cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11316740
title: MECP2 KMD genetic variant data in CSV

description: MECP2 genetic variant data from KMD in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316743
title: MECP2 LOVD genetic variant data in CSV

description: MECP2 genetic variant data from LOVD in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316731
title: MECP2 ExAC genetic variant data in CSV

description: MECP2 genetic variant data from ExAC in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316725
title: MECP2 EVA genetic variant data in CSV

description: MECP2 genetic variant data from EVA in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316728
title: MECP2 EVS genetic variant data in CSV

description: MECP2 genetic variant data from EVS in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316719
title: MECP2 DECIPHER genetic variant data in CSV

description: MECP2 genetic variant data from DECIPHER in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316716
title: FigS1

description: Quorum sensing inhibition in C jejuni with plant derived phytochemicals.
DOI: 10.6084/m9.figshare.11316710
title: Supplement

description: QS inhibition in C. jejuni with phytochemicals.
DOI: 10.6084/m9.figshare.11316713
title: MECP2 ClinVar genetic variant data in CSV

description: MECP2 genetic variant data from ClinVar in CSV format.<br>FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>
DOI: 10.6084/m9.figshare.11316701
title: Fig S2

description: QS inhibition in C. jejuni with phytochemicals.
DOI: 10.6084/m9.figshare.11316716.v1
title: FigS1

description: Quorum sensing inhibition in C jejuni with plant derived phytochemicals.
DOI: 10.6084/m9.figshare.11316695
title: Fig3

description: QS inhibition in C. jejuni with natural extracts.
DOI: 10.6084/m9.figshare.11316701.v1
title: Fig S2

description: QS inhibition in C. jejuni with phytochemicals.
DOI: 10.6084/m9.figshare.11316710.v1
title: Supplement

description: QS inhibition in C. jejuni with phytochemicals.
DOI: 10.6084/m9.figshare.11316692
title: Fig2

description: QS inhibition in C. jejuni with plant extracts.
DOI: 10.6084/m9.figshare.11316695.v1
title: Fig3

description: QS inhibition in C. jejuni with natural extracts.
DOI: 10.6084/m9.figshare.11316662
title: Fig1

description: QS inhibition in C. jejuni with natural extracts.
DOI: 10.6084/m9.figshare.11316692.v1
title: Fig2

description: QS inhibition in C. jejuni with plant extracts.
DOI: 10.6084/m9.figshare.11316656
title: Supplementary Files (Mitochondrial Genome Rearrangement in Amphibians)

description: <b>Additional file 1: Table S1. </b>Amphibian species with mt gene duplication or loss in this study. (XLSX 12 kb) <b>Additional file 2: Figure S1.</b><b> </b>Phylogenetic tree of all amphibians studied using ML method based on the nucleotide dataset of 13 mt PCGs. The number of species sampled for each lineage is shown in brackets. We marked the branches of the species with mt gene rearrangements and the names of species only involved with PCGs rearrangements in dark red, and a pale red background was set on the branch of neobatrachians, the group with the most intensive rearrangements. (PDF 542 kb) <b>Additional file 3: Figure S2.</b> Mitogenomic rearrangement patterns of all amphibian species investigated. The numbers in first column indicated the occurrence frequencies of patterns(a number less than three is defined as a rare rearrangement in this study). (PDF 119 kb) <b>Additional file 4: Word S1. </b>Amplification scheme and primers sequences for sequencing four mitochondrial genomes in this study.(DOCX 14.2kb) <b>Additional file 5: Text S1. </b>Multiple sequence alignment file (fasta format, an input file for constructing phylogenetic trees) based on nucleic acid sequences of 13 protein-coding genes from 233 species mitogenomes. (TXT 2899kb) <b>Additional file 6: Table S2. </b>List of best models for performing phylogenetic tree based on BI method in this study. (XLSX 10 kb)<b></b><br>
DOI: 10.6084/m9.figshare.11316662.v1
title: Fig1

description: QS inhibition in C. jejuni with natural extracts.
DOI: 10.6084/m9.figshare.11316644
title: Supplementary table 1 from Thermophysiologies of Jurassic marine crocodylomorphs inferred from the oxygen isotope composition of their tooth apatite

description: Oxygen isotope compositions of reptiles and fish phosphate are reported along with their corresponding oxygen and carbon isotope composition of apatite carbonate, carbonate content, sample origin and identification.
DOI: 10.6084/m9.figshare.11316638
title: Acoustic Parameter Data from Chimpanzees use tree species with a resonant timbre for accumulative stone throwing

