cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12154980.v1
title: Genetic patterns reveal northward range expansion and cryptic diversity in Nalbant’s spined loach, <i>Cobitis nalbanti sensu lato</i> (Teleostei: Cypriniformes: Cobitidae)

description: The morphologically similar populations of the Korean freshwater spined loach recently described as a new species <i>Cobitis nalbanti</i> (Actinopterygii: Cypriniformes: Cobitidae) inhabit the rivers and streams on the Korean Peninsula that flow into the Yellow Sea and the Korea Strait. These shallow sea areas have experienced recurrent sea-level rises and falls. In this study, we investigate the impact of repeated disconnection and reconnection of rivers on the population genetics and morphological variation of <i>C. nalbanti</i>. A total of 264 individuals of <i>C. nalbanti</i> were collected from 17 localities covering the entire distribution range of this species in South Korea. We examined multi-locus genetic data including a mitochondrial gene, seven nuclear genes and eight microsatellite loci, and scrutinized 31 morphological variables based on 26 morphometric and 3 meristic characters. We uncovered a population genetic structure and noticeable morphological variation among populations approximately corresponding to the geography of river basins along the Yellow Sea. Overall genetic diversity was significantly reduced in the more northern populations, suggesting range expansion from ancestral southern populations into northern rivers via the paleo-Yellow River system in the Yellow Sea during glacial periods of lowered sea levels. A northward range expansion hypothesis was strongly supported by the reconstruction of geographic ranges of ancestral species and/or populations based on phylogenetic analyses. Both mitochondrial and nuclear phylogenetic trees revealed a relatively highly divergent lineage of <i>C. nalbanti</i> in the southernmost populations (Tamjin lineage). Noticeable differences in morphological variables between the Tamjin lineage and other lineages of <i>C. nalbanti</i> also suggest potential separate specific status of the former. The close phylogenetic relationships between the Tamjin lineage and the Japanese species of <i>Cobitis</i> signify interaction or exchange between the Korean and Japanese cobitids and imply that there was historically at least one freshwater passage on the terrestrial bridge between the Korean Peninsula and the southwestern part of the Japanese archipelago.
DOI: 10.6084/m9.figshare.12154896
title: Associations of antithrombotic agent use with clinical outcomes in critically ill patients with troponin I elevation in the absence of acute coronary syndrome

description: <b>Introduction</b>: To evaluate efficacy of antithrombotic agents in critically ill patients with elevated troponin I level during intensive care unit (ICU) admission. <b>Methods and results:</b> It was a retrospective observational study which was conducted in a tertiary teaching hospital in Taipei, Taiwan. All patients hospitalized in ICU for &gt;3 days and with available serum troponin I data from December 2015 to July 2017 were included. Patients with definite diagnosis of acute myocardial infarction (AMI) were excluded. We divided patients with troponin I elevation into three groups; no prescription, chronic prescription and new prescription of antithrombotic agents during ICU admission. We defined new prescription when patients were on antithrombotic agents, including antiplatelet agents, direct oral anticoagulants, and warfarin after troponin I was found to be elevated at ICU admission and chronic prescription, if antithrombotic agents were on medication list more than 30 days before ICU admission. Primary outcomes were 30-day and one-year all-cause mortality. Of 597 subjects who met inclusion criteria, 407 (68%) patients had elevated troponin I (&gt;0.1 ng/mL) on ICU admission. These patients had increased 30-day [hazard ratio (HR), 1.679; 95% confidence interval (CI), 1.132–2.491; <i>p</i> = 0.009] and one-year (HR, 1.568; 95% CI, 1.180–2.083; <i>p </i>= 0.002) all-cause mortality compared with those without elevated troponin I. In patients with elevated troponin I, there was no significant difference of 30-day all-cause mortality among three groups (<i>p</i> = 0.051) whereas patients on chronic prescription showed significant survival benefit in one-year all-cause mortality when compared to those without or with new prescription (<i>p</i> = 0.008). <b>Conclusions</b>: In critically ill patients, elevated troponin I in the absence of AMI was associated with poor prognosis. Newly prescribed antithrombotic agents in ICU didn’t reveal the difference in short and long-term prognosis while chronic antithrombotic agent use was associated with better one-year survival rate, suggesting that these drugs play a protective role in this high-risk population.<br>
DOI: 10.6084/m9.figshare.12154896.v1
title: Associations of antithrombotic agent use with clinical outcomes in critically ill patients with troponin I elevation in the absence of acute coronary syndrome

