cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.34808/zmet-9y73
title: Determination of denaturation temperature of connective tissue proteins by viscometric measurements.

description: Viscometric denaturation temperature of connective tissue proteins was determined by measuring viscosity with a Brookfield viscometer, using a LV SC4 - 18, 25 or LV3 spindle and shear rates from 50 to 110 s-1 (Fig.1). Freeze-dried protein samples were dissolved in 0.5 M acetic acid at 4 °C and concentration of 20 mg/mL. The solution was stirred with a magnetic stirrer for 2 hours. The measurement was made in the temperature range of 5 ÷ 40 °C with temperature increase equal 0.1 °C / minute. The volume of the sample used for the determination was dependend on the used spindle. Data allowed to determine the denaturation temperature of connective tissue proteins. Fig.1. Brokfield rotational viscometer - model DV-III +.
DOI: 10.34808/kp2c-yb14
title: Determination of mechanical properties of human stomach tissues subjected to uniaxial stretching

description: The aim of the study was to determine the biomechanical properties of the walls of the human stomach. The samples were fragments of the human stomach obtained after sleeve gastrectomy. Samples cut parallel to the stomach curves and perpendicular to the stomach curves were tested in each series. All samples were subjected to uniaxial stretching. During the experiment, the length of the sample and the corresponding load (tensile force) were measured. In addition, at the beginning and end of each experiment, the average width and average thickness of the sample were determined. The collected measurement data make it possible to determine the coefficients of various models of incompressible and nearly incompressible hyperelastic materials (Neo-Hookean, Mooney-Rivlin, Ogden and others).
DOI: 10.34808/z8vj-sg17
title: Time series of Doppler blood flow recordings

description: Vital signals registration plays a grate role in biomedical engineering and education process. Well acquired data allow future engineers to observe certain physical phenomenons as well learn how to correctly process and interpret the data. This data set was designed for students to learn about Doppler phenomena and to demonstrate correctly and incorrectly acquired signals. The data set contains sampled recordings from portable Doppler blood flow detector. Utilized device allows to perform a fast assessment of blood flow in peripheral vessels also in a patient with weak pulse. The used device was equipped with a universal 5 MHz ultrasound probe. The data were recorded from the neck area with and without a gel. The data are sampled with 22050Hz sample rate. The dataset contains time series stored in .csv file format. Samples are separated with ',' sign.
DOI: 10.6084/m9.figshare.14141126
title: Ratio of gene expression under hypoxic and normoxic conditions(HN-ratio)

description: Ratio of gene expression under hypoxic and normoxic conditions(HN-ratio) based on meta-analysis
DOI: 10.15129/dfd6c952-0c12-4588-8efa-5c8892cab20f
title: Supplementary material for: "Multicellular states of viscoelastic thermovibrational convection in a square cavity"

description: The main folder contains all the data used to generate the figure of the paper. The name of each sub-folder represents the number of the figure (as it appears in the final version of the paper) that has been generated with that data. Every sub-folder named Fig* contains a folder called postProcessing. Here we stored the data related to probes located in in different points of the cavity (U.cfludi is the velocity, Umean is the time average velocity, T is the temperature, Tmean id the time-average temperature). These files (also referred to as signals in the paper) can be opened and visualized using e.g MATLAB. Every sub-folder also contains a file called "example.foam". Using the software Paraview, this file can be opened to visualize all the fields of interest (velocity "U.cfluid" or mean velocity "Umean" and related streamlines, Temperature "T", Viscoelastic extra-stress tensor "tau" and for some cases the time-average Viscoelastic extra-stress tensor"taumean"). Both the 2D fields and the signals report the related quantities in *dimensional* form. The MS Excel file (.xlxs) contains the data reported in the related graphs of the paper. Dataset related to Boaro, A., & Lappa, M. (2021) (Accepted/In press). Multicellular states of viscoelastic thermovibrational convection in a square cavity. Physics of Fluids.
DOI: 10.6084/m9.figshare.14141135
title: Score based on the ratio of gene expression between hypoxic and normoxic conditions（HN-score）

description: Score based on the ratio of gene expression between hypoxic and normoxic conditions（HN-score）
DOI: 10.6084/m9.figshare.14141156.v1
title: Code and Data for Scharf et al 2021 Oecologia

description: Data and code for the paper in the journal Oecologia entitled "The effect of avian brood parasitism on physiological responses of host nestlings"
DOI: 10.6084/m9.figshare.14141156
title: Code and Data for Scharf et al 2021 Oecologia

