources: fungi_data.csv</strong> Atlas of Living Australia occurrence download: https://doi.org/10.26197/ala.9e0ca388-9da2-4096-b1a3-26e2aaa51d8a. Accessed 2021-09-16. GBIF.org (16 September 2021) GBIF Occurrence Download https://doi.org/10.15468/dl.secenk Fungimap (https://fungimap.org.au/ (data obtained directly from Fungimap Inc.) MycoPortal (https://mycoportal.org/portal/index.php) iNaturalist (https://www.inaturalist.org/home) <strong>Output files from point and polygon overlap with fire layer:</strong> Fungi and fire analysis point overlap.xlsx Fungi and fire analysis polygon overlap.xlsx
description: Accompanying code for analysis using this dataset is available at https://github.com/payalbal/fungi-fire
DOI: 10.6084/m9.figshare.21359433
title: Raw data for table 4

description: The adder is split into certain non-overlapped summation blocks throughout the first structure, and also the substitute adders employed which is called Knowles parallel prefix adders.
DOI: 10.25959/hwk8-cc81
title: Totten Glacier ocean & sediment DNA (IN2017_V01)

description: Genetic data underlying the paper 'From the Surface Ocean to the Seafloor: Linking Modern and Paleo-genetics at the Sabrina Coast, East Antarctica (IN2017_V01)' by Armbrecht et al. In this study, we provide the first taxonomic overview of the modern and ancient marine bacterial and eukaryotic communities of the Totten Glacier region, East Antarctica, using a combination of 16S and 18S rRNA amplicon sequencing (modern DNA) and shotgun metagenomic (sedimentary ancient DNA, sedaDNA) analyses, respectively. We explore environmental and geochemical variables that drive these biodiversity patterns. Our data show considerable differences between eukaryote and bacterial signals detected via DNA analyses in the water column vs. the sediments. Organisms that are well represented in deeper waters appear are to have a higher likelihood of becoming preserved in the sediments. The study provides the first assessment of DNA transfer from ocean waters to sediments, while also providing a broad overview of the biological communities occurring in the climatically important Totten Glacier region.
DOI: 10.6084/m9.figshare.21359322
title: RS_H3K27me3_replicate1.filtered.seq_depth_norm.bw

description: RS_H3K27me3_replicate1.filtered.seq_depth_norm.bw
DOI: 10.6084/m9.figshare.21359322.v1
title: RS_H3K27me3_replicate1.filtered.seq_depth_norm.bw

description: RS_H3K27me3_replicate1.filtered.seq_depth_norm.bw
DOI: 10.6084/m9.figshare.21359451
title: Sperm_H3K4me3_replicate1.filtered.seq_depth_norm.bw

description: Sperm_H3K4me3_replicate1.filtered.seq_depth_norm.bw
DOI: 10.6084/m9.figshare.21359451.v1
title: Sperm_H3K4me3_replicate1.filtered.seq_depth_norm.bw

description: Sperm_H3K4me3_replicate1.filtered.seq_depth_norm.bw
DOI: 10.5281/zenodo.6805559
title: RadarPWN

description: RadarPWN is a comprehensive, easy-to-use, and documented dataset, including cyberattacks against radar communication in modern Integrated Bridge Systems. RadarPWN was recorded using a simulation environment consisting of the BridgeCommand ship simulator, our Radar Attack Tool and the OpenCPN chart plotter. The resulting data consists of Navico BR24 and NMEA 0183 network traffic in benign and "attack" scenarios.<br> <br> The dataset is available in two forms: <em>radarpwn-x-y-z</em> contains all network captures as pcaps as well as configuration files used for the simulation runs and logs <em>radarpwn-x-y-z-screen-captures </em>contains all of the above in addition to screen recording videos of all of the simulation runs showing the chart plotter, the radar screen and the logs of the Radar Attack Tool, which can be helpful to visualize the attacks contained in the network captures. Details on the structure and content of the dataset are provided in the README.md file (or README.html). Working with the provided packet captures can be facilitated by using our Wireshark dissector. For more information, please see K. Wolsing et al., "<em>Network Attacks Against Marine Radar Systems: A Taxonomy, Simulation Environment, and Dataset,</em>" 2022 IEEE 47th Conference on Local Computer Networks (LCN), 2022, pp. 114-122, DOI: 10.1109/LCN53696.2022.9843801.<br> <br> Changelog: 1.0.2: Updated README files to include link to the radarsec-lab simulation environment. 1.0.1: Removed Docker-compose logs, renamed scenario list files to ensure the dataset archive is the default preview file on Zenodo.
DOI: 10.6084/m9.figshare.21359457
title: RS_H3K4me3_replicate1.filtered.seq_depth_norm.bw