description: Timbre descriptors measured from impact sounds of simulated throws during field experiments.
DOI: 10.6084/m9.figshare.11316641
title: Supplementary table 2 from Thermophysiologies of Jurassic marine crocodylomorphs inferred from the oxygen isotope composition of their tooth apatite

description: Calculation of seawater temperature and reptile body temperature using equation 1 (see text).
DOI: 10.6084/m9.figshare.11316644.v1
title: Supplementary table 1 from Thermophysiologies of Jurassic marine crocodylomorphs inferred from the oxygen isotope composition of their tooth apatite

description: Oxygen isotope compositions of reptiles and fish phosphate are reported along with their corresponding oxygen and carbon isotope composition of apatite carbonate, carbonate content, sample origin and identification.
DOI: 10.6084/m9.figshare.11316632
title: Model Code from Chimpanzees use tree species with a resonant timbre for accumulative stone throwing

description: Code used to fit the linear mixed models of this study.
DOI: 10.6084/m9.figshare.11316638.v1
title: Acoustic Parameter Data from Chimpanzees use tree species with a resonant timbre for accumulative stone throwing

description: Timbre descriptors measured from impact sounds of simulated throws during field experiments.
DOI: 10.6084/m9.figshare.11316641.v1
title: Supplementary table 2 from Thermophysiologies of Jurassic marine crocodylomorphs inferred from the oxygen isotope composition of their tooth apatite

description: Calculation of seawater temperature and reptile body temperature using equation 1 (see text).
DOI: 10.6084/m9.figshare.11316632.v1
title: Model Code from Chimpanzees use tree species with a resonant timbre for accumulative stone throwing

description: Code used to fit the linear mixed models of this study.
DOI: 10.6084/m9.figshare.11316656.v1
title: Supplementary Table

description: PGS information used in this study
DOI: 10.6084/m9.figshare.11316599
title: DEN-IM: Dengue virus genotyping from amplicon and shotgun metagenomic sequencing

description: Supplementary Material/Data for "DEN-IM: Dengue virus genotyping from amplicon and shotgun metagenomic sequencing" as published in <i>Microbial Genomics</i>
DOI: 10.6084/m9.figshare.11316599.v1
title: DEN-IM: Dengue virus genotyping from amplicon and shotgun metagenomic sequencing

description: Supplementary Material/Data for "DEN-IM: Dengue virus genotyping from amplicon and shotgun metagenomic sequencing" as published in <i>Microbial Genomics</i>
DOI: 10.6084/m9.figshare.11316587
title: R script for reading hdf5 files

description: R script for reading hdf5 files
DOI: 10.6084/m9.figshare.11316590
title: Test labels

description: Class labels of the spectra included in the testing dataset (test.h5).
DOI: 10.6084/m9.figshare.11316587.v1
title: R script for reading hdf5 files

description: R script for reading hdf5 files
DOI: 10.6084/m9.figshare.11316590.v1
title: Test labels

description: Class labels of the spectra included in the testing dataset (test.h5).
DOI: 10.6084/m9.figshare.11316584
title: Matlab script for reading hdf5 files

description: Matlab script for reading hdf5 files
DOI: 10.6084/m9.figshare.11316584.v1
title: Matlab script for reading hdf5 files

description: Matlab script for reading hdf5 files
DOI: 10.6084/m9.figshare.11316656.v2
title: Supplementary Files (table,figure)

description: <b>Additional file 1: Table S1. </b>Amphibian species with mt gene duplication or loss in this study. (XLSX 12 kb) <b>Additional file 2: Figure S1.</b><b> </b>Phylogenetic tree of all amphibians studied using ML method based on the nucleotide dataset of 13 mt PCGs. The number of species sampled for each lineage is shown in brackets. We marked the branches of the species with mt gene rearrangements and the names of species only involved with PCGs rearrangements in dark red, and a pale red background was set on the branch of neobatrachians, the group with the most intensive rearrangements. (PDF 542 kb) <b>Additional file 3: Figure S2.</b> Mitogenomic rearrangement patterns of all amphibian species investigated. The numbers in first column indicated the occurrence frequencies of patterns(a number less than three is defined as a rare rearrangement in this study). (PDF 119 kb) <b>Additional file 4: Word S1. </b>Amplification scheme and primers sequences for sequencing four mitochondrial genomes in this study.(DOCX 14.2kb) <b>Additional file 5: Text S1. </b>Multiple sequence alignment file (fasta format, an input file for constructing phylogenetic trees) based on nucleic acid sequences of 13 protein-coding genes from 233 species mitogenomes. (TXT 2899kb) <b>Additional file 6: Table S2. </b>List of best models for performing phylogenetic tree based on BI method in this study. (XLSX 10 kb)<b></b><br>
DOI: 10.6084/m9.figshare.11316572
title: Support tables

