cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48569/pa-l000015
title: GMRT Data for investigation of SKA methods

description: This dataset set is the digitised nyquist sampled voltage recordings from the 30 antennas of the Giant Metrewave Radio Telescope (GMRT), and associated metadata. GMRT is being used in this case as a SKA pathfinder. This dataset will allow us to test numerous algorithmic approaches to extract different science targets. The dataset has supported: Software correlation of SKA-Pathfinder scale baseband data. It has been used for software correlation tests both on CPUs, MICs (http://ict.icrar.org/store/staff/rdodson/DiFX-MIC-dodson.pptx & http://cira.ivec.org/dokuwiki/lib/exe/fetch.php/difx/meetings/korea2013/richarddodsondifx2013.pdf) and GPUs (Jason Wang, PhD candatiate, UWA, http://arxiv.org/abs/1305.5639). Observations of pulsar sources in tests of time domain signal detection: (Dodson etal http://adsabs.harvard.edu/abs/2014arXiv1407.4605D). The dataset is a unique dataset from a large, low frequency, SKA Pathfinder scale facility. It would be suitable for tests of RFI mitigation in the baseband data, using statistical analysis of the input stream data. It would be suitable for tests of new, some as yet undeveloped, time domain signal detection methods.
DOI: 10.48569/pa-l000034
title: Galactic ASKAP Project Storage

description: The Galactic ASKAP Survey (GASKAP) is one of the nine major survey science projects for the Australian SKA Pathfinder telescope (ASKAP). This survey will study the distribution of atomic and molecular gas within our own Milky Way galaxy, and the nearby galaxies: the Large and Small Magellanic Clouds. The data will reveal the evolution of gas from its diffuse atomic state to its dense star-forming state. The survey will also give unprecedented detail of the physical processes involving in galaxy interaction, by probing the hydrogen gas associated with the Milky Way, its neighbours and the tail of material indicating the interaction of the galaxies. GASKAP will deliver atomic hydrogen (HI) and hydroxyl (OH) data cubes across the Milky Way and Magellanic System.
DOI: 10.48569/pa-l000036
title: Genetic origins of frontotemporal dementia

description: Short tandem repeats (STRs) are known to be involved in a range of disorders, including Huntington disease and various ataxias. Using an Australian cohort of individuals diagnosed with frontotemporal dementia (FTD), we aim to discover novel STRs that are present in these individuals but not in healthy controls. Whole genome sequencing data from all individuals will be analysed using several methods for identifying both known and novel STRs. The presence or absence of individual STR expansions will be tested for association with disease status, with the aim of identifying regions that are linked to FTD, and to improve our understanding of their role in the disorder. These data were generated as part of a larger NHMRC Dementia grant awarded to Prof Ian Blair (APP1095215: Developing insight into the molecular origins of familial and sporadic frontotemporal dementia and amyotrophic lateral sclerosis ) in 2015.
DOI: 10.48569/pa-l000020
title: DNA Zoo Australia

description: The DNA Zoo [https://www.dnazoo.org/] collection is relevant to a broad research base within or across disciplines and/or domains. DNA Zoo is collaboration between academic labs and zoos across the world. We have been working on developing and deploying new methods for genome assembly that combine Hi-C - a protocol for mapping genome folding in 3D - and DNA sequencing. The DNA Zoo project will continuously be generating large volumes of next-gen sequencing data (in addition to existing datasets that have already been generated) on a petabyte scale. Current and future datasets are of high quality and conform to domain-relevant measures such as completeness, coverage, and resolution. Current datasets are being processed and analysed on Pawsey for the purpose of creating high resolution genome assemblies; the same will be done with the new data.
DOI: 10.48569/pa-l000043
title: CT scan data

description: Premier's Fellowship Program of the Western Australian Government CSIRO OCE Postdoctoral Program Integrated Geomechanics and Multiphysics to Predict 4D Seismic Responses in Carbonate Reservoirs, from Petrobras and CSIRO UWA research grant: Creeping damage - "the link between observation, theory and simulation of shear zone formation"
DOI: 10.5281/zenodo.6537596
title: Registro de cruces

description: En este excel se encuentran los registros de los cruces realizados junto con los datasets ordenados para el análisis de datos y gráficas realizado en Rstudio
DOI: 10.48569/pa-l000221
title: CHILES Survey

