cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25387/g3.14978991.v1
title: Supplemental Material for Clark et al., 2021

description: File S1 is a figure from FastQ Screen analysis. File S2 is a tarball containing the reference-guided assemblies for BA_411 and WI_6. Assembly files with "clean" appended to the name have been filtered for scaffolds without reference coverage. File S3 is a tarball containing Blobtools output. File S4 is a tarball containing BUSCO outputs. <br><b>Supplementary Figure 1: FastQC Screen Analysis Indicates the Expected Composition of Reads Based on Screened Genomes. </b>Read subsets from each <i>D. pulicaria </i>library were mapped against several common and selected sequencing contaminants using bowtie2. Plots indicate that majority of the reads are mapping uniquely to the bait genome PA42 (“<i>Daphnia</i>”), as expected. For other genomes in the search library, the reads did not map uniquely and likely represent low-complexity regions. There is a significant proportion of the read subset that does not map to any represented sequences represented with grey bars. <b></b> <b>Supplementary Figure 2: Sourmash Distance Estimates Indicate Higher Similarity Between <i>D. pulicaria</i> Strains (BA411 & WI6), Relative to the <i>D. pulex</i> (PA42) Reference. </b>Dendrograms on the top and left recapitulate the relationship between samples in the distance analysis that is also visualized by the matrix. The color gradient indicates the sourmash distance estimate, where darker colors indicate high similarity between samples and lighter colors indicate more divergent samples. The <i>D. pulicaria</i> assemblies only vary by 0.1 when compared to each other.<b></b><br>
DOI: 10.6084/m9.figshare.12252902.v1
title: Variant calls for Candida duobushaemulonii

description: GATK variant set for <i>C.</i> <i>duobushaemulonii </i>isolates from Gade et al<i> "</i>Understanding the emergence of multidrug-resistant<i> Candida</i>: Using whole-genome sequencing to describe the population structure of <i>Candida haemulonii</i> species complex", 2020.<br><b></b>
DOI: 10.6084/m9.figshare.28520294.v1
title: Trajectory Data of Si, Ag, Ta

description: Trajectory Data of Si, Ag, Ta
DOI: 10.6084/m9.figshare.14221772.v1
title: Supplementary Material for: New Therapeutic Approach to Reduce Methotrexate Toxicity after High-Dose Chemotherapy in a Child with Acute Lymphocytic Leukemia: Efficacy and Safety of Hemoadsorption with HA-230 Adsorber

description: <b><i>Background:</i></b> High-dose methotrexate (HDMTX) is likely to cause a number of side effects and manifest itself as hepatotoxicity, nephrotoxicity, mucositis, and neurotoxicity. A several studies demonstrated the efficacy of extracorporeal detoxification methods such as plasma exchange, hemodialysis (HD), HD filtration, and hemoperfusion for the treatment of MTX delayed clearance. However, none of the existing methods as effective as expected and limited for general implementation due to a procedure-related complication. <b><i>Case Report:</i></b> Here, we report a successful implementation of HA-230 hemoadsorption procedure to remove cumulated MTX from the body and reduce its toxicity in a child with ALL after high-dose chemotherapy. <b><i>Results and Conclusion:</i></b> Based on our results, single-hemoadsorption procedure with the HA-230 adsorber in case of delayed methotrexate clearance was safe and well-tolerated in a pediatric patient with ALL and would significantly improve the patient’s condition. Further studies need to demonstrate its safety and efficacy in a large number of pediatric patients.
DOI: 10.6084/m9.figshare.25769043.v1
title: RAW/DERIVED FILES

description: Includes files from raw/derived GC-MS data acquired in this study.
DOI: 10.6084/m9.figshare.13302728.v1
title: VN_ICU_masked.tar.gz

description: Masked assemblies for all species (E. coli, K. pneumoniae and A. baumannii) associated with a 6-month study in two ICU in Hanoi, Vietnam. Assemblies have heterogenous sites masked.
DOI: 10.6084/m9.figshare.12074094.v1
title: Number Sequences

description: This dataset contains the main variables from the results section.
DOI: 10.6084/m9.figshare.22584802.v1
title: raw data of Figure 2ABC