description: Data and code for the paper in the journal Oecologia entitled "The effect of avian brood parasitism on physiological responses of host nestlings"
DOI: 10.6084/m9.figshare.14141219
title: Information on hypoxic conditions and samples in the dataset used for the meta-analysis

description: Information on hypoxic conditions and samples in the dataset used for the meta-analysis (including information on hypoxia-normoxia pairs)
DOI: 10.6084/m9.figshare.14061815
title: CTRPv2 PSet

description: https://github.com/bhklab/Gene_Expression_Bimodality
DOI: 10.6084/m9.figshare.14049587.v1
title: gCSI 2018 PSet

description: https://github.com/bhklab/Gene_Expression_Bimodality
DOI: 10.6084/m9.figshare.14049587
title: gCSI 2018 PSet

description: https://github.com/bhklab/Gene_Expression_Bimodality
DOI: 10.6084/m9.figshare.14047034
title: GDSC v2 PSet

description: https://github.com/bhklab/Gene_Expression_Bimodality
DOI: 10.6084/m9.figshare.14047034.v1
title: GDSC v2 PSet

description: https://github.com/bhklab/Gene_Expression_Bimodality
DOI: 10.6084/m9.figshare.14046737
title: CCLE PSet

description: https://github.com/bhklab/Gene_Expression_Bimodality
DOI: 10.6084/m9.figshare.14141252
title: Quantitative gene expression data of hypoxia experimental data sets

description: Quantitative gene expression data of hypoxia experimental data sets using ikra (coding gene)
DOI: 10.5281/zenodo.4573573
title: Studies on GEO related to neurogeneration or infections diseases

description: <strong>Description</strong>: A set of transcriptomics studies on the Gene Expression Omnibus (GEO) platform somehow related to infectious or neurodegenerative diseases. <strong>Columns</strong>: <strong>Study</strong>: The study number in the Gene Expression Omnibus. End {$1} of the URL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc={$1}. <strong>Disease</strong>: The disease of interest in the study <strong>Platform</strong>: The technology used to obtain the data. End {$1} of the URL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc={$1}. <strong>Sample type</strong>: The cell type or tissue type used for the analysis <strong>PMID</strong>: The PubMed ID of the article that describes that study. End {$1} of the URL: https://pubmed.ncbi.nlm.nih.gov/{$1}. <strong>Control sample</strong>: The label of the control samples in the dataset <strong>Perturbed sample</strong>: The label of the perturbed samples in the dataset <strong>Funding</strong>: This curation and release were supported by the grants #2018/10257-2 and #2019/26284-1 from the São Paulo Research Foundation (FAPESP).
DOI: 10.25919/2tvg-gy83
title: Parkes observations for project P1058 semester 2020OCTS_05

description: We propose to continue the timing campaign of the new millisecond pulsar, J1431-6328, discovered by the Australian SKA Pathfinder (ASKAP). PSR J1431-6328 has a spin period of 2.77 ms and is in a very wide binary system with an orbital period of 88 days. The relatively low mass of the companion and the long orbital period make this binary system extremely interesting for the understanding of binary evolution. The stable profile and wide orbit of J1431-6328 also makes it a good candidate for pulsar timing arrays and tests of the strong equivalence principle. By the end of this semester, we plan to summarise the timing campaign with a paper and publish the timing solution, wide band polarisation properties of this pulsar and studies of the binary system.
DOI: 10.15468/5m6pj4
title: The cicadas (Hemiptera: Cicadidae) of Ecuador including the description of five new species, a new subtribe, four new synonymies, and fifteen new records

description: This dataset contains the digitized treatments in Plazi based on the original journal article Sanborn, Allen F. (2020): The cicadas (Hemiptera: Cicadidae) of Ecuador including the description of five new species, a new subtribe, four new synonymies, and fifteen new records. Zootaxa 4880 (1): 1-80, DOI: https://doi.org/10.11646/zootaxa.4880.1.1
DOI: 10.6084/m9.figshare.14138444
title: Astro Mat Lab methane-ethane solidus data

