cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5234041
title: S1 Data. Pre-processed corpora, their associated topics with binary labels, and base data sets.

description: Contains two Excel files each has multiple sheets:1) File has pre-processed Upi news data set, its associated LDA topics, binary topic labels, 11 topic topic coherence markers2) File has pre-processed Reuters news data set, its associated LDA topics, binary topic labels, 11 topic topic coherence markers
DOI: 10.6084/m9.figshare.5234110
title: Dataset for: Distinct roles of the 7-transmembrane receptor protein Rta3 in regulating the asymmetric distribution of phosphatidylcholine across the plasma membrane and biofilm formation in <i>Candida albicans</i>

description: Fungal pathogens like <i>Candida albicans</i> exhibit several survival mechanisms to evade attack by antifungals and colonize host tissues. Rta3, a member of the Rta1-like family of lipid-translocating exporters has a 7-transmembrane domain (7TMD) topology, similar to the G-protein-coupled receptors (GPCR) and is unique to the fungal kingdom. Our findings point towards a role for plasma membrane localized Rta3 in providing tolerance to miltefosine, an analogue of alkylphosphocholine, by maintaining mitochondrial energetics. Concurrent with miltefosine susceptibility, the <i>rta3Δ/Δ</i> strain displays increased inward translocation (flip) of fluorophore-labelled phosphatidylcholine (PC) across the plasma membrane attributed to enhanced PC-specific flippase activity. We also assign a novel role to Rta3 in the Bcr1- regulated pathway during in vivo biofilm development. Transcriptome analysis reveals that Rta3 regulates expression of Bcr1 target genes involved in cell surface properties, adhesion, and hyphal growth. We show that the <i>rta3Δ/Δ</i> mutant is biofilm-defective in a rat venous catheter model of infection and that <i>BCR1</i> overexpression rescues this defect, indicating that Bcr1 functions downstream of Rta3 to mediate biofilm formation in <i>C. albicans</i>. The identification of this novel Rta3-dependent regulatory network that governs biofilm formation and PC asymmetry across the plasma membrane will provide important insights into <i>C. albicans</i> pathogenesis by providing insight into how <i>C. albicans</i> adapts to the host environment.
DOI: 10.6084/m9.figshare.5234116
title: Rate of inositol synthesis

description: Fig. 2Cells were cultured in SC medium supplemented with 75 M inositol to the mid log phase and transferred to SC inositol free medium for 3 h. [<sup>13</sup>C<sub>6</sub>]glucose was added at a final concentration of 0.2% and cells were incubated for 15 min. Levels of <sup>13</sup>C labeled inositol-3-phosphate (A) and inositol (B) in cell extracts were determined by LC-MS.<br>
DOI: 10.6084/m9.figshare.5234041.v1
title: Supplementary Files for Topic coherence Markers

description: Contains two Excel files each has multiple sheets:1) File has pre-processed Upi news data set, its associated LDA topics, binary topic labels, 11 topic topic coherence markers2) File has pre-processed Reuters news data set, its associated LDA topics, binary topic labels, 11 topic topic coherence markers
DOI: 10.6084/m9.figshare.5234116.v1
title: Rate of inositol synthesis

description: Fig. 2Cells were cultured in SC medium supplemented with 75 M inositol to the mid log phase and transferred to SC inositol free medium for 3 h. [<sup>13</sup>C<sub>6</sub>]glucose was added at a final concentration of 0.2% and cells were incubated for 15 min. Levels of <sup>13</sup>C labeled inositol-3-phosphate (A) and inositol (B) in cell extracts were determined by LC-MS.<br>
DOI: 10.6084/m9.figshare.5234110.v1
title: Dataset for: Distinct roles of the 7-transmembrane receptor protein Rta3 in regulating the asymmetric distribution of phosphatidylcholine across the plasma membrane and biofilm formation in <i>Candida albicans</i>