description: <strong>Analysis of microbial community composition and diversity shows that nisin alters microbial diversity and community structure in brain following oral polymicrobial infection</strong>
DOI: 10.6084/m9.figshare.12743921.v1
title: Stochastic process dominates microbial community assembly in alpine grasslands on the Tibetan Plateau

description: The data involved in microbial community assembly in alpine grasslands on the Tibetan Plateau<br>
DOI: 10.6084/m9.figshare.24998411.v3
title: Single-nucleus chromatin landscape dataset of mouse brain development and ageing

description: In this study, a single-cell assay for transposase-accessible chromatin with sequencing was employed to generate comprehensive chromatin accessibility maps, incorporating data from 69,178 cells obtained from four distinct brain regions – namely, the olfactory bulb (OB), cerebellum (CB), prefrontal cortex (PFC), and hippocampus (HP) – across key developmental time points at 7 weeks, 3 months, 12 months, and 18 months.
DOI: 10.6084/m9.figshare.4763302.v1
title: DataNetwork.xlsx

description: Network and environmental data for BIOCOM global dataset<br>
DOI: 10.6084/m9.figshare.2314630.v1
title: CS-ET Experimental Datasets

description: This archive contains a pair of aligned, preprocessed STEM tilt series as used in the paper [insert link when available] for testing the CS-ET reconstruction algorithm. One dataset was acquired in the bright-field mode, and the other in the dark-field mode. Both consist of portions of subcellular structure derived from animal tissue.
DOI: 10.6084/m9.figshare.26089486.v1
title: MLFF Trajectories

description: AIMD and MLFF trajectories for GraNNField simulation package.
DOI: 10.6084/m9.figshare.4751149.v2
title: Tamil Data for Royal Society

description: These data include pregnancy diet cravings, anthropometrics, and predictors of
DOI: 10.6084/m9.figshare.21130301.v2
title: dataset for Y. Zushi and K. A. Takeuchi, Scaling and Spontaneous Symmetry Restoring in Reconnecting Nematic Disclinations

description: dataset for Y. Zushi and K. A. Takeuchi, Scaling and Spontaneous Symmetry Restoring in Reconnecting Nematic Disclinations.
DOI: 10.6084/m9.figshare.1019859_d5
title: Achilles_QC_v2.4.3.rnai.Gs.gct

description: Achilles_QC_v2.4.3.rnai.Gs.gct is the ATARiS-processed, gene level file for 216 cancer cell lines undergoing shRNA pooled screening.
DOI: 10.25446/oxford.28684565.v1
title: Riddles

description: Transcription, translation and analysis of Riddles, in Helfrich (1916), `Nadere Bijdrage Tot De Kennis Van Het Engganeesche [Further Contribution To The Knowledge Of Engganese]`, Bijdragen tot de taal-, land- en volkenkunde / Journal of the Humanities and Social Sciences of Southeast Asia
DOI: 10.6084/m9.figshare.19984196.v1
title: Re-annotation of the <em>Liriodendron chinense</em> genome identifies novel genes and improves genome annotation quality

description: File S1. Re-annotation gff3 file of <em>Liriodendron chinense</em> genome. File S3. FASTA format protein sequence file of <em>Liriodendron chinense</em> genome.
DOI: 10.6084/m9.figshare.5126431.v1
title: Supplementary Material for: Gene Expression Profiling of Cecropin B-Resistant Haemophilus parasuis

description: Synthetically designed antimicrobial peptides (AMPs) present the potential of replacing antibiotics in the treatment of bacterial infections. However, microbial resistance to AMPs has been reported and little is known regarding the underlying mechanism of such resistance. The naturally occurring AMP cecropin B (CB) disrupts the anionic cell membranes of Gram-negative bacteria. In this study, CB resistance (CBR) was induced in <i>Haemophilus</i><i>parasuis</i> SH0165 by exposing it to a series of CB concentrations. The CB-resistant <i>H.</i><i>parasuis</i> strains CBR30 and CBR30-50 were obtained. The growth curves of SH0165 and CBR30 showed that CBR30 displayed lower growth rates than SH0165. The result of transmission electron microscopy showed cell membranes of the CB-resistant CBR30 and CBR30-50 were smoother than SH0165. Microarrays detected 257 upregulated and 254 downregulated genes covering 20 clusters of orthologous groups (COGs) of the CB-resistant CBR30 compared with SH0165 (&gt;1.5-fold change, p &lt; 0.05). Sixty genes were affected in CBR30-50 covering 18 COGs, with 28 upregulated and 32 downregulated genes. Under the COG function classification, the majority of affected genes in the CB-resistant CBR30 and CBR30-50 belong to the category of inorganic ion transport, amino acid transport, and metabolism. The microarray results were validated by real-time quantitative reverse transcription PCR. This study may provide useful guidance for understanding the molecular mechanism underlying <i>H.</i><i>parasuis</i> resistance to CB.
DOI: 10.17632/kzmvcht297
title: Data for: Occasional tillage in no-tillage systems: a global meta-analysis
DOI: 10.6084/m9.figshare.11822691.v1
title: 3D OCT spheroids acquisitions well plate no.3