description: Data points for methane-ethane solidus collected at the Astrophysical Materials Lab at Northern Arizona University.<br>Lower and upper diode values are the average of the temperatures for each spectrum taken in a cell scan and then an average of those values before and after crossing the solidus boundary<br>Temperature calibration for solidus data was obtained using experimental values from literature of the freezing point of methane, the point of nitrogen, and the alpha-beta transition of nitrogen. For the freezing points, we decreased the temperature of the lower diode by increments of 0.01 until ice was visibly apparent. Since the alpha-beta transition is not visible, we identified it by the Raman shift in the nitrogen peak. Overall, the correction is small and approximately linear.
DOI: 10.6084/m9.figshare.14138444.v1
title: Astro Mat Lab methane-ethane solidus data

description: Data points for methane-ethane solidus collected at the Astrophysical Materials Lab at Northern Arizona University.<br>Lower and upper diode values are the average of the temperatures for each spectrum taken in a cell scan and then an average of those values before and after crossing the solidus boundary<br>Temperature calibration for solidus data was obtained using experimental values from literature of the freezing point of methane, the point of nitrogen, and the alpha-beta transition of nitrogen. For the freezing points, we decreased the temperature of the lower diode by increments of 0.01 until ice was visibly apparent. Since the alpha-beta transition is not visible, we identified it by the Raman shift in the nitrogen peak. Overall, the correction is small and approximately linear.
DOI: 10.6084/m9.figshare.14138450.v1
title: Astro Mat Lab methane-ethane liquidus data

description: Data points for methane-ethane liquidus collected in the Astrophysical Materials Lab at Northern Arizona University.<br>Temperature is calibrated with experimental values from literature for the freezing points of methane, ethane, and nitrogen. Solved a system of equations to get coefficients.
DOI: 10.25919/vatb-jm48
title: Parkes observations for project P1038 semester 2020OCTS_14

description: PSR~J1759-2402 is one of a small handful of pulsars which are in orbit about high mass stars. Its orbital period is 8.3 years and the orbit is highly eccentric with periastron expected in 2021 March. Although discovered at Parkes, the Lovell telescope has been monitoring the pulsar over many years. However, it’s restricted bandwidth, maintenance schedule and poorer polarization capability make it unsuitable to follow the pulsar as it enters and leaves the eclipse by the companion. In contrast, the UWL on Parkes with its wide- band and excellent polarization characteristics means that we can determine scattering, polarization, dispersion measure and rotation measure changes as the pulsar enters its companion wind. We request a continuation of our weekly observations of the pulsar to track its progress around the orbit.
DOI: 10.25919/qv2f-hd25
title: Parkes observations for project P885 semester 2020OCTS_16

description: We propose to continue observing the magnetars 1E 1547.0?5408 and PSR J1622?4950 weekly, to track their rotation, flux density, and polarisation. The revolutionary UWL capabilities promise new opportunities to disentangle still mysterious radio emission mechanisms in magnetars. This promise is supported by the recent follow up of XTE J1810?197, again a radio magnetar after 10 years dormant, and of the hot-off-the-press magnetar Swift J1818.0?1607, for which our observations with the UWL receiver are providing unique and tantalizing measurements of radio spectrum and polarisation.
DOI: 10.6084/m9.figshare.14138450
title: Astro Mat Lab methane-ethane liquidus data

description: Data points for methane-ethane liquidus collected in the Astrophysical Materials Lab at Northern Arizona University.<br>Temperature is calibrated with experimental values from literature for the freezing points of methane, ethane, and nitrogen. Solved a system of equations to get coefficients.
DOI: 10.6084/m9.figshare.14141411
title: STOP-HCV-1 trial data

description: Contains data from the STOP-HCV-1 trial examining a mechanism for shortening DAA HCV treatment based on baseline viral load. Contains baseline demographics, outcomes and VL results
DOI: 10.25387/g3.14134724.v1
title: Supplemental material Lorrain, et al., 2021

description: Transposable elements (TEs) impact genome plasticity, architecture and evolution in fungal plant pathogens. The wide range of TE content observed in fungal genomes reflects diverse efficacy of host-genome defence mechanisms that can counter-balance TE expansion and spread. Closely related species can harbour drastically different TE repertoires. The evolution of fungal effectors, which are crucial determinants of pathogenicity, has been linked to the activity of TEs in pathogen genomes. Here we describe how TEs have shaped genome evolution of the fungal wheat pathogen <i>Zymoseptoria tritici</i> and four closely related species. We compared <i>de novo</i> TE annotations and Repeat-Induced Point mutation signatures in twenty-six genomes from the <i>Zymoseptoria</i> species-complex. Then, we assessed the relative insertion ages of TEs using a comparative genomics approach. Finally, we explored the impact of TE insertions on genome architecture and plasticity. The twenty-six genomes of <i>Zymoseptoria</i> species reflect different TE dynamics with a majority of recent insertions. TEs associate with accessory genome compartments, with chromosomal rearrangements, with gene presence/absence variation and with effectors in all <i>Zymoseptoria </i>species. We find that the extent of RIP-like signatures varies among <i>Z. tritici</i> genomes compared to genomes of the sister species. The detection of a reduction of RIP-like signatures and TE recent insertions in <i>Z. tritici</i> reflects ongoing but still moderate TE mobility.
DOI: 10.25387/g3.14134724
title: Supplemental material Lorrain, et al., 2021