description: Excel sheets providing the sample compositions with estimated uncertainties.
DOI: 10.6084/m9.figshare.11316575
title: Testing dataset

description: Testing dataset in hdf5 file format without the class labels. Scripts are provided for reading in the dataset in R, Python, and Matlab.
DOI: 10.6084/m9.figshare.11316578
title: Training dataset

description: Training dataset in hdf5 file format including the class labels. Scripts are provided for reading in the dataset in R, Python, and Matlab.
DOI: 10.6084/m9.figshare.11316581
title: Python script for reading hdf5 files

description: Python script for reading hdf5 files
DOI: 10.6084/m9.figshare.11316578.v1
title: Training dataset

description: Training dataset in hdf5 file format including the class labels. Scripts are provided for reading in the dataset in R, Python, and Matlab.
DOI: 10.6084/m9.figshare.11316572.v1
title: Support tables

description: Excel sheets providing the sample compositions with estimated uncertainties.
DOI: 10.6084/m9.figshare.11316551
title: Degradation of fullerene C<sub>60</sub> by human myeloperoxidase and some reaction products

description: The biodegradation of the fullerene molecule C<sub>60</sub> under the action of the human myeloperoxidase enzyme accompanied by a complete loss of the topology of the fullerene core. Analysis of this reaction mixture using UV and FTIR spectroscopy, chromatographic and mass spectrometry methods showed that the degradation proceeds without the formation of significant amounts of hydroxylated compounds. Among other intermediate compounds aromatic compounds were detected.
DOI: 10.6084/m9.figshare.11316554
title: Protective effect of hyperoside on heart failure rats via attenuating myocardial apoptosis and inducing autophagy

description: Heart failure (HF) is one of the most severe heart conditions, which lacks effective therapies. Therefore, it is necessary to develop more efficient drugs for HF. In this study, we investigated the cardioprotective effects of hyperoside against the pathological progression of HF. Thoracic aortic constriction (TAC) was performed to induce HF in rats. Hyperoside treatment improved cardiac function, decreased cardiomyocyte cross-sectional area and heart weight to body weight (HW/BW) ratio in HF rats. Moreover, hyperoside administration repressed apoptosis as evidenced by changing apoptosis-related protein levels, and promoted autophagy in TAC rats and angiotensin II (AngII)-induced H9C2 cells. Inhibition of autophagy by 3-methyladenine (3-MA) attenuated the beneficial effect of hyperoside against apoptosis in H9C2 cells. In summary, these data confirm that hyperoside effectively alleviates HF via suppressing apoptosis and inducing autophagy, which provides evidence that hyperoside may serve as a promising natural drug for treating HF. Hyperoside (Hyp) protects against heart failure via attenuating myocardial apoptosis and inducing autophagy
DOI: 10.6084/m9.figshare.11316515
title: Supplementary file 3 from Were the synapsids primitively endotherms? A palaeohistological approach using phylogenetic eigenvector maps

description: Script of statistical analyses
DOI: 10.6084/m9.figshare.11316551.v1
title: Degradation of fullerene C<sub>60</sub> by human myeloperoxidase and some reaction products

description: The biodegradation of the fullerene molecule C<sub>60</sub> under the action of the human myeloperoxidase enzyme accompanied by a complete loss of the topology of the fullerene core. Analysis of this reaction mixture using UV and FTIR spectroscopy, chromatographic and mass spectrometry methods showed that the degradation proceeds without the formation of significant amounts of hydroxylated compounds. Among other intermediate compounds aromatic compounds were detected.
DOI: 10.6084/m9.figshare.11316554.v1
title: Protective effect of hyperoside on heart failure rats via attenuating myocardial apoptosis and inducing autophagy