description: <b>Introduction</b>: To evaluate efficacy of antithrombotic agents in critically ill patients with elevated troponin I level during intensive care unit (ICU) admission. <b>Methods and results:</b> It was a retrospective observational study which was conducted in a tertiary teaching hospital in Taipei, Taiwan. All patients hospitalized in ICU for &gt;3 days and with available serum troponin I data from December 2015 to July 2017 were included. Patients with definite diagnosis of acute myocardial infarction (AMI) were excluded. We divided patients with troponin I elevation into three groups; no prescription, chronic prescription and new prescription of antithrombotic agents during ICU admission. We defined new prescription when patients were on antithrombotic agents, including antiplatelet agents, direct oral anticoagulants, and warfarin after troponin I was found to be elevated at ICU admission and chronic prescription, if antithrombotic agents were on medication list more than 30 days before ICU admission. Primary outcomes were 30-day and one-year all-cause mortality. Of 597 subjects who met inclusion criteria, 407 (68%) patients had elevated troponin I (&gt;0.1 ng/mL) on ICU admission. These patients had increased 30-day [hazard ratio (HR), 1.679; 95% confidence interval (CI), 1.132–2.491; <i>p</i> = 0.009] and one-year (HR, 1.568; 95% CI, 1.180–2.083; <i>p </i>= 0.002) all-cause mortality compared with those without elevated troponin I. In patients with elevated troponin I, there was no significant difference of 30-day all-cause mortality among three groups (<i>p</i> = 0.051) whereas patients on chronic prescription showed significant survival benefit in one-year all-cause mortality when compared to those without or with new prescription (<i>p</i> = 0.008). <b>Conclusions</b>: In critically ill patients, elevated troponin I in the absence of AMI was associated with poor prognosis. Newly prescribed antithrombotic agents in ICU didn’t reveal the difference in short and long-term prognosis while chronic antithrombotic agent use was associated with better one-year survival rate, suggesting that these drugs play a protective role in this high-risk population.<br>
DOI: 10.6084/m9.figshare.12154779
title: Ventricular volume, white matter alterations and outcome of major depression and their relationship to endocrine parameters – A pilot study

description: <b>Objectives:</b> Brain morphology and its relation to endocrine parameters were examined, in order to determine the link of these parameters to treatment outcome to psychopharmacological treatment in depressed patients. <b>Methods:</b> We examined the potentially predictive value of Magnetic Resonance Imaging (MRI) parameters related to mineralocorticoid receptor (MR) function on the treatment outcome of depression. 16 inpatients with a major depressive episode (MDE) were studied at baseline and 14 of them approximately six weeks later. Physiological biomarkers and 3-T-structural MRI based volume measures, using FreeSurfer 6.0 software, were determined. <b>Results:</b> Non-responders (&lt;50% reduction of HAMD-21; <i>n</i> = 6) had a significantly smaller volume of the right anterior cingulate cortex, a significantly larger ventricle to brain ratio (VBR) and third ventricle volume, and smaller volumes of the central and central-anterior corpus callosum (CC) in comparison to responders (<i>n</i> = 7; all <i>p</i> ≤ 0.05). Correlational analysis (Spearman) demonstrated that larger ventricle volume was correlated to a worse treatment outcome, higher body mass index (BMI) and smaller CC segment volume, whereas the total CC volume was negatively correlated to the saliva aldosterone/cortisol concentration ratio (AC-ratio). <b>Conclusion:</b> Large ventricular volume may be a predictive marker for worse treatment response to standard antidepressant treatment, potentially via compression of white matter structures. A mediating role of the previously identified markers BMI and the AC-ratio, is suggested.
DOI: 10.6084/m9.figshare.12154779.v2
title: Ventricular volume, white matter alterations and outcome of major depression and their relationship to endocrine parameters – A pilot study