description: The COSMOS HI Large Extragalactic (CHILES) Survey data set entails calibrated and flagged UV plane data sets collected by the JVLA in New Mexico. The survey had been granted up to 300 hours of observing time during the 2013/2014 observation semester. The data will initially be used by the survey team members and later both the survey data as well as the data products will be published openly in compliance with the US open skies policy. Measurements of neutral hydrogen are essential to our understanding of the universe. Following reionization at z‰äö 6, most of the hydrogen outside of galaxies is ionized. Direct imaging of HI at large redshifts requires (prohibitively) long integration times and as a result efforts to directly image HI at higher redshifts have been far more constrained. The first survey covering a significant volume was done by Verheijen et al. 2007, 2010, who imaged 160 galaxies in two large volumes around clusters at z=0.2 using the Westerbork Synthesis Radio Telescope (WSRT). Very little is known about the HI properties of individual galaxies at intermediate redshifts 0.1 ‰ä_ z ‰ä_ 0.45 The COSMOS HI Large Extragalactic (CHILES) Survey will be the first to explore the continuous redshift range out to z ‰äö 0.45, doubling the lookback time of imaging studies. CHILES is timely for both scientific and technical reasons and we have demonstrated the feasibility through the completion of a pilot survey out to z=0.2 . The HI measurements will have an angular resolution and depth at 0.1 ‰ä_ z ‰ä_ 0.4, that will be unmatched in SKA- pathfinder surveys, like DINGO, making this VLA program a unique and important complement to those wide-field surveys. Collection in formation - Application for RDSI Collection Development Storage. This option is for data collections that are expected to grow significantly and may be nationally significant, but are under development.
DOI: 10.5281/zenodo.6537595
title: Registro de cruces

description: En este excel se encuentran los registros de los cruces realizados junto con los datasets ordenados para el análisis de datos y gráficas realizado en Rstudio
DOI: 10.48569/pa-l000063
title: Mapping the free energy landscape for the crystallisation of calcium carbonate

description: Calcium carbonate, and specifically its polymorph calcite, is one of the most abundant biominerals in the environment and important for both carbon-storage and regulation of ocean pH. Understanding the nucleation and growth/dissolution mechanisms of this key mineral is therefore critical information for a range of models. While probing at the atomic level is challenging for experiment, computer simulation can readily access such information. In this project we are using bias-enhanced molecular dynamics to map the free energy landscape for the crystallisation of this system from aqueous solution. The research has, and is, supported by a number of ARC grants including FT130100463 and FL180100087.
DOI: 10.6084/m9.figshare.19633638.v1
title: DATA_MSA VS PD

description: This data is about COP parameters （PEA and ADV)
DOI: 10.26180/19027595
title: 1-D compression behaviour of cemented sands

description: X-Ray dataset for 1-D compression behaviour of cemented sands.
DOI: 10.48569/pa-l000065
title: Imaging defects at atomic resolution via state-of-the-art atomic force microscopy and petascale simulations

description: Atomic force microscopy (AFM) promises to deliver resolution of individual atoms on surfaces and therefore, in principle, is capable of observing surface defects. However, the image obtained is a convolution of many complex interactions. Thus the key questions are what is being actually observed when we see something with “atomic resolution” in AFM and can point defects be really detected? The aim of this proposal is to combine state-of-the-art experimental AFM techniques with computer simulations that are capable of generating AFM images to answer these questions. Our ability to harness the potential of AFM for many applications in areas such as nanoscience and crystal engineering hinges on being able to correctly interpret AFM images. Funded through ARC Discovery DP140101776
DOI: 10.48569/pa-l000233
title: Oceanographic data for Island Wake research

description: This data supports oceanographic research into the dynamics of shallow island wakes, with particularly relevance to the Kimberley region of Western Australia. The data set spans the relevant parameter space to assess the strength and spatial distribution of vertical and lateral mixing and exchange around islands on shallow continental shelves. The data consists of large volume high resolution 3D particle image velocimetry data; stored as lossless compress imagery files
DOI: 10.4225/03/59c3343bae613
title: Raw reads paired-end RAD-seq data for Maccullochella peelii, Maccullochella macquariensis and Macquaria australasica

description: Raw sequencing reads for 297 Murray cod (Maccullochella peelii; MC), 396 Macquarie perch (Macquarie australasia; MP) and 137 trout cod (Maccullochella macquariensis; TC) samples. Samples were individually barcoded using a 6 nucleotide (nt) sequence (provided in metadata files) and pooled into 11 libraries which were sequenced on an Illumina HiSeq 1500 sequencer (Illumina Inc., San Diego, CA, USA) using 100 bp paired-end reads. Seven libraries were resequenced (the rerun is indicated by "rr" in the library file name). Murray cod data are analysed in the study by Harrisson et al. "Signatures of polygenic adaptation associated with climate across the range of a threatened fish species with high genetic connectivity." [Link to Dryad repository: doi:10.5061/dryad.57m0f]. <br><br>To download the files please login to https://aspera-shares.erc.monash.edu using the following credentials: <br>Username: anonymousPassword: download<br>You will need to install Aspera Connect to download files. For Linux users Firefox is recommended. <br>
DOI: 10.6084/m9.figshare.19743349.v1
title: tractseg.zip