description: Heart failure (HF) is one of the most severe heart conditions, which lacks effective therapies. Therefore, it is necessary to develop more efficient drugs for HF. In this study, we investigated the cardioprotective effects of hyperoside against the pathological progression of HF. Thoracic aortic constriction (TAC) was performed to induce HF in rats. Hyperoside treatment improved cardiac function, decreased cardiomyocyte cross-sectional area and heart weight to body weight (HW/BW) ratio in HF rats. Moreover, hyperoside administration repressed apoptosis as evidenced by changing apoptosis-related protein levels, and promoted autophagy in TAC rats and angiotensin II (AngII)-induced H9C2 cells. Inhibition of autophagy by 3-methyladenine (3-MA) attenuated the beneficial effect of hyperoside against apoptosis in H9C2 cells. In summary, these data confirm that hyperoside effectively alleviates HF via suppressing apoptosis and inducing autophagy, which provides evidence that hyperoside may serve as a promising natural drug for treating HF. Hyperoside (Hyp) protects against heart failure via attenuating myocardial apoptosis and inducing autophagy
DOI: 10.6084/m9.figshare.11316515.v1
title: Supplementary file 3 from Were the synapsids primitively endotherms? A palaeohistological approach using phylogenetic eigenvector maps

description: Script of statistical analyses
DOI: 10.6084/m9.figshare.11316494
title: An outbreak of severe coagulopathy from synthetic cannabinoids tainted with Long-Acting anticoagulant rodenticides

description: <b>Objective:</b> To describe a large regional poison center’s experience managing an outbreak of long-acting anticoagulant rodenticide (LAAR) poisoning associated with synthetic cannabinoid (SC) use. <b>Methods:</b> This is a retrospective review of exposures reported to the Illinois Poison Center between March 10 and August 1, 2018. All cases coded as exposure to Δ9-tetrahydrocannabinol homologs were identified. Patients with suspected SC use, positive LAAR testing, and coagulopathy (signs or symptoms of bleeding or international normalized ratio [INR] &gt; 2) were included. If confirmatory LAAR testing was performed and resulted as negative, the patient was excluded from this analysis. In the absence of LAAR testing, patients with suspected SC use, an INR &gt;2, and no alternative explanation of coagulopathy were included. Suspected SC use was defined as use suspected by a member of the treating team or reported by the patient. Presenting signs and symptoms, laboratory findings, management, healthcare utilization, outcomes, and disposition of patients affected by this outbreak were reported. <b>Results:</b> One hundred seventy-eight cases met inclusion criteria. Most patients were male (73%) and young to middle-aged (median age 32, IQR 25–40). Most presented to hospitals in Peoria (35%) and Cook (31%) counties. Median hospitalization was three days (IQR 2–4). Eighty-eight percent of patients presented with an INR &gt;10. Eighteen cases had qualitative anticoagulant testing, all of which were positive for brodifacoum. Other identified LAARs included difenacoum (10/18) and bromadiolone (1/18). Sixty-three percent of patients had back, flank or abdominal pain; 70% of patients presented with hematuria. One hundred six cases received IV vitamin K<sub>1</sub>; no adverse or anaphylactoid reactions were reported. Forty-one (22%) patients left AMA. Thirty-eight patients (21%) were re-hospitalized during the study period. Patients leaving AMA were 1.6 times more likely to be re-hospitalized than patients with other dispositions. Intracranial hemorrhage, present in 3% of total cases, was present in 4 of 5 fatalities. <b>Conclusions:</b> We describe an outbreak of multiple LAARs contaminating SCs. Patients presented with bleeding from varied sites, often required blood products, factor replacement, and high dose vitamin K<sub>1</sub> for stabilization.
DOI: 10.6084/m9.figshare.11316494.v1
title: An outbreak of severe coagulopathy from synthetic cannabinoids tainted with Long-Acting anticoagulant rodenticides

description: <b>Objective:</b> To describe a large regional poison center’s experience managing an outbreak of long-acting anticoagulant rodenticide (LAAR) poisoning associated with synthetic cannabinoid (SC) use. <b>Methods:</b> This is a retrospective review of exposures reported to the Illinois Poison Center between March 10 and August 1, 2018. All cases coded as exposure to Δ9-tetrahydrocannabinol homologs were identified. Patients with suspected SC use, positive LAAR testing, and coagulopathy (signs or symptoms of bleeding or international normalized ratio [INR] &gt; 2) were included. If confirmatory LAAR testing was performed and resulted as negative, the patient was excluded from this analysis. In the absence of LAAR testing, patients with suspected SC use, an INR &gt;2, and no alternative explanation of coagulopathy were included. Suspected SC use was defined as use suspected by a member of the treating team or reported by the patient. Presenting signs and symptoms, laboratory findings, management, healthcare utilization, outcomes, and disposition of patients affected by this outbreak were reported. <b>Results:</b> One hundred seventy-eight cases met inclusion criteria. Most patients were male (73%) and young to middle-aged (median age 32, IQR 25–40). Most presented to hospitals in Peoria (35%) and Cook (31%) counties. Median hospitalization was three days (IQR 2–4). Eighty-eight percent of patients presented with an INR &gt;10. Eighteen cases had qualitative anticoagulant testing, all of which were positive for brodifacoum. Other identified LAARs included difenacoum (10/18) and bromadiolone (1/18). Sixty-three percent of patients had back, flank or abdominal pain; 70% of patients presented with hematuria. One hundred six cases received IV vitamin K<sub>1</sub>; no adverse or anaphylactoid reactions were reported. Forty-one (22%) patients left AMA. Thirty-eight patients (21%) were re-hospitalized during the study period. Patients leaving AMA were 1.6 times more likely to be re-hospitalized than patients with other dispositions. Intracranial hemorrhage, present in 3% of total cases, was present in 4 of 5 fatalities. <b>Conclusions:</b> We describe an outbreak of multiple LAARs contaminating SCs. Patients presented with bleeding from varied sites, often required blood products, factor replacement, and high dose vitamin K<sub>1</sub> for stabilization.
DOI: 10.6084/m9.figshare.11316473
title: pteridines dataset.xlsx