description: 40 three-dimensional OCT acquisitions of HT-29 colorectal cancer spheroids growth in a 96-well plate, imaged 7 days after formation.
DOI: 10.17632/37wyv32y8j
title: Data for: Intermuscular Coherence between Surface EMG Signals recorded with Monopolar and Bipolar EMG Systems during Squatting

description: This dataset contains raw EMG / goniometer data as well as a processed data sheet from a study with the research question how different EMG recording techniques affect the intermuscular coherence between surface EMG signals. 
It was hypothesized that bipolar EMG signals would show a lower EMG-EMG coherence compared to monopolar signals due to inevitable errors in electrode alignment when aligning the sensors with the muscle fiber direction.

16 participants (12 male, 4 female, young, active adults) are included in this analysis. The muscles investigated were vastus lateralis and medialis and the investigated movement tasks were series of bipedal squats for 90 seconds (first trial stable on the ground, second trial stable on the ground, third trial unstable on a BOSU ball.

The main findings are that the intermuscular coherence between vastus lateralis and medialis was indeed reduced in the bipolar compared to monopolar recordings. Furthermore, coherence below 40 Hz was increased during unstable squatting and the monopolar current and bipolar potential systems were most sensitive to this change while the monopolar potential recordings showed low sensitivity.

Content of files:
1) "2018-04-EMG-EMG intermuscular coherence and EMG intensities" contains an Excel file with all averages across squats and subjects for each of the recording systems.
2) "Raw Data" contains a Matlab .mat file with the raw EMG data from each system and goniometre data representing the corresponding knee flexion angle during squatting.
The .mat file contains a cell array with 16 cells, one for each subject.
The subject-specific cells contain a 3x3 cell array, rows for recording systems (bipolar potential, monopolar potential, monopolar current), columns for trials (stable squatting 1, stable squatting 2, unstable squatting).
Each cell contains three data columns (VL EMG, VM EMG, goniometer data in Voltage).
DOI: 10.17632/wzv9k6xh2z
title: Polishing of magnesium alloy for EBSD

description: Images for the paper on preparing magnesium AZ31 for EBSD analysis
DOI: 10.23641/asha.25444546.v1
title: Electro-aural ear canal stimulation for tinnitus (Tyler et al., 2024)

description: <b>Objective:</b> The aim of this study was to explore the potential for bimodal auditory and noninvasive electrical stimulation at the ears to alleviate tonal, somatic tinnitus that was investigated in a small preliminary trial (11 participants).<b>Design:</b> Auditory stimulation took the form of short “notched noise” bursts customized to each participant’s tinnitus percept. Simultaneous pulsed electrical stimulation, intended to facilitate neuroplasticity, was delivered via hydrogel electrodes placed in opposite ears.<b>Results:</b> After a 6-week intervention period, average Tinnitus Functional Index (TFI) and Tinnitus Primary Function Questionnaire (TPFQ) scores were consistent with clinically meaningful improvements in the study population. Magnitudes and effect sizes of improvements in TFI and TPFQ are comparable to those reported in other recent bimodal therapy studies using different auditory and electrical stimulation parameters.<b>Conclusions:</b> Our results should be considered preliminary given the small sample size, lack of crossover data, and small subject pool. When considered alongside other recent bimodal therapy results, we do believe that there are therapeutic benefits of bimodal stimulation for tinnitus sufferers that have the potential to help some with tinnitus, with a variety of stimulation parameters and electrode placements.<b>Supplemental Material S1.</b> Audio stimulus and notch characteristics.Tyler, R. S., Varghese, L., Furman, A. C., Snell, K., Ji, H., Rabinowitz, W. M. (2024). An exploratory study of bimodal electro-aural stimulation through the ear canals for tinnitus. <i>American Journal of Audiology</i>, <i>33</i>(2), 455–464. https://doi.org/10.1044/2024_AJA-23-00144
DOI: 10.6084/m9.figshare.14810985.v1
title: Cytoplasmic TDP-43 impairs the activity of the ubiquitin-proteasome system