description: RS_H3K4me3_replicate1.filtered.seq_depth_norm.bw
DOI: 10.6084/m9.figshare.21359457.v1
title: RS_H3K4me3_replicate1.filtered.seq_depth_norm.bw

description: RS_H3K4me3_replicate1.filtered.seq_depth_norm.bw
DOI: 10.5281/zenodo.6631997
title: Reproduktion McMenemy et al. 2022 für den DACH-Raum

description: Dataset (Raw data, R-Scripts, data, plots, tables) of a reproduction of the analysis of statistics on public libraries done in "McMenemy, David, Robinson, Elaine & Ruthven, Ian 2022. The Impact of COVID-19 Lockdowns on Public Libraries in the UK: Findings from a National Study. <em>Public Library Quarterly</em> 0, 1–19." with data from the library statistics from Switzerland, Germany, and Austria. (Updated with minor corrections.)
DOI: 10.5281/zenodo.6631998
title: Reproduktion McMenemy et al. 2022 für den DACH-Raum

description: Dataset (Raw data, R-Scripts, data, plots, tables) of a reproduction of the analysis of statistics on public libraries done in "McMenemy, David, Robinson, Elaine & Ruthven, Ian 2022. The Impact of COVID-19 Lockdowns on Public Libraries in the UK: Findings from a National Study. <em>Public Library Quarterly</em> 0, 1–19." with data from the library statistics from Switzerland, Germany, and Austria.
DOI: 10.5281/zenodo.7193416
title: Reproduktion McMenemy et al. 2022 für den DACH-Raum

description: Dataset (Raw data, R-Scripts, data, plots, tables) of a reproduction of the analysis of statistics on public libraries done in "McMenemy, David, Robinson, Elaine & Ruthven, Ian 2022. The Impact of COVID-19 Lockdowns on Public Libraries in the UK: Findings from a National Study. <em>Public Library Quarterly</em> 0, 1–19." with data from the library statistics from Switzerland, Germany, and Austria. (Updated with minor corrections.)
DOI: 10.5281/zenodo.7223516
title: Reproduktion McMenemy et al. 2022 für den DACH-Raum

description: Dataset (Raw data, R-Scripts, data, plots, tables) of a reproduction of the analysis of statistics on public libraries done in "McMenemy, David, Robinson, Elaine & Ruthven, Ian 2022. The Impact of COVID-19 Lockdowns on Public Libraries in the UK: Findings from a National Study. <em>Public Library Quarterly</em> 0, 1–19." with data from the library statistics from Switzerland, Germany, and Austria. (Updated with minor corrections.)
DOI: 10.5281/zenodo.6562609
title: Varikin: A global collection of kinship terminology

description: The data repository for the Varikin dataset
DOI: 10.5281/zenodo.6562608
title: Varikin: A global collection of kinship terminology

description: The data repository for the Varikin dataset
DOI: 10.5281/zenodo.7218606
title: Varikin: A global collection of kinship terminology

description: The data repository for the Varikin dataset
DOI: 10.5281/zenodo.6562601
title: Parabank: A global collection of kinship terminology

description: The data repository for the Parabank dataset
DOI: 10.5281/zenodo.7218495
title: Parabank: A global collection of kinship terminology

description: The data repository for the Parabank dataset
DOI: 10.5281/zenodo.6562600
title: Parabank: A global collection of kinship terminology

description: The data repository for the Parabank dataset
DOI: 10.5281/zenodo.6474213
title: MPEGKin: A database of kinship terminology from the Tupian and Cariban language families

description: The data repository for the MPEGKin dataset
DOI: 10.5281/zenodo.6474212
title: MPEGKin: A database of kinship terminology from the Tupian and Cariban language families

description: The data repository for the MPEGKin dataset
DOI: 10.5281/zenodo.7218387
title: MPEGKin: A database of kinship terminology from the Tupian and Cariban language families