description: Fungal pathogens like <i>Candida albicans</i> exhibit several survival mechanisms to evade attack by antifungals and colonize host tissues. Rta3, a member of the Rta1-like family of lipid-translocating exporters has a 7-transmembrane domain (7TMD) topology, similar to the G-protein-coupled receptors (GPCR) and is unique to the fungal kingdom. Our findings point towards a role for plasma membrane localized Rta3 in providing tolerance to miltefosine, an analogue of alkylphosphocholine, by maintaining mitochondrial energetics. Concurrent with miltefosine susceptibility, the <i>rta3Δ/Δ</i> strain displays increased inward translocation (flip) of fluorophore-labelled phosphatidylcholine (PC) across the plasma membrane attributed to enhanced PC-specific flippase activity. We also assign a novel role to Rta3 in the Bcr1- regulated pathway during in vivo biofilm development. Transcriptome analysis reveals that Rta3 regulates expression of Bcr1 target genes involved in cell surface properties, adhesion, and hyphal growth. We show that the <i>rta3Δ/Δ</i> mutant is biofilm-defective in a rat venous catheter model of infection and that <i>BCR1</i> overexpression rescues this defect, indicating that Bcr1 functions downstream of Rta3 to mediate biofilm formation in <i>C. albicans</i>. The identification of this novel Rta3-dependent regulatory network that governs biofilm formation and PC asymmetry across the plasma membrane will provide important insights into <i>C. albicans</i> pathogenesis by providing insight into how <i>C. albicans</i> adapts to the host environment.
DOI: 10.6084/m9.figshare.5233963
title: inositol levels upload.xls

description: Fig. 1ACells were grown in SC medium to the early stationary phase. Intracellular inositol levels were determined.
DOI: 10.6084/m9.figshare.5233963.v1
title: inositol levels upload.xls

description: Fig. 1ACells were grown in SC medium to the early stationary phase. Intracellular inositol levels were determined.
DOI: 10.6084/m9.figshare.5234068.v1
title: American Rivers Dam Removal Database

description: American Rivers’ Dam Removal Database includes all dam removals in the United States (of which we have been made aware) in which a significant portion of the dam has been removed for the full height of the dam, such that ecological function, natural river flow and fish passage can be restored at the site. This database is revised and updated annually with information provided by contributors across the country. The database may be used by anyone provided that citation is given to American Rivers and the DOI link is included.
DOI: 10.6084/m9.figshare.5233543
title: Clinical and Translational Science and the UF Clinical and Translational Science Institute (CTSI)

description: Invited presentation to the faculty of the Department of Anesthesiology, University of Florida, May 17, 2011.
DOI: 10.6084/m9.figshare.5233543.v1
title: Clinical and Translational Science and the UF Clinical and Translational Science Institute (CTSI)

description: Invited presentation to the faculty of the Department of Anesthesiology, University of Florida, May 17, 2011.
DOI: 10.6084/m9.figshare.5231602
title: data

description: dataset
DOI: 10.6084/m9.figshare.5234068.v3
title: American Rivers Dam Removal Database

description: American Rivers’ Dam Removal Database includes all dam removals in the United States (of which we have been made aware) in which a significant portion of the dam has been removed for the full height of the dam, such that ecological function, natural river flow and fish passage can be restored at the site. This database is revised and updated annually with information provided by contributors across the country. The database may be used by anyone provided that citation is given to American Rivers and the DOI link is included.
DOI: 10.6084/m9.figshare.5231545
title: Data: Rainfall variability and fine-scale life history tradeoffs help drive niche partitioning in a desert annual plant community

description: Physiological and soil moisture data related to Shriver (2017) in Ecology Letters
DOI: 10.6084/m9.figshare.5231545.v1
title: Data: Rainfall variability and fine-scale life history tradeoffs help drive niche partitioning in a desert annual plant community

description: Physiological and soil moisture data related to Shriver (2017) in Ecology Letters
DOI: 10.6084/m9.figshare.5231245
title: A user-friendly extract of the LibGen scimag metadata SQL dump on 2017-04-07

description: This dataset contains the metadata for the LibGen scimag database of full-text scholarly documents. Each row of this dataset corresponds to a scholarly document in the LibGen scimag database, as identified by its DOI.<br>scimag_dbbackup-2017-04-07.rar was downloaded from http://libgen.io/dbdumps/backup_archive/scimag_dbbackup-2017-04-07.rar. It's a compressed SQL dump of the LibGen scimag metadata database on 2017-04-07. This is the unmodified file downloaded from libgen.io. It encodes a single table named scimag.<br><br>libgen-scimag-2017-04-07.tsv.xz contains a TSV version of the scimag table from scimag_dbbackup-2017-04-07.rar. It's more user-friendly because it provides access to the data without requiring MySQL, is UTF-8 encoded, and has null bytes removed.<br>The code that downloaded and processed these datasets is at https://git.io/v7Uh4. Users should note that the TimeAdded column appears to store the modification rather than the creation date for each DOI. As discussed in https://doi.org/b9s5, this field should not be mistaken for the date of first upload to LibGen scimag.
DOI: 10.6084/m9.figshare.5231485
title: Genome assemblies of Magnaporthe oryzae