description: Models for Tractseg. <br> Tool for fast and accurate white matter bundle segmentation from Diffusion MRI. It can create bundle segmentations, segmentations of the endregions of bundles and Tract Orientation Maps (TOMs). Moreover, it can do tracking on the TOMs creating bundle-specific tractogram and do Tractometry analysis on those.
DOI: 10.6084/m9.figshare.19743349
title: tractseg.zip

description: Models for Tractseg. <br> Tool for fast and accurate white matter bundle segmentation from Diffusion MRI. It can create bundle segmentations, segmentations of the endregions of bundles and Tract Orientation Maps (TOMs). Moreover, it can do tracking on the TOMs creating bundle-specific tractogram and do Tractometry analysis on those.
DOI: 10.34740/kaggle/dsv/3613887
title: BBC News
DOI: 10.12755/drraa.res.2012.1
title: การใช้ข้อมูลภาพถ่ายดาวเทียม SMMS เพื่อการปฏิบัติการฝนหลวงของศูนย์ปฏิบัติการฝนหลวงภาคกลาง (The Use of SMMS Satellite Imagery for Royal Rainmaking Operation in Central Region, Thailand.)
DOI: 10.21227/qkrg-4w70
title: Results for CTPS 2

description: Results for CTPS 2 are listed in CTPS2.docx. The description for the raw data is listed in Description.docx.
DOI: 10.5517/ccdc.csd.cc26q6lr
title: CCDC 2047134: Experimental Crystal Structure Determination

description: Related Article: Xiunan Zhang, Jingkang Wang, Fei Yu, Xin Huang, Na Wang, Ting Wang, Hongxun Hao|2022|Cryst.Growth Des.|22|3198|doi:10.1021/acs.cgd.2c00045
DOI: 10.5281/zenodo.6529719
title: Unmixed images from the publication "Corncob structures in dental plaque reveal microhabitat taxon specificity"

description: Images of bacteria in human dental plaque after fluorescence in situ hybridization, hyperspectral imaging with a Zeiss LSM 780 or LSM 880 laser-scanning confocal microscope, and spectral unmixing. Each image is presented as a stack of the individual unmixed fluorophore channels readable using FIJI (ImageJ) with the Image5D plugin. Channels are shown for <em>Streptococcus cristatus</em>; the <em>Streptococcus mitis </em>group including <em>S. oralis </em>and <em>S. infantis</em>; <em>Streptococcus gordonii</em>; <em>Streptococcus </em>genus; <em>Corynebacterium </em>genus; <em>Corynebacterium matruchotii</em>; <em>Porphyromonas </em>genus; and family Pasteurellaceae including genera <em>Haemophilus </em>and <em>Aggregatibacter</em>. A channel for the residual signal after linear unmixing is also included, as well as a transmitted light image (transmitted PMT). Images labeled as "set 1" (probe set 1) include all probes; "set 2" (probe set 2) and "set 3" (probe set 3) include only probes for <em>S. cristatus</em>, the <em>S. mitis</em> group, the <em>Streptococcus </em>genus, <em>Corynebacterium</em> genus, and <em>Porphyromonas</em> genus.
DOI: 10.5281/zenodo.6529718
title: Unmixed images from the publication "Corncob structures in dental plaque reveal microhabitat taxon specificity"

description: Images of bacteria in human dental plaque after fluorescence in situ hybridization, hyperspectral imaging with a Zeiss LSM 780 or LSM 880 laser-scanning confocal microscope, and spectral unmixing. Each image is presented as a stack of the individual unmixed fluorophore channels readable using FIJI (ImageJ) with the Image5D plugin. Channels are shown for <em>Streptococcus cristatus</em>; the <em>Streptococcus mitis </em>group including <em>S. oralis </em>and <em>S. infantis</em>; <em>Streptococcus gordonii</em>; <em>Streptococcus </em>genus; <em>Corynebacterium </em>genus; <em>Corynebacterium matruchotii</em>; <em>Porphyromonas </em>genus; and family Pasteurellaceae including genera <em>Haemophilus </em>and <em>Aggregatibacter</em>. A channel for the residual signal after linear unmixing is also included, as well as a transmitted light image (transmitted PMT). Images labeled as "set 1" (probe set 1) include all probes; "set 2" (probe set 2) and "set 3" (probe set 3) include only probes for <em>S. cristatus</em>, the <em>S. mitis</em> group, the <em>Streptococcus </em>genus, <em>Corynebacterium</em> genus, and <em>Porphyromonas</em> genus.
DOI: 10.5281/zenodo.6537609
title: Gut Methanogen MAGs from Singapore

