cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6723656
title: Supplementary Material for: A Randomized Clinical Trial of Flex 19G Needles versus 22G Needles for Endobronchial Ultrasonography in Suspected Lung Cancer

description: <b><i>Background:</i></b> A flexible 19-gauge (Flex 19G) needle has been developed for endobronchial ultrasonography. <b><i>Objectives:</i></b> We aimed to evaluate quantitative and qualitative specimen characteristics of Flex 19G in a randomized controlled setting for patients with suspected lung cancer. <b><i>Methods:</i></b> We undertook a single-center, randomized, controlled trial. A computer-generated randomization assigned all enrolled patients 1: 1 to undergo endobronchial ultrasonography using a Flex 19G or a 22-gauge (22G) needle for lymph node tissue sampling. Pathologists were blinded to the group assignment. The primary end point was histological tissue core procurement. The secondary end points were diagnostic yield, specimen bloodiness and overall quality, tissue surface area and performance for next-generation sequencing (NGS), and procedure-related complications. <b><i>Results:</i></b> Between June 2016 and February 2017, we randomly allocated a total of 78 patients: 39 patients to Flex 19G and 39 patients to 22G. No superiority in tissue core procurement was observed for Flex 19G compared to 22G (67 vs. 72%, <i>p</i> = 0.81). No significant difference was observed in diagnostic yield and overall specimen quality, but transbronchial needle aspiration specimens by Flex 19G were bloodier and had a larger tissue surface area. NGS was successful for clinically relevant genes in 96% and for all 26 genes tested in 81% of the samples. There was no difference in clinically relevant complications. <b><i>Conclusions:</i></b> No superiority is observed for Flex 19G in histological tissue core procurement rate. The Flex 19G needle could be considered when a larger tissue surface is of special interest.
DOI: 10.6084/m9.figshare.6723197
title: Elaborated Appendices.pdf

description: This data set is a cross tab analysis of how people vote in the way they do in the context of the local elections of Bangladesh <br>
DOI: 10.6084/m9.figshare.6723197.v1
title: Elaborated Appendices.pdf

description: This data set is a cross tab analysis of how people vote in the way they do in the context of the local elections of Bangladesh <br>
DOI: 10.5281/zenodo.4006655
title: Data set of ICSE 2021 paper submission "Static and Dynamic Analysis for the Migration of Monolith Systems to a Microservices Architecture"

description: Data set of ICSE 2021 paper submission "Static and Dynamic Analysis for the Migration of Monolith Systems to a Microservices Architecture"
DOI: 10.5281/zenodo.4006654
title: Data set of ICSE 2021 paper submission "Static and Dynamic Analysis for the Migration of Monolith Systems to a Microservices Architecture"

description: Data set of ICSE 2021 paper submission "Static and Dynamic Analysis for the Migration of Monolith Systems to a Microservices Architecture"
DOI: 10.6084/m9.figshare.6723086
title: Robotics Process Automation_1.pdf

description: The Robotics Method Automation Suggestions is just one of those procedures for accomplishing the existing labor movement. Businesses can process the robotics automates to your job.
DOI: 10.6084/m9.figshare.6722849
title: Supplementary Material for: Rationale and Design of a Randomized Placebo-Controlled Clinical Trial Assessing the Renoprotective Effects of Potassium Supplementation in Chronic Kidney Disease

description: <b><i>Background/Aims:</i></b> Dietary potassium (K<sup>+</sup>) has beneficial effects on blood pressure and cardiovascular (CV) outcomes. Recently, several epidemiological studies have revealed an association between urinary K<sup>+</sup> excretion (as proxy for dietary intake) and better renal outcomes in subjects with chronic kidney disease (CKD). To address causality, we designed the “K<sup>+</sup> in CKD” study. <b><i>Methods:</i></b> The K<sup>+</sup> in CKD study is a multicenter, randomized, double blind, placebo-controlled clinical trial aiming to include 399 patients with hypertension, CKD stage 3b or 4 (estimated glomerular filtration rate [eGFR] 15–44 mL/min/1.73 m<sup>2</sup>), and an average eGFR decline &gt; 2 mL/min/1.73 m<sup>2</sup>/year. As safety measure, all included subjects will start with a 2-week open-label phase of 40 mmol potassium chloride daily. Patients who do not subsequently develop hyperkalemia (defined as serum K<sup>+</sup> &gt;5.5 mmol/L) will be randomized to receive potassium chloride, potassium citrate (both K<sup>+</sup> 40 mmol/day), or placebo for 2 years. The primary end point is the difference in eGFR after 2 years of treatment. Secondary end points include other renal outcomes (&gt; 30% decrease in eGFR, doubling of serum creatinine, end-stage renal disease, albuminuria), ambulatory blood pressure, CV events, all-cause mortality, and incidence of hyperkalemia. Several measurements will be performed to analyze the effects of potassium supplementation, including body composition monitoring, pulse wave velocity, plasma renin and aldosterone concentrations, urinary ammonium, and intracellular K<sup>+</sup> concentrations. <b><i>Conclusion:</i></b> The K<sup>+</sup> in the CKD study will demonstrate if K<sup>+</sup> supplementation has a renoprotective effect in progressive CKD, and whether alkali therapy has additional beneficial effects.
DOI: 10.6084/m9.figshare.6722849.v1
title: Supplementary Material for: Rationale and Design of a Randomized Placebo-Controlled Clinical Trial Assessing the Renoprotective Effects of Potassium Supplementation in Chronic Kidney Disease