description: DNA samples extracted from samples of <em>Magnaporthe oryzae</em> were sequenced on the Illumina HiSeq 2500 using standard reagents and protocols producing 100 base paired-end reads. Filtered reads were assembled ‘de novo’ using Velvet 1.2.10.
DOI: 10.6084/m9.figshare.5231221
title: 2OMeSeq Sample Datasets

description: Downsampled datasets with 10M reads each from a 2OMeSeq dataset.
DOI: 10.6084/m9.figshare.5231203
title: Transparent skull method for intrinsic signal optical imaging.

description: Raw data on comparison between cranial window (CW) installation and transparent skull (TS) preparation for intrinsic optical imaging in mice.<br>
DOI: 10.6084/m9.figshare.5231221.v1
title: 2OMeSeq Sample Datasets

description: Downsampled datasets with 10M reads each from a 2OMeSeq dataset.
DOI: 10.6084/m9.figshare.5231053
title: MAMEM Phase I Dataset - A dataset for multimodal human-computer interaction using biosignals and eye tracking information

description: This dataset combines multimodal biosignals and eye tracking information gathered under a human-computer interaction framework. The dataset was developed in the vein of the MAMEM project that aims to endow people with motor disabilities with the ability to edit and author multimedia content through mental commands and gaze activity. The dataset includes EEG, eye-tracking, and physiological (GSR and Heart rate) signals along with demographic, clinical and behavioral data collected from 36 individuals (18 able-bodied and 18 motor-impaired). Data were collected during the interaction with specifically designed interface for web browsing and multimedia content manipulation and during imaginary movement tasks. Alongside these data we also include evaluation reports both from the subjects and the experimenters as far as the experimental procedure and collected dataset are concerned. We believe that the presented dataset will contribute towards the development and evaluation of modern human-computer interaction systems that would foster the integration of people with severe motor impairments back into society.<br>Please use the following citation: Nikolopoulos, Spiros, Georgiadis, Kostas, Kalaganis, Fotis, Liaros, Georgios, Lazarou, Ioulietta, Adam, Katerina, Papazoglou – Chalikias, Anastasios, Chatzilari, Elisavet , Oikonomou, Vangelis P., Petrantonakis, Panagiotis C., Kompatsiaris, Ioannis, Kumar, Chandan, Menges, Raphael, Staab, Steffen, Müller, Daniel, Sengupta, Korok, Bostantjopoulou, Sevasti, Zoe, Katsarou , Zeilig, Gabi, Plotnik, Meir, Gottlieb, Amihai, Fountoukidou, Sofia, Ham, Jaap, Athanasiou, Dimitrios, Mariakaki, Agnes, Comanducci, Dario, Sabatini, Edoardo, Nistico, Walter & Plank, Markus. (2017). The MAMEM Project - A dataset for multimodal human-computer interaction using biosignals and eye tracking information. Zenodo. http://doi.org/10.5281/zenodo.834154<br>Read/analyze using the following software:https://github.com/MAMEM/eeg-processing-toolbox<br><br>
DOI: 10.6084/m9.figshare.5231203.v1
title: Transparent skull method for intrinsic signal optical imaging.

description: Raw data on comparison between cranial window (CW) installation and transparent skull (TS) preparation for intrinsic optical imaging in mice.<br>
DOI: 10.6084/m9.figshare.5230738
title: Supplementary Table 8

description: Results from ESTIMATE algorithm analysis. Samples are in column and scores are in raw.<br>
DOI: 10.6084/m9.figshare.5230732
title: Supplementary Table 7

description: Summary of CIBERSORT algorithm analysis with all datasets and PCD samples. Cell types are in column and samples in row. Values are ratios over 1.<br>
DOI: 10.6084/m9.figshare.5230738.v2
title: Supplementary Table 8

description: Results from ESTIMATE algorithm analysis. Samples are in column and scores are in raw.<br>
DOI: 10.6084/m9.figshare.5230729
title: Supplementary Table 3

description: List of the genes composing the merged matrix of all transcriptomic data from datasets and PCD samples (n=9939).<br>
DOI: 10.6084/m9.figshare.5230738.v1
title: Supplementary table 6

description: Results from ESTIMATE algorithm analysis. Samples are in column and scores are in raw.<br>
DOI: 10.6084/m9.figshare.5230732.v2
title: Supplementary Table 7