description: The data repository for the MPEGKin dataset
DOI: 10.6084/m9.figshare.20453322.v2
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.6084/m9.figshare.20453322.v3
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.6084/m9.figshare.20453322.v4
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.5281/zenodo.7223564
title: Proportion of juveniles

description: In this study we seek to provide guidance for the design of age counts of a migratory goose species, by identifying which factors need to be taken into account when collecting data.
DOI: 10.5281/zenodo.7223677
title: Genome assembly and annotation files of Colletotrichum graminicola strain TZ-3

description: The maize anthracnose stalk rot and leaf blight diseases caused by the fungal pathogen Colletotrichum graminicola is emerging as an important threat to corn production worldwide. In this work, we provide an improved genome assembly of C. graminicola strain TZ-3 by using the PacBio Sequel II and Illumina high-throughput sequencing technologies. We hope that this genome information will facilitate the pathogenesis research of this plant pathogen.
DOI: 10.6084/m9.figshare.20453322.v5
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.6084/m9.figshare.20453322.v6
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.3886/e181741
title: Guat_percept_corr

description: This dataset includes responses from 1414 university students in Guatemala regarding their perceptions on tolerance towards corruption
DOI: 10.3886/e181741v1
title: Guat_percept_corr

description: This dataset includes responses from 1414 university students in Guatemala regarding their perceptions on tolerance towards corruption
DOI: 10.6084/m9.figshare.20453322
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.6084/m9.figshare.20453322.v7
title: Sources and Data Lists of Cell Lines

description: Summary of Sources and Data Lists of Cell Lines <br> The summary shows the cell lines used for the RNA-seq, Exome-seq, and ChIP-seq data sets and their sources.
DOI: 10.6084/m9.figshare.21359813
title: Additional file 1 of Genetic dissection of fruit maturity date in apricot (P. armeniaca L.) through a Single Primer Enrichment Technology (SPET) approach

description: Additional file 1.
DOI: 10.6084/m9.figshare.21359813.v1
title: Additional file 1 of Genetic dissection of fruit maturity date in apricot (P. armeniaca L.) through a Single Primer Enrichment Technology (SPET) approach

description: Additional file 1.
DOI: 10.6084/m9.figshare.20453802
title: Summary Statistics of RNA-seq Alignment

description: Summary Statistics of RNA-seq Alignment <br> RNA-seq mapped to a human reference genome (hg38) using STAR alignment tools. The summary showed Number of input reads, Uniquely mapped reads number, and Uniquely mapped reads rate (%).
DOI: 10.6084/m9.figshare.20454027
title: Quality and quantity of the Exome-seq data

description: Summary of Quality and quantity of the Exome sequencing data <br> The summary showed mapping rate, genome coverage, scores of the mapping quality, and duplicate reads of Exome sequencing data. The quality and quantity of sequencing data was confirmed by bam qc of QualiMap.
DOI: 10.6084/m9.figshare.20454267
title: Quality and quantity of the sequencing data_ChIP_set1

description: Quality and quantity of the sequencing data_ChIP_set1 <br> The summary showed mapping rate, genome coverage, scores of the mapping quality, and duplicate reads of ChIP sequencing data of ChIP-set1. The quality and quantity of sequencing data was confirmed by bam qc of QualiMap.
DOI: 10.6084/m9.figshare.20454267.v2
title: Quality and quantity of the sequencing data_ChIP_set1

description: Quality and quantity of the sequencing data_ChIP_set1 <br> The summary showed mapping rate, genome coverage, scores of the mapping quality, and duplicate reads of ChIP sequencing data of ChIP-set1. The quality and quantity of sequencing data was confirmed by bam qc of QualiMap.
DOI: 10.6084/m9.figshare.20454279
title: Quality and quantity of the sequencing data_ChIP_set2

description: Quality and quantity of the sequencing data_ChIP_set2 <br> The summary showed mapping rate, genome coverage, scores of the mapping quality, and duplicate reads of ChIP sequencing data of ChIP-set2. The quality and quantity of sequencing data was confirmed by bam qc of QualiMap.
DOI: 10.6084/m9.figshare.20454294
title: ChIP seq IP efficiency ChIP_set1

description: ChIP seq IP efficiency ChIP_set1 <br> The summary showed approximate IP efficiency of ChIP-set1.
DOI: 10.6084/m9.figshare.20454294.v3
title: ChIP seq IP efficiency ChIP_set1