description: <b><i>Background/Aims:</i></b> Dietary potassium (K<sup>+</sup>) has beneficial effects on blood pressure and cardiovascular (CV) outcomes. Recently, several epidemiological studies have revealed an association between urinary K<sup>+</sup> excretion (as proxy for dietary intake) and better renal outcomes in subjects with chronic kidney disease (CKD). To address causality, we designed the “K<sup>+</sup> in CKD” study. <b><i>Methods:</i></b> The K<sup>+</sup> in CKD study is a multicenter, randomized, double blind, placebo-controlled clinical trial aiming to include 399 patients with hypertension, CKD stage 3b or 4 (estimated glomerular filtration rate [eGFR] 15–44 mL/min/1.73 m<sup>2</sup>), and an average eGFR decline &gt; 2 mL/min/1.73 m<sup>2</sup>/year. As safety measure, all included subjects will start with a 2-week open-label phase of 40 mmol potassium chloride daily. Patients who do not subsequently develop hyperkalemia (defined as serum K<sup>+</sup> &gt;5.5 mmol/L) will be randomized to receive potassium chloride, potassium citrate (both K<sup>+</sup> 40 mmol/day), or placebo for 2 years. The primary end point is the difference in eGFR after 2 years of treatment. Secondary end points include other renal outcomes (&gt; 30% decrease in eGFR, doubling of serum creatinine, end-stage renal disease, albuminuria), ambulatory blood pressure, CV events, all-cause mortality, and incidence of hyperkalemia. Several measurements will be performed to analyze the effects of potassium supplementation, including body composition monitoring, pulse wave velocity, plasma renin and aldosterone concentrations, urinary ammonium, and intracellular K<sup>+</sup> concentrations. <b><i>Conclusion:</i></b> The K<sup>+</sup> in the CKD study will demonstrate if K<sup>+</sup> supplementation has a renoprotective effect in progressive CKD, and whether alkali therapy has additional beneficial effects.
DOI: 10.17028/rd.lboro.6722840
title: Twitter, Instagram, Pinterest, MySpace and Second Life search frequencies between 01/01/2004 and 29/06/2018

description: Frequencies for the UK and Germany searching for the terms Twitter, Instagram, Pinterest, MySpace, and Second Life between 01/01/2004 and 29/06/2018.<br>These dates were selected as they run from the earliest date available in the Google Trends Database through to the date of the analysis 14 years later.
DOI: 10.17028/rd.lboro.6722840.v1
title: Twitter, Instagram, Pinterest, MySpace and Second Life search frequencies between 01/01/2004 and 29/06/2018

description: Frequencies for the UK and Germany searching for the terms Twitter, Instagram, Pinterest, MySpace, and Second Life between 01/01/2004 and 29/06/2018.<br>These dates were selected as they run from the earliest date available in the Google Trends Database through to the date of the analysis 14 years later.
DOI: 10.6084/m9.figshare.6722681
title: Is failure to raise concerns about misconduct a breach of integrity? Researchers’ reflections on reporting misconduct

description: This article describes and discusses the views of researchers on the significance of raising concerns about scientific misconduct in their work environment and the reasons or circumstances that might deter them from doing so. In this exploratory qualitative research study, we conducted in-depth interviews with 33 researchers working in life sciences and medicine. They represent three seniority levels and five universities across Switzerland. A large majority of respondents in this research study argued that failure to raise concerns about scientific misconduct compromises research integrity. This is an encouraging result demonstrating that researchers try to adhere to high ethical standards. However, further interaction with respondents highlighted that this correct ethical assessment does not lead researchers to take the consequent action of raising concerns. The factors that discourage researchers from raising concerns need to be addressed at the level of research groups, institutions, and by setting a positive precedent which helps them to believe in the system’s ability to investigate concerns raised in a timely and professional manner. Training of researchers in research integrity related issues will have limited utility unless it is coupled with the creation of research culture where raising concerns is a standard practice of scientific and research activities.
DOI: 10.6084/m9.figshare.6722681.v1
title: Is failure to raise concerns about misconduct a breach of