description: Transposable elements (TEs) impact genome plasticity, architecture and evolution in fungal plant pathogens. The wide range of TE content observed in fungal genomes reflects diverse efficacy of host-genome defence mechanisms that can counter-balance TE expansion and spread. Closely related species can harbour drastically different TE repertoires. The evolution of fungal effectors, which are crucial determinants of pathogenicity, has been linked to the activity of TEs in pathogen genomes. Here we describe how TEs have shaped genome evolution of the fungal wheat pathogen <i>Zymoseptoria tritici</i> and four closely related species. We compared <i>de novo</i> TE annotations and Repeat-Induced Point mutation signatures in twenty-six genomes from the <i>Zymoseptoria</i> species-complex. Then, we assessed the relative insertion ages of TEs using a comparative genomics approach. Finally, we explored the impact of TE insertions on genome architecture and plasticity. The twenty-six genomes of <i>Zymoseptoria</i> species reflect different TE dynamics with a majority of recent insertions. TEs associate with accessory genome compartments, with chromosomal rearrangements, with gene presence/absence variation and with effectors in all <i>Zymoseptoria </i>species. We find that the extent of RIP-like signatures varies among <i>Z. tritici</i> genomes compared to genomes of the sister species. The detection of a reduction of RIP-like signatures and TE recent insertions in <i>Z. tritici</i> reflects ongoing but still moderate TE mobility.
DOI: 10.6084/m9.figshare.14138297
title: Figure 9: Prominent peaks of pure ethane

description: <b>Figure 10. </b>Prominent peaks of ethane and their differences between warming and cooling cycles.<br>Not normalized, see text for normalization equation.
DOI: 10.6084/m9.figshare.14138297.v2
title: Figure 9: Prominent peaks of pure ethane

description: <b>Figure 10. </b>Prominent peaks of ethane and their differences between warming and cooling cycles.<br>Not normalized, see text for normalization equation.
DOI: 10.6084/m9.figshare.14138297.v1
title: Figure 10: Prominent peaks of pure ethane

description: <b>Figure 10. </b>Prominent peaks of ethane and their differences between warming and cooling cycles.<br>Not normalized, see text for normalization equation.
DOI: 10.6084/m9.figshare.14138315
title: Figure 10: Pure ethane solid I-solid III linear mixing

description: <b><i>Figure 11.</i></b><i> Linear mixing of ethane solid I and solid III. Spectra at temperatures of 89.7 and 89.8 K in the warming sequence do not fit linear mixing profiles of solid I and III, meaning we cannot completely rule out the likelihood of having witnessed the transitions surrounding solid II.</i><i><br></i><i>Spectra have already been normalized.</i>
DOI: 10.6084/m9.figshare.14138315.v2
title: Figure 10: Pure ethane solid I-solid III linear mixing

description: <b><i>Figure 11.</i></b><i> Linear mixing of ethane solid I and solid III. Spectra at temperatures of 89.7 and 89.8 K in the warming sequence do not fit linear mixing profiles of solid I and III, meaning we cannot completely rule out the likelihood of having witnessed the transitions surrounding solid II.</i><i><br></i><i>Spectra have already been normalized.</i>
DOI: 10.6084/m9.figshare.14138315.v1
title: Figure 11: Pure ethane solid I-solid III linear mixing

description: <b><i>Figure 11.</i></b><i> Linear mixing of ethane solid I and solid III. Spectra at temperatures of 89.7 and 89.8 K in the warming sequence do not fit linear mixing profiles of solid I and III, meaning we cannot completely rule out the likelihood of having witnessed the transitions surrounding solid II.</i><i><br></i><i>Spectra have already been normalized.</i>
DOI: 10.5066/p9otqth8
title: Microsatellite genotypes and DNA yield of artificially produced larval pallid sturgeon, Scaphirhynchus albus