description: Methanogenic Archaea (methanogens) are a phylogenetically diverse group of microorganisms and are considered to be the most abundant archaeal representatives in the human gut. However, the gut methanogen diversity of human populations in many global regions remains poorly investigated. Here, we report the abundance and diversity of gut methanogenic Archaea in a multi-ethnic cohort of healthy Singaporeans by using a concerted approach of metagenomic sequencing, 16S rRNA gene amplicon sequencing, and quantitative PCR. Our results indicate a mutual exclusion of <em>Methanobrevibacter</em> species, i.e. the highly prevalent <em>Methanobrevibacter smithii</em> and the less prevalent <em>Candidatus</em> Methanobrevibacter intestini in more than 80% of the samples when using an amplicon sequencing-based approach. Leveraging on this finding, we were able to select a fecal sample to isolate a representative strain, TLL-48-HuF1, for <em>Candidatus</em> Methanobrevibacter intestini. The analysed physiological parameters of <em>M. smithii</em> DSM 861<sup>T</sup> and strain TLL-48-HuF1 suggest high similarity of the two species. Comparative genome analysis and the mutual exclusion of the <em>Methanobrevibacter</em> species indicate potentially different niche adaptation strategies in the human host, which may support the designation of <em>Candidatus</em> M. intestini as a novel species. The deposited data are methanogen MAGs that were obtained through high-throughput sequencing of the samples.
DOI: 10.5281/zenodo.6537608
title: Gut Methanogen MAGs from Singapore

description: Methanogenic Archaea (methanogens) are a phylogenetically diverse group of microorganisms and are considered to be the most abundant archaeal representatives in the human gut. However, the gut methanogen diversity of human populations in many global regions remains poorly investigated. Here, we report the abundance and diversity of gut methanogenic Archaea in a multi-ethnic cohort of healthy Singaporeans by using a concerted approach of metagenomic sequencing, 16S rRNA gene amplicon sequencing, and quantitative PCR. Our results indicate a mutual exclusion of <em>Methanobrevibacter</em> species, i.e. the highly prevalent <em>Methanobrevibacter smithii</em> and the less prevalent <em>Candidatus</em> Methanobrevibacter intestini in more than 80% of the samples when using an amplicon sequencing-based approach. Leveraging on this finding, we were able to select a fecal sample to isolate a representative strain, TLL-48-HuF1, for <em>Candidatus</em> Methanobrevibacter intestini. The analysed physiological parameters of <em>M. smithii</em> DSM 861<sup>T</sup> and strain TLL-48-HuF1 suggest high similarity of the two species. Comparative genome analysis and the mutual exclusion of the <em>Methanobrevibacter</em> species indicate potentially different niche adaptation strategies in the human host, which may support the designation of <em>Candidatus</em> M. intestini as a novel species. The deposited data are methanogen MAGs that were obtained through high-throughput sequencing of the samples.
DOI: 10.5281/zenodo.6529696
title: JPG images from the publication "Corncob structures in dental plaque reveal microhabitat taxon specificity"

description: Images of bacteria in human dental plaque after fluorescence in situ hybridization, hyperspectral imaging with a Zeiss LSM 780 or LSM 880 laser-scanning confocal microscope, and spectral unmixing. Each image is presented as a color JPG. Cells hybridizing with the probe for <em>Streptococcus cristatus</em> are shown in cyan; cells hybridizing with the probe for <em>Streptococcus mitis, S. oralis, </em>and <em>S. infantis </em>are shown in red; cells of genus <em>Corynebacterium</em> are shown in magenta; cells of genera <em>Haemophilus </em>and <em>Aggregatibacter </em>are shown in yellow; and cells of genus <em>Porphyromonas</em> are shown in blue. Images labeled as "set 1" (probe set 1) include all probes; "set 2" (probe set 2) and "set 3" (probe set 3) include only probes for <em>S. cristatus</em>, the <em>S. mitis</em> group, the <em>Streptococcus </em>genus, <em>Corynebacterium</em> genus, and <em>Porphyromonas</em> genus.
DOI: 10.5281/zenodo.6529695
title: JPG images from the publication "Corncob structures in dental plaque reveal microhabitat taxon specificity"