description: ChIP seq IP efficiency ChIP_set1 <br> The summary showed approximate IP efficiency of ChIP-set1.
DOI: 10.6084/m9.figshare.21286074
title: wasabi genome

description: wasabi genome
DOI: 10.6084/m9.figshare.21286074.v1
title: wasabi genome

description: wasabi genome
DOI: 10.6084/m9.figshare.20454381
title: ChIP seq IP efficiency ChIP_set2

description: ChIP seq IP efficiency ChIP_set2 <br> The summary showed approximate IP efficiency of ChIP-set2.
DOI: 10.6084/m9.figshare.20454381.v2
title: ChIP seq IP efficiency ChIP_set2

description: ChIP seq IP efficiency ChIP_set2 <br> The summary showed approximate IP efficiency of ChIP-set2.
DOI: 10.6084/m9.figshare.21359934
title: Additional file 4 of Cov2clusters: genomic clustering of SARS-CoV-2 sequences

description: Additional file 4: Supplementary Table S1. The clustering results from the tested methods for SARS-CoV-2 sequences found in epidemiologically supported clusters isolated in British Columbia, Canada.
DOI: 10.6084/m9.figshare.21359934.v1
title: Additional file 4 of Cov2clusters: genomic clustering of SARS-CoV-2 sequences

description: Additional file 4: Supplementary Table S1. The clustering results from the tested methods for SARS-CoV-2 sequences found in epidemiologically supported clusters isolated in British Columbia, Canada.
DOI: 10.6084/m9.figshare.21359918
title: Additional file 1 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 1: Supplementary Table S1. Read counts and number of OTUs/ASVs in the OTU/ASV matrix of each pipeline.
DOI: 10.6084/m9.figshare.21359918.v1
title: Additional file 1 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 1: Supplementary Table S1. Read counts and number of OTUs/ASVs in the OTU/ASV matrix of each pipeline.
DOI: 10.6084/m9.figshare.21359921
title: Additional file 2 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 2: Supplementary Table S2. Significance of differences between each pipeline in the reproducibility of beta diversity between the technical replicates. Significance of differences in Bray-Curtis distance between the pipelines were calculated based on the Tukey’s HSD test.
DOI: 10.6084/m9.figshare.21359924
title: Additional file 3 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 3: Supplementary Table S3. Correlation and beta distance between the mock community and re-constructed mock community by each pipeline. A-B) Spearman and Pearson correlation between the expected abundances in the mock community and the observed abundances by each pipeline. C) Bray-Curtis dissimilarity between the known mock community and re-constructed mock community composition by each pipeline.
DOI: 10.6084/m9.figshare.21359921.v1
title: Additional file 2 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 2: Supplementary Table S2. Significance of differences between each pipeline in the reproducibility of beta diversity between the technical replicates. Significance of differences in Bray-Curtis distance between the pipelines were calculated based on the Tukey’s HSD test.
DOI: 10.6084/m9.figshare.21359924.v1
title: Additional file 3 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 3: Supplementary Table S3. Correlation and beta distance between the mock community and re-constructed mock community by each pipeline. A-B) Spearman and Pearson correlation between the expected abundances in the mock community and the observed abundances by each pipeline. C) Bray-Curtis dissimilarity between the known mock community and re-constructed mock community composition by each pipeline.
DOI: 10.6084/m9.figshare.21359927
title: Additional file 4 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 4: Supplementary Table S4. Accuracy of each pipeline in re-constructing the mock community at genus level.
DOI: 10.6084/m9.figshare.21359927.v1
title: Additional file 4 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 4: Supplementary Table S4. Accuracy of each pipeline in re-constructing the mock community at genus level.
DOI: 10.6084/m9.figshare.21359930
title: Additional file 5 of LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis

description: Additional file 5: Supplementary Figure S1. Galaxy web interface of LotuS2. Raw reads can be uploaded into the LotuS2 via the Galaxy web interface and analysed (accessible on https://usegalaxy.eu/ ).
DOI: 10.5281/zenodo.7223948
title: Serum Leptin and Adiponectin levels

description: Serum Leptin and Adiponectin levels
DOI: 10.5281/zenodo.7223947
title: Serum Leptin and Adiponectin levels

description: Serum Leptin and Adiponectin levels
DOI: 10.48623/aperta.240636
title: [Dataset] Phact: Phylogeny-Aware Computing Of Tolerance For Missense Mutations