description: Data consist of genotypes for pallid sturgeon and paddlefish broodstock and artificially-produced larvae at 19 sturgeon microsatellite loci and four paddlefish loci. Microsatellite genotypes allowed confirmation of homozygous sturgeon DNA and absence of paddlefish DNA in haploid gynogens. Data also consist of DNA yield estimates for haploid gynogens for proof of concept that haploid gynogens can provide sufficient DNA quantity for restriction site-associated DNA sequencing studies.
DOI: 10.5281/zenodo.4573881
title: Rcwl/RcwlPipelines workshop dataset for scRNA-seq pre-processing

description: The scRNA-seq data source is the 1k PBMCs from 10x genomics (These source files are provided in the Zenodo data repository). The dataset used in this workshop are sub-sampled from the source files to contain only 15 cells instead of 1000. The data curation is for demo purpose only so that the execution of the Rcwl scRNA-seq preprocessing tools or pipeline in R can be completed within 1~2 minutes. The "*.fastq" data was curated to only include reads on chromosome 21. “subset15_demo_barcode.txt” contains known cell barcodes for mapping and only 15 barcodes are included. "Homo_sapiens.GRCh37.75.21.gtf" contains the hg19 GTF file to annotate reads, which was curated on chromosome 21 only.
DOI: 10.5281/zenodo.4573880
title: Rcwl/RcwlPipelines workshop dataset for scRNA-seq pre-processing

description: The scRNA-seq data source is the 1k PBMCs from 10x genomics (These source files are provided in the Zenodo data repository). The dataset used in this workshop are sub-sampled from the source files to contain only 15 cells instead of 1000. The data curation is for demo purpose only so that the execution of the Rcwl scRNA-seq preprocessing tools or pipeline in R can be completed within 1~2 minutes. The "*.fastq" data was curated to only include reads on chromosome 21. “subset15_demo_barcode.txt” contains known cell barcodes for mapping and only 15 barcodes are included. "Homo_sapiens.GRCh37.75.21.gtf" contains the hg19 GTF file to annotate reads, which was curated on chromosome 21 only.
DOI: 10.6084/m9.figshare.13990961
title: Winter Mortality Final Data.xlsx

description: This data set contains the day of mortality for blue crabs in winter survival experiments that have been subjected to a simulated winter at different controlled temperatures and salinities in laboratory enclosures. The data was obtained over various years using a range of crabs from different bays, hatcheries or the wild, of different sexes, and in a range of sizes. This is a combined data set, containing data from previously published experiments.
DOI: 10.6084/m9.figshare.14124998
title: BoHV and host transcriptome

description: BoHV-1 dynamic transcriptome<br><br><br>
DOI: 10.6084/m9.figshare.14124998.v1
title: BoHV and host transcriptome

description: BoHV-1 dynamic transcriptome<br><br><br>
DOI: 10.25505/fiz.icsd.cc278ctq
title: CSD 2063633: Experimental Crystal Structure Determination

description: Related Article: Xiaoming Wang|2021|ICSD Communication|||
DOI: 10.5281/zenodo.4309769
title: Alkaloids from Urceolina peruviana

description: NMR spectra and raw data collected for the study of the alkaloids of <em>Urceolina peruviana</em>. Supplementary Information to a related article published in the MDPI "Molecules" journal.
description: {"references": ["The Three Pillars of Natural Product Dereplication. Alkaloids from the Bulbs of Urceolina peruviana (C. Presl) J.F. Macbr. as a Preliminary Test Case"]}
DOI: 10.5281/zenodo.4309768
title: Alkaloids from Urceolina peruviana

description: NMR spectra and raw data collected for the study of the alkaloids of <em>Urceolina peruviana</em>. Supplementary Information to a related article published in the MDPI "Molecules" journal.
description: {"references": ["The Three Pillars of Natural Product Dereplication. Alkaloids from the Bulbs of Urceolina peruviana (C. Presl) J.F. Macbr. as a Preliminary Test Case"]}
DOI: 10.5281/zenodo.4573315
title: Optimization of Slipids Force Field Parameters Describing Headgroups of Phospholipids

description: Trajectory, topology and parameter files for simulation of POPC bilayer using force field parameters derived in <em>J. Phys. Chem. B</em> 2020, 124, 40, 8784–8793.
DOI: 10.6084/m9.figshare.13611188
title: Ticked data files

description: Data for the analysis of Ticked using 195 cats of the 99 Lives Cat Genome database<br>