description: <b>Objectives:</b> Brain morphology and its relation to endocrine parameters were examined, in order to determine the link of these parameters to treatment outcome to psychopharmacological treatment in depressed patients. <b>Methods:</b> We examined the potentially predictive value of Magnetic Resonance Imaging (MRI) parameters related to mineralocorticoid receptor (MR) function on the treatment outcome of depression. 16 inpatients with a major depressive episode (MDE) were studied at baseline and 14 of them approximately six weeks later. Physiological biomarkers and 3-T-structural MRI based volume measures, using FreeSurfer 6.0 software, were determined. <b>Results:</b> Non-responders (&lt;50% reduction of HAMD-21; <i>n</i> = 6) had a significantly smaller volume of the right anterior cingulate cortex, a significantly larger ventricle to brain ratio (VBR) and third ventricle volume, and smaller volumes of the central and central-anterior corpus callosum (CC) in comparison to responders (<i>n</i> = 7; all <i>p</i> ≤ 0.05). Correlational analysis (Spearman) demonstrated that larger ventricle volume was correlated to a worse treatment outcome, higher body mass index (BMI) and smaller CC segment volume, whereas the total CC volume was negatively correlated to the saliva aldosterone/cortisol concentration ratio (AC-ratio). <b>Conclusion:</b> Large ventricular volume may be a predictive marker for worse treatment response to standard antidepressant treatment, potentially via compression of white matter structures. A mediating role of the previously identified markers BMI and the AC-ratio, is suggested.
DOI: 10.6084/m9.figshare.12154779.v1
title: Ventricular volume, white matter alterations and outcome of major depression and their relationship to endocrine parameters – a pilot study

description: <b>Objectives:</b> Brain morphology and its relation to endocrine parameters was examined, in order to determine the link of these parameters to treatment outcome to psychopharmacological treatment in depressed patients. <b>Methods:</b> We examined the potentially predictive value of Magnetic Resonance Imaging (MRI) parameters related to mineralocorticoid receptor (MR) function on the treatment outcome of depression. 16 inpatients with a major depressive episode (MDE) were studied at baseline and 14 of them approximately six weeks later. Physiological biomarkers and 3-T-structural MRI based volume measures, using FreeSurfer 6.0 software, were determined. <b>Results:</b> Non-responders (&lt; 50% reduction of HAMD-21; n = 6) had a significantly smaller volume of the right anterior cingulate cortex, a significantly larger ventricle to brain ratio (VBR) and third ventricle volume, and smaller volumes of the central and central-anterior corpus callosum (CC) in comparison to responders (n = 7; all p ≤ 0.05). Correlational analysis (Spearman) demonstrated that larger ventricle volume was correlated to a worse treatment outcome, higher body mass index (BMI) and smaller CC segment volume, whereas the total CC volume was negatively correlated to the saliva aldosterone/cortisol concentration ratio (AC-ratio). <b>Conclusion:</b> Large ventricular volume may be a predictive marker for worse treatment response to standard antidepressant treatment, potentially via compression of white matter structures. A mediating role of the previously identified markers BMI and the AC-ratio, is suggested.
DOI: 10.6084/m9.figshare.12154662
title: Safeguarding the genetic integrity of native pollinators requires stronger regulations on commercial lines

description: Input file (STR format) with 9,063 unlinked SNPs used for performing Bayesian clustering (Structure) and principal component (Adegenet) analyses for all studied populations of <i>Bombus terrestris</i>.
DOI: 10.6084/m9.figshare.12154554
title: Matare T et study 2020 ART uptake data

description: Matare T et study 2020 ART uptake data in Microsoft Excel 2010 format. Aggregate quarterwise new HIV diagnoses and new ART uptake in Harare from 2014 to 2018
DOI: 10.6084/m9.figshare.12154566
title: Matare T et study 2020 ART initiation delay and retention data

description: Matare T et study 2020 ART initiation delay and retention data before (Q2 - 2015) and during (Q2 - 2017) "Treat All" in 50 ePMS sites of Harare
DOI: 10.6084/m9.figshare.12154554.v1
title: Matare T et study 2020 ART uptake data

description: Matare T et study 2020 ART uptake data in Microsoft Excel 2010 format. Aggregate quarterwise new HIV diagnoses and new ART uptake in Harare from 2014 to 2018
DOI: 10.6084/m9.figshare.12154566.v1
title: Matare T et study 2020 ART initiation delay and retention data

description: Matare T et study 2020 ART initiation delay and retention data before (Q2 - 2015) and during (Q2 - 2017) "Treat All" in 50 ePMS sites of Harare
DOI: 10.6084/m9.figshare.12154161
title: Additional file 2 of On the utility of RNA sample pooling to optimize cost and statistical power in RNA sequencing experiments

description: Additional file 2 multiQC report for NGP nutlin dataset. This file contains the quality metrics generated using the MultiQC tool for the NGP nutlin RNA-seq data.
DOI: 10.6084/m9.figshare.12154161.v2
title: Additional file 2 of On the utility of RNA sample pooling to optimize cost and statistical power in RNA sequencing experiments