description: All the mass spectrometry detection and hierarchical clustering analysis for the interacted proteins in immunoprecipitates of EGFP-TDP-43-25 （TG1_CT25_human-pepSummary） or -TDP-43-35 （TG2_CT35_human-pepSummary）, as compared with EGFP （control_C3_human-pepSummary） immunoprecipitates. <br>
DOI: 10.17632/78rvmj2wh8
title: Perivascular cerebrospinal fluid inflow matches interstitial fluid efflux in anesthetized rat brains

description: This dataset contains all MRI from the paper: "Perivascular cerebrospinal fluid inflow matches interstitial fluid efflux in anesthetized rat brains". It consists of dynamic contrast-enhanced MRI after infusion of tracers in the cerebrospinal fluid (CSF) in the cisterna magna. The paper details the quantification of CSF inflow into brain tissue based on these data and validation data. 

data/Gd-DTPA contains data from the main experiment: T2-imaging to measure pial perivascular space cross-sectional area and dynamic contrast-enhanced MRI after infusion of Gd-DTPA in CSF to track CSF flow around and into the brain. 
data/GadospinP contains data from a validation experiment with a larger tracer molecule to validate that the observed flow velocity was not affected by diffusion effects of infusion artefacts. 
data/high_res_T2 contains data from a validation experiment to test how the imaging sequence affects the measured pial perivascular space cross-sectional area. 
data/template contains an anatomical template described here: https://doi.org/10.1016/j.jconrel.2023.01.054. The file 'input_sources.nii.gz' contains the template-space definition of the subarachnoid-space territory of the middle cerebral arteries used in the calculation of the CSF perfusion territory of the middle cerebral artery (Fig. 3 in the paper). 

code/python contains python scripts to produce quantitative DCE-MRI time series, i.e. 4D tracer concentration images. 
code/matlab contains Matlab scripts implementing the calculations necessary to produce the results described in the paper.

Abstract:
Waste solutes are cleared from the brain via outflow of interstitial fluid (ISF). Blood-brain-barrier water secretion and inflow of cerebrospinal fluid (CSF) via perivascular channels have been suggested as potential fluid sources to replace outflowing ISF. To assess the role of CSF inflow in brain clearance, we measured both CSF inflow and ISF outflow in ketamine/dexmedetomidine anesthetized rats. We used magnetic resonance imaging (MRI) and single-photon emission computed tomography (SPECT) to track tracer flows after infusion in CSF or ISF. CSF inflow was estimated at 0.5-0.7 µl·g-1·min-1 using either direct observation of perivascular flow or compartment modelling. ISF outflow was estimated at 0.47±0.05 µl·g-1·min-1 after intraparenchymal infusion. Our observations indicate that under the anesthetic condition examined, inflowing CSF is sufficient to replace outflowing ISF, that perivascular flow and CSF inflow to interstitium are dominated by convection, and that diffusion and convection both contribute to tracer transport within the brain parenchyma.
DOI: 10.17632/hxywx67bz7
title: All Included Articles in the Qualitative Content Analysis - Bridging the theory-practice gap: A genealogical perspective on the most debated Knowledge Management challenges

description: This dataset is connected to the paper "Bridging the Theory-Practice Gap: A Genealogical Perspective on the Most Debated Knowledge Management Challenges," which includes a bibliometric and qualitative content analysis. The dataset comprises a single file containing the bibliographic information of all the articles included in the qualitative content analysis. These articles can be filtered by decade and decade cluster.
DOI: 10.17632/g68yphtyw8
title: Data used to prepare the paper: Krzysztof Beck, Iana Okhrimenko (2024) "Optimum Currency Area in the Eurozone. The regional origins of the European business cycle". Open Economies Review