description: Summary of CIBERSORT algorithm analysis with all datasets and PCD samples. Cell types are in column and samples in row. Values are ratios over 1.<br>
DOI: 10.6084/m9.figshare.5231053.v1
title: MAMEM Phase I Dataset - A dataset for multimodal human-computer interaction using biosignals and eye tracking information

description: This dataset combines multimodal biosignals and eye tracking information gathered under a human-computer interaction framework. The dataset was developed in the vein of the MAMEM project that aims to endow people with motor disabilities with the ability to edit and author multimedia content through mental commands and gaze activity. The dataset includes EEG, eye-tracking, and physiological (GSR and Heart rate) signals along with demographic, clinical and behavioral data collected from 36 individuals (18 able-bodied and 18 motor-impaired). Data were collected during the interaction with specifically designed interface for web browsing and multimedia content manipulation and during imaginary movement tasks. Alongside these data we also include evaluation reports both from the subjects and the experimenters as far as the experimental procedure and collected dataset are concerned. We believe that the presented dataset will contribute towards the development and evaluation of modern human-computer interaction systems that would foster the integration of people with severe motor impairments back into society.
DOI: 10.6084/m9.figshare.5230729.v2
title: Supplementary Table 3

description: List of the genes composing the merged matrix of all transcriptomic data from datasets and PCD samples (n=9939).<br>
DOI: 10.6084/m9.figshare.5230732.v1
title: Supplementary table 5

description: Summary of CIBERSORT algorithm analysis with all datasets and PCD samples. Cell types are in column and samples in row. Values are ratios over 1.<br>
DOI: 10.6084/m9.figshare.5230729.v1
title: Supplementary table 2

description: List of the genes composing the merged matrix of all transcriptomic data from datasets and PCD samples (n=9939).<br>
DOI: 10.6084/m9.figshare.5230645
title: Impact of iron deficiency on exercise capacity and outcome in heart failure with reduced, mid-range and preserved ejection fraction

description: <b>Background:</b> Little information is available about the prevalence and impact on exercise capacity and outcome of iron deficiency in heart failure with mid-range (HFmrEF) and preserved (HFpEF) ejection fraction in comparison to heart failure with reduced ejection-fraction (HFrEF). Furthermore, no data is available about the progression of ID in patients without baseline anaemia. <b>Methods:</b> We evaluated baseline iron and haemoglobin-status in a single-centre, prospective heart failure database. Baseline functional status, VO<sub>2max</sub>, echocardiography and clinical-outcome (all-cause mortality and heart failure admissions) were evaluated. ID, anaemia, HFrEF, HFmrEF and HFpEF were defined according to established criteria. <b>Results:</b> A total of 1197 patients (71% male) were evaluated (HFrEF, <i>n</i> = 897; HFmrEF, <i>n</i> = 229; HFpEF, <i>n</i> = 72). The overall prevalence of ID was 53% (50% in HFrEF; 61% in HFmrEF; 64% in HFpEF) and 36% for anaemia. ID was associated with a lower VO<sub>2max</sub> in patients with HFrEF, HFmrEF and HFpEF (<i>p</i> 2max than anaemia status (<i>p</i> p = .046) than patients without progression. <b>Conclusions:</b> Iron deficiency is common in patients with HFrEF, HFmrEF and HFpEF, and negatively affects VO<sub>2max</sub> and clinical-outcome. Progression of iron deficiency parallels an increased risk for worsening of heart failure.
DOI: 10.6084/m9.figshare.5230639
title: Reliable Granular References to Changing Linked Data

description: This file set contains the Git repository and resulting datasets for the computational analyses used in the associated publication: Reliable Granular References to<br>Changing Linked Data.<br><br>The data is supplied in compressed .zip and .gz formats that can be uncompressed by standard compression utilities. The compressed files contain incremental datasets of nanopublications from both DisGeNET and WikiPathways, including TriG RDF graphs for each, along with the Git repository containing scripts, diagrams, background literature, output data and results files.<br>Background from associated publication:Nanopublications are tiny packages of Linked Data that come with provenance and metadata attached, they are also a concept to represent Linked Data in a granular and provenance-aware manner, which has been successfully applied to a number of scientific datasets. We demonstrated in previous work how we can establish reliable and verifiable identifiers for nanopublications and sets thereof. Further adoption of these techniques, however, was probably hindered by the fact that nanopublications can lead to an explosion in the number of triples due to auxiliary information about the structure of each nanopublication and repetitive provenance and metadata. We demonstrate here that this significant overhead disappears once we take the version history of nanopublication datasets into account, calculate incremental updates, and allow users to deal with the specific subsets they need. We show that the total size and overhead of evolving scientific datasets is reduced, and typical subsets that researchers use for their analyses can be referenced and retrieved efficiently with optimized precision, persistence, and reliability.<br>
DOI: 10.6084/m9.figshare.5230645.v2
title: Impact of iron deficiency on exercise capacity and outcome in heart failure with reduced, mid-range and preserved ejection fraction