description: Additional file 2 multiQC report for NGP nutlin dataset. This file contains the quality metrics generated using the MultiQC tool for the NGP nutlin RNA-seq data.
DOI: 10.6084/m9.figshare.12154161.v1
title: Additional file 2 of On the utility of RNA sample pooling to optimize cost and statistical power in RNA sequencing experiments

description: Additional file 2 multiQC report for NGP nutlin dataset. This file contains the quality metrics generated using the MultiQC tool for the NGP nutlin RNA-seq data.
DOI: 10.6084/m9.figshare.12154143
title: Additional file 2 of Power dynamics as a determinant of access and utilization of nutrition services by pregnant and lactating adolescent girls in Trans-Mara East Sub-County, Narok County, Kenya

description: Additional file 2.
DOI: 10.6084/m9.figshare.12154143.v1
title: Additional file 2 of Power dynamics as a determinant of access and utilization of nutrition services by pregnant and lactating adolescent girls in Trans-Mara East Sub-County, Narok County, Kenya

description: Additional file 2.
DOI: 10.6084/m9.figshare.12154095
title: Additional file 3 of Nuclear phylogeography of the temperate tree species Chiranthodendron pentadactylon (Malvaceae): Quaternary relicts in Mesoamerican cloud forests

description: Additional file 3. Sequence matrix of 36 polymorphic nuclear loci.
DOI: 10.6084/m9.figshare.12154089
title: Additional file 2 of Nuclear phylogeography of the temperate tree species Chiranthodendron pentadactylon (Malvaceae): Quaternary relicts in Mesoamerican cloud forests

description: Additional file 2. RADSeq de novo assembly stats of raw sequences.
DOI: 10.6084/m9.figshare.12154089.v1
title: Additional file 2 of Nuclear phylogeography of the temperate tree species Chiranthodendron pentadactylon (Malvaceae): Quaternary relicts in Mesoamerican cloud forests

description: Additional file 2. RADSeq de novo assembly stats of raw sequences.
DOI: 10.6084/m9.figshare.12154095.v1
title: Additional file 3 of Nuclear phylogeography of the temperate tree species Chiranthodendron pentadactylon (Malvaceae): Quaternary relicts in Mesoamerican cloud forests

description: Additional file 3. Sequence matrix of 36 polymorphic nuclear loci.
DOI: 10.6084/m9.figshare.12153990
title: Additional file 1 of The Effect of Training Experience and Leg Dominance on the Prevalence of Asymptomatic Intraarticular Changes of the Knee Joints in Adult Professional Male Soccer Players

description: Additional file 1:. The effect of training experience and leg dominance on the prevalence of asymptomatic intraarticular changes of the knee joints in adult professional male soccer players.
DOI: 10.6084/m9.figshare.12153990.v1
title: Additional file 1 of The Effect of Training Experience and Leg Dominance on the Prevalence of Asymptomatic Intraarticular Changes of the Knee Joints in Adult Professional Male Soccer Players

description: Additional file 1:. The effect of training experience and leg dominance on the prevalence of asymptomatic intraarticular changes of the knee joints in adult professional male soccer players.
DOI: 10.6084/m9.figshare.12153987
title: Additional file 5 of Campylobacter jejuni and Campylobacter coli autotransporter genes exhibit lineage-associated distribution and decay

description: Additional file 5. Table showing summary of results from comparison of autotransporter amino acid sequences using searching for conserved domains, signal sequences, protein size and predicted localisation sites.
DOI: 10.6084/m9.figshare.12153981
title: Additional file 4 of Campylobacter jejuni and Campylobacter coli autotransporter genes exhibit lineage-associated distribution and decay

description: Additional file 4. A) Table showing the number of genomes in major clonal complexes that encode frameshift (FS) or premature stop mutations in CapC3/CapC4 at specific amino acid residues. B) Table showing the percentage of genomes in major clonal complexes that encode frameshift (FS) or premature stop mutations in CapC3/CapC4 at specific amino acid residues.
DOI: 10.6084/m9.figshare.12153987.v1
title: Additional file 5 of Campylobacter jejuni and Campylobacter coli autotransporter genes exhibit lineage-associated distribution and decay

description: Additional file 5. Table showing summary of results from comparison of autotransporter amino acid sequences using searching for conserved domains, signal sequences, protein size and predicted localisation sites.
DOI: 10.6084/m9.figshare.12153972
title: Additional file 5 of Transcriptome analysis and functional characterization of cerebral organoids in bipolar disorder

description: Additional file 5. Gene ontology analysis.
DOI: 10.6084/m9.figshare.12153981.v1
title: Additional file 4 of Campylobacter jejuni and Campylobacter coli autotransporter genes exhibit lineage-associated distribution and decay