description: Data used to prepare the paper: Krzysztof Beck, Iana Okhrimenko (2024) "Optimum Currency Area in the Eurozone. The regional origins of the European business cycle". Open Economies Review
DOI: 10.17632/sfz99st5tn
title: Climate change and crop yields in Zambia
DOI: 10.17632/4wf4hb3k7g
title: Lper-LCA0482_maxicircle

description: Leishmania peruviana mitochondrial genome
strain MHOM/PE/90/LCA0482
DOI: 10.17632/vy3xr6gf64
title: The effects of working capital management on the financial performance of commercial and services firms listed at Nairobi Securities Exchange in Kenya

description: Working capital management (WCM) is critical because it affects a company's profitability, liquidity, and investment decisions, all of which have an impact on financial performance. As a result, effective and efficient working capital management is an essential component for commercial and service businesses. Given the importance of the commercial and services industries to the Kenyan economy, the goal of this research was to look into the impact of working capital management on the financial performance of these firms, particularly those listed on the Nairobi Securities Exchange (NSE), from 2003 to 2022. Working capital management was measured using the average age of inventory, average collection period, average payment period, and cash conversion cycle, whereas financial performance was measured using return on asset, return on equity, and net operating profit margin.
DOI: 10.6084/m9.figshare.25927174.v1
title: H10_Wh

description: Energy related data for House 10
DOI: 10.6084/m9.figshare.27040852.v1
title: Full z-stack files for Wong et al, Cell Rep 2024.

description: Full z-stack files for neuronal GFP::RAB-7/mKate::ALG-1 integrated strains with HIS-11::mKate/HIS-15::GFP gremlin marker. Files part of supplemental files for Wong et al, Cell Rep 2024.
DOI: 10.6084/m9.figshare.3561348.v1
title: Appendix C. Strength and significance of phylogenetic signal in mean flowering time, 1974–2012.

description: Strength and significance of phylogenetic signal in mean flowering time, 1974–2012.
DOI: 10.6084/m9.figshare.28910783
title: BRI-data-Daily Nation.zip

description: The news of the Belt and Road Initiative from 2013 to 2024 in Kenyan mainstream media, the Daily Nation. The news articles collected from Lexis Advance.
DOI: 10.6084/m9.figshare.12993362.v1
title: Supplementary Material for: SNPs in Sites for DNA Methylation, Transcription Factor Binding, and miRNA Targets Leading to Allele-Specific Gene Expression and Contributing to Complex Disease Risk: A Systematic Review

description: <b><i>Introduction:</i></b> The complex genetic diversity among human populations results from an assortment of factors acting at various sequential levels, including mutations, population migrations, genetic drift, and selection. Although there are a plethora of DNA sequence variations identified through genome-wide association studies (GWAS), the challenge remains to explain the mechanisms underlying interindividual phenotypic disparity accounting for disease susceptibility. Single nucleotide polymorphisms (SNPs) present in the sites for DNA methylation, transcription factor (TF) binding, or miRNA targets can alter the gene expression. The systematic review aimed to evaluate the complex crosstalk among SNPs, miRNAs, DNA methylation, and TFs for complex multifactorial disease risk. <b><i>Methods:</i></b> PubMed and Scopus databases were used from inception until May 15, 2019. Initially, screening of articles involved studies assessing the interaction of SNPs with TFs, DNA methylation, or miRNAs resulting in allele-specific gene expression in complex multifactorial diseases. We also included the studies which provided experimental validation of the interaction of SNPs with each of these factors. The results from various studies on multifactorial diseases were assessed. <b><i>Results:</i></b> A total of 11 articles for SNPs interacting with DNA methylation, 30 articles for SNPs interacting with TFs, and 11 articles for SNPs in miRNA binding sites were selected. The interactions of SNPs with epigenetic factors were found to be implicated in different types of cancers, autoimmune diseases, cardiovascular diseases, diabetes, and asthma. <b><i>Conclusion:</i></b> The systematic review provides evidence for the interplay between genetic and epigenetic risk factors through allele-specific gene expression in various complex multifactorial diseases.