description: Images of bacteria in human dental plaque after fluorescence in situ hybridization, hyperspectral imaging with a Zeiss LSM 780 or LSM 880 laser-scanning confocal microscope, and spectral unmixing. Each image is presented as a color JPG. Cells hybridizing with the probe for <em>Streptococcus cristatus</em> are shown in cyan; cells hybridizing with the probe for <em>Streptococcus mitis, S. oralis, </em>and <em>S. infantis </em>are shown in red; cells of genus <em>Corynebacterium</em> are shown in magenta; cells of genera <em>Haemophilus </em>and <em>Aggregatibacter </em>are shown in yellow; and cells of genus <em>Porphyromonas</em> are shown in blue. Images labeled as "set 1" (probe set 1) include all probes; "set 2" (probe set 2) and "set 3" (probe set 3) include only probes for <em>S. cristatus</em>, the <em>S. mitis</em> group, the <em>Streptococcus </em>genus, <em>Corynebacterium</em> genus, and <em>Porphyromonas</em> genus.
DOI: 10.5281/zenodo.6426109
title: TIFF images from the publication "Corncob structures in dental plaque reveal microhabitat taxon specificity"

description: Images of bacteria in human dental plaque after fluorescence in situ hybridization, hyperspectral imaging with a Zeiss LSM 780 or LSM 880 laser-scanning confocal microscope, and spectral unmixing. Each image is presented as a TIFF file. Cells hybridizing with the probe for <em>Streptococcus cristatus</em> are shown in cyan; cells hybridizing with the probe for <em>Streptococcus mitis, S. oralis, </em>and <em>S. infantis </em>are shown in red; cells of genus <em>Corynebacterium</em> are shown in magenta; cells of genera <em>Haemophilus </em>and <em>Aggregatibacter </em>are shown in yellow; and cells of genus <em>Porphyromonas</em> are shown in blue. Images labeled as "set 1" (probe set 1) include all probes; "set 2" (probe set 2) and "set 3" (probe set 3) include only probes for <em>S. cristatus</em>, the <em>S. mitis</em> group, the <em>Streptococcus </em>genus, <em>Corynebacterium</em> genus, and <em>Porphyromonas</em> genus.
DOI: 10.5281/zenodo.6426108
title: TIFF images from the publication "Corncob structures in dental plaque reveal microhabitat taxon specificity"

description: Images of bacteria in human dental plaque after fluorescence in situ hybridization, hyperspectral imaging with a Zeiss LSM 780 or LSM 880 laser-scanning confocal microscope, and spectral unmixing. Each image is presented as a TIFF file. Cells hybridizing with the probe for <em>Streptococcus cristatus</em> are shown in cyan; cells hybridizing with the probe for <em>Streptococcus mitis, S. oralis, </em>and <em>S. infantis </em>are shown in red; cells of genus <em>Corynebacterium</em> are shown in magenta; cells of genera <em>Haemophilus </em>and <em>Aggregatibacter </em>are shown in yellow; and cells of genus <em>Porphyromonas</em> are shown in blue. Images labeled as "set 1" (probe set 1) include all probes; "set 2" (probe set 2) and "set 3" (probe set 3) include only probes for <em>S. cristatus</em>, the <em>S. mitis</em> group, the <em>Streptococcus </em>genus, <em>Corynebacterium</em> genus, and <em>Porphyromonas</em> genus.
DOI: 10.6084/m9.figshare.19736374
title: Data for MTE

description: Integrating soil pH into the metabolic theory of ecology to predict bacterial diversity in soil
DOI: 10.6084/m9.figshare.19736374.v2
title: Data for MTE

description: Integrating soil pH into the metabolic theory of ecology to predict bacterial diversity in soil
DOI: 10.6084/m9.figshare.19736374.v1
title: Data for MTE

description: Integrating soil pH into the metabolic theory of ecology to predict bacterial diversity in soil
DOI: 10.25573/data.19743013
title: Data from Arlauskas et al. in Biological Bulletin

description: This includes, temperature data from the intertidal (logged with ibuttons) and from the nearby subtidal (logged with Hobos) in the bay of Panama, and lifehistory data from Crepidula cf. marginalis generated by an experiment in which they were subjected to two diet treatments and 3 different temperature conditions.
DOI: 10.25573/data.19743013.v1
title: Data from Arlauskas et al. in Biological Bulletin

description: This includes, temperature data from the intertidal (logged with ibuttons) and from the nearby subtidal (logged with Hobos) in the bay of Panama, and lifehistory data from Crepidula cf. marginalis generated by an experiment in which they were subjected to two diet treatments and 3 different temperature conditions.