description: Additional file 4. A) Table showing the number of genomes in major clonal complexes that encode frameshift (FS) or premature stop mutations in CapC3/CapC4 at specific amino acid residues. B) Table showing the percentage of genomes in major clonal complexes that encode frameshift (FS) or premature stop mutations in CapC3/CapC4 at specific amino acid residues.
DOI: 10.6084/m9.figshare.12153960
title: Additional file 1 of Campylobacter jejuni and Campylobacter coli autotransporter genes exhibit lineage-associated distribution and decay

description: Additional file 1. Table of C. jejuni and C. coli genomes used in this study showing Genbank accession numbers, capC/capD presence or absence and intact or inactivation status.
DOI: 10.6084/m9.figshare.12153963
title: Additional file 4 of Transcriptome analysis and functional characterization of cerebral organoids in bipolar disorder

description: Additional file 4. Cuffdiff analysis of bulk RNA seq, and data presented in Fig. 1b, Table 2, Table 3 and Table 4.
DOI: 10.6084/m9.figshare.12153963.v1
title: Additional file 4 of Transcriptome analysis and functional characterization of cerebral organoids in bipolar disorder

description: Additional file 4. Cuffdiff analysis of bulk RNA seq, and data presented in Fig. 1b, Table 2, Table 3 and Table 4.
DOI: 10.6084/m9.figshare.12153972.v1
title: Additional file 5 of Transcriptome analysis and functional characterization of cerebral organoids in bipolar disorder

description: Additional file 5. Gene ontology analysis.
DOI: 10.6084/m9.figshare.12153957
title: Additional file 1 of Crimean-Congo hemorrhagic fever virus in tortoises and Hyalomma aegyptium ticks in East Thrace, Turkey: potential of a cryptic transmission cycle

description: Additional file 1: Table S1. Overview of all the samples analyzed in the study for ARC GIS. Table S2. Overview of all the tortoise blood samples used in this study.
DOI: 10.6084/m9.figshare.12153960.v1
title: Additional file 1 of Campylobacter jejuni and Campylobacter coli autotransporter genes exhibit lineage-associated distribution and decay

description: Additional file 1. Table of C. jejuni and C. coli genomes used in this study showing Genbank accession numbers, capC/capD presence or absence and intact or inactivation status.
DOI: 10.6084/m9.figshare.12153951
title: Additional file 1 of The effect of the Iranian health transformation plan on hospitalization rate: insights from an interrupted time series analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.12153957.v1
title: Additional file 1 of Crimean-Congo hemorrhagic fever virus in tortoises and Hyalomma aegyptium ticks in East Thrace, Turkey: potential of a cryptic transmission cycle

description: Additional file 1: Table S1. Overview of all the samples analyzed in the study for ARC GIS. Table S2. Overview of all the tortoise blood samples used in this study.
DOI: 10.6084/m9.figshare.12153951.v1
title: Additional file 1 of The effect of the Iranian health transformation plan on hospitalization rate: insights from an interrupted time series analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.12153939
title: Additional file 8 of Daily cost of consumer food wasted, inedible, and consumed in the United States, 2001–2016

description: Additional file 8 : Table S6. Sensitivity analysis for food intake assumptions, 2001–2016 (n = 39,758). Food purchased = wasted + inedible + consumed. Model 4: Expenditures estimated for individuals included in the National Health and Nutrition Examination Survey, 2001–2010 only. Model 5: Expenditures estimated for individuals included in the National Health and Nutrition Examination Survey, 2011–2016 only. 1Difference between the estimated expenditure and each of the modeled expenditures tested using Wald tests at P
DOI: 10.6084/m9.figshare.12153930
title: Additional file 5 of Daily cost of consumer food wasted, inedible, and consumed in the United States, 2001–2016

description: Additional file 5 : Table S3. Consumer Price Index and inflation coefficients, 2001–2016. NA, Not applicable. 1Represents 1 + percent change in Consumer Price Index from 2001 to 2016. 2Derived by (CFAFH/CFAH)Ci, where C represents the inflation coefficient for all food away from home (FAFH), all food at home (FAH), and each individual food category (i).
DOI: 10.6084/m9.figshare.12153933
title: Additional file 6 of Daily cost of consumer food wasted, inedible, and consumed in the United States, 2001–2016

description: Additional file 6 : Table S4. Daily per capita cost of food waste by food type, 2001–2016 (n = 39,758). 95% confidence intervals not listed for foods with waste