description: Identification and age-dependence of pteridines in bed bugs (Cimex lectularius) and bat bugs (C. pipistrelli) using liquid <br>chromatography-tandem mass spectrometry.<br>To review the existing body of literature, we used Google Scholar entered the following key words: pteridines AND insect AND method. This literature review yielded 139 suitable studies. We have conducted a detailed analysis of 106 papers dealing with pteridines and published between 1926 and 2019.
DOI: 10.6084/m9.figshare.11316443
title: Biomarker, NTproBNP, AMI, Sudan

description: This is a data of descriptive, case-control study of acute myocardial infarction cases in Sudan, the study uses two biomarkers; NTproBNP, troponin I (TnI). The data contain quantitative results as well as demographics, clinical and risk factors information. Also it contain a <em>questionnaire.</em>
DOI: 10.6084/m9.figshare.11316443.v1
title: Biomarker, NTproBNP, AMI, Sudan

description: This is a data of descriptive, case-control study of acute myocardial infarction cases in Sudan, the study uses two biomarkers; NTproBNP, troponin I (TnI). The data contain quantitative results as well as demographics, clinical and risk factors information. Also it contain a <em>questionnaire.</em>
DOI: 10.6084/m9.figshare.11316317
title: Gene database of Pseudomonas syringae pv. DC3000

description: <i>Pseudomonas syringae</i> pv. DC3000 is a Gram-negative, rod-shaped plant pathogen. Able to infect a variety of plant species, the bacterium uses its Type III secretion system to inject effector proteins into plant cells; thereby, resulting in pathogenesis. Given its importance to studying plant-microbe interactions, <i>P. syringae</i> pv. DC3000 (NCBI Reference Sequence: NC_004578.1) has attracted much research attention, especially in areas seeking to understand plant pathogenesis mechanisms, as well as methods for controlling <i>P. syringae</i> pv. DC3000 infections. Using an in-house MATLAB algorithm, the annotated genome sequence of <i>P. syringae</i> pv. DC3000 was parsed and help create a gene database comprising gene names, gene functions and gene sequence. The database should find use in the phylogenetic analysis of genes important to <i>P. syringae</i> plant pathogenesis as well as studies aiming to understand how gene knockouts help ameliorate or activate plant pathogenesis by this important plant pathogen. <br><br>
DOI: 10.6084/m9.figshare.11316323
title: Identification of Sec23ip, part of 14-3-3γ protein network, as a regulator of acute steroidogenesis in MA-10 Leydig cells

description: <b>Supplemental Figure 1</b>. Image obtained from protein atlas databases. Sections of a testes obtained from a patient were stained with Sec23ip antibody. Patient data and cell types with Sec23ip expression are indicated. <br> <b>Supplemental Table 1</b>. A list of proteins from the 14-3-3γ interactome in cAMP-treated MA-10 cells at times 0, 30, 60 and 120. The proteins are listed based on progressive increase in interactions with 14-3-3γ. <b>Supplemental Table 2</b>. A selected list of 14-3-3γ interactome containing proteins that showed consistent interactions at all time points across n= 3. <br> <b>Supplemental Table 3</b>. Relative gene expression for Sec23ip in steroidogenic tissues in human and mice. This data was obtained from biogps database using the probeset 209175-at for human and probeset 1433627-at for mice. <b>Supplemental Table 4</b>. The sequences of 3 siRNA used for Sec23ip knock down. <b></b>