description: Evolutionary conservation is a fundamental resource for predicting the substitutability of amino acids and the loss of function in proteins. The use of multiple sequence alignment alone—without considering the evolutionary relationships among sequences—results in the redundant counting of evolutionarily related alteration events, as if they were independent. Here, we propose a new method, PHACT, that predicts the pathogenicity of missense mutations directly from the phylogenetic tree of proteins. PHACT travels through the nodes of the phylogenetic tree and evaluates the deleteriousness of a substitution based on the probability differences of ancestral amino acids between neighboring nodes in the tree. Moreover, PHACT assigns weights to each node in the tree based on their distance to the query organism. For each potential amino acid substitution, the algorithm generates a score that is used to calculate the effect of substitution on protein function. To analyze the predictive performance of PHACT, we performed various experiments over the subsets of two datasets that include 3,023 proteins and 61,662 variants in total. The experiments demonstrated that our method outperformed the widely used pathogenicity prediction tools (i.e., SIFT and PolyPhen-2) and achieved a better predictive performance than other conventional statistical approaches presented in dbNSFP. The PHACT source code is available at https://github.com/CompGenomeLab/PHACT.
description: All data obtained during this study is also shared on the following url. https://phact.sabanciuniv.edu/pubs/kuru_mbe_2022/ All the tools, sw, developed codes is shared on the github page. https://github.com/CompGenomeLab/PHACT Acknowledgement This work was supported by the Health Institutes of Turkey (TUSEB) (Project no: 4587 to O.A.) and EMBO Installation Grant (Project no: 4163 to O.A.) funded by the Scientific and Technological Research Council of Turkey (TÜBİTAK). Most of the numerical calculations reported in this paper were performed at the High Performance and Grid Computing Center (TRUBA resources) of TÜBITAK. The TOSUN cluster at Sabanci University was also used for computational analyses. We also want to thank Nehircan Özdemir for his art illustration of the PHACT approach.
description: {"references": ["Kuru, Nurdan, et al. \"PHACT: Phylogeny-aware computing of tolerance for missense mutations.\" Molecular Biology and Evolution 39.6 (2022): msac114."]}
DOI: 10.6084/m9.figshare.21359775
title: UCR Archive 2018

description: The UCR archive from the original archive. The only difference is that I replaced some datasets with varying length with the provided padded versions of them.
DOI: 10.24400/527896/a01-2022.016
title: Mesoscale Eddy Trajectory Atlas META4.0exp Delayed-Time all satellites
title: version META4.0exp DT allsat

description: This dataset is composed of the eddy networks and all associated parameters for the eddies detected with the py-eddy-tracker algorithm (Mason et al., 2014. DOI:10.1175/JTECH-D-14-00019.1) freely released under a GPL V3 license (https://github.com/AntSimi/py-eddy-tracker). The detection is made on maps of Absolute Dynamic Topography (ADT) computed with the maximum altimeter satellites available, the maps are distributed by the Copernicus Marine Service (https://marine.copernicus.eu, cf user manual for details). The maps are high-pass filtered with a half-power cutoff wavelenght of 700 km. The amplitude must be over 0.4 cm , the minimum number of grid points within a contour is 5 and the shape error must be below 70% on the raw effective contour. Note that the contour storage resampling may slightly change the provided shape error. The tracking is made through the overlap of the eddies. Networks are divided into segments composed of consecutive eddy observations, linked throught splitting (on eddy split in two or more eddies) and merging (two or more eddies merge in one eddy) events.
DOI: 10.6084/m9.figshare.21359949
title: Comparison of two sampling methods of detection of bacterial contamination in the hospital environment: moistened swabs versus RODAC agar plate

description: This study aimed to investigate the efficiency of two different sampling methods (swabbing, and RODAC (replicate organism detection and counting) agar plate) in terms of detection of bacterial contamination, and their suitability as monitoring methods for partition curtains and other medical textiles.
DOI: 10.6084/m9.figshare.21359949.v1
title: Comparison of two sampling methods of detection of bacterial contamination in the hospital environment: moistened swabs versus RODAC agar plate

description: This study aimed to investigate the efficiency of two different sampling methods (swabbing, and RODAC (replicate organism detection and counting) agar plate) in terms of detection of bacterial contamination, and their suitability as monitoring methods for partition curtains and other medical textiles.