description: <b>Background:</b> Little information is available about the prevalence and impact on exercise capacity and outcome of iron deficiency in heart failure with mid-range (HFmrEF) and preserved (HFpEF) ejection fraction in comparison to heart failure with reduced ejection-fraction (HFrEF). Furthermore, no data is available about the progression of ID in patients without baseline anaemia. <b>Methods:</b> We evaluated baseline iron and haemoglobin-status in a single-centre, prospective heart failure database. Baseline functional status, VO<sub>2max</sub>, echocardiography and clinical-outcome (all-cause mortality and heart failure admissions) were evaluated. ID, anaemia, HFrEF, HFmrEF and HFpEF were defined according to established criteria. <b>Results:</b> A total of 1197 patients (71% male) were evaluated (HFrEF, <i>n</i> = 897; HFmrEF, <i>n</i> = 229; HFpEF, <i>n</i> = 72). The overall prevalence of ID was 53% (50% in HFrEF; 61% in HFmrEF; 64% in HFpEF) and 36% for anaemia. ID was associated with a lower VO<sub>2max</sub> in patients with HFrEF, HFmrEF and HFpEF (<i>p</i> 2max than anaemia status (<i>p</i> p = .046) than patients without progression. <b>Conclusions:</b> Iron deficiency is common in patients with HFrEF, HFmrEF and HFpEF, and negatively affects VO<sub>2max</sub> and clinical-outcome. Progression of iron deficiency parallels an increased risk for worsening of heart failure.
DOI: 10.6084/m9.figshare.5230594
title: Rutter & Hackston supplementary data file.csv from On the effective stress law for rock-on-rock frictional sliding, and fault slip triggered by means of fluid injection

description: Time series data for each experiment performed
DOI: 10.6084/m9.figshare.5230594.v1
title: Rutter & Hackston supplementary data file.csv from On the effective stress law for rock-on-rock frictional sliding, and fault slip triggered by means of fluid injection

description: Time series data for each experiment performed
DOI: 10.6084/m9.figshare.5230570
title: Supplementary Table 1 from N<sub>2</sub>-fixing tropical legume evolution: a contributor to enhanced weathering through the Cenozoic?

description: Foliar data
DOI: 10.6084/m9.figshare.5230570.v1
title: Supplementary Table 1 from N<sub>2</sub>-fixing tropical legume evolution: a contributor to enhanced weathering through the Cenozoic?

description: Foliar data
DOI: 10.6084/m9.figshare.5230489
title: OpenPayments_General Payment Data Through 2016.zip

description: This .zip files contains:<br>1. A PostgreSQL 9.6 dump of a database containing all information on "General Payments" to physicians from all available program year data (partial year 2013 - 2016) provided through Open Payments (https://www.cms.gov/openpayments/)<br>2. Query used to generate summary statistics for analysis of data.<br>3. README file with additional information.<br>Open Payments data provided under a ODbL license via the Centers for Medicare and Medicaid Services and this dataset is shared under the same license. (https://www.healthdata.gov/dataset/open-payments-data-0)<br>Original full datasets can be downloaded from:https://www.cms.gov/OpenPayments/Explore-the-Data/Dataset-Downloads.html<br>
DOI: 10.6084/m9.figshare.5230447
title: PCD analysis R markdown

description: PCD analysis<br>
DOI: 10.6084/m9.figshare.5230447.v1
title: PCD analysis R markdown

description: PCD analysis<br>
DOI: 10.6084/m9.figshare.5230432
title: Rapid Woodfuel Assessment around the refugee, returnee and autochthonous communities of Goré, Chad

description: The dataset contains tree-level forest inventory data from 12 sample plots in Chad. The data have been collected on a 12 m radius circular plot. All stumps and trees with dbh &gt;= 10 cm have been measured. Information regarding plots location and land uses are contained in a second spreadsheet (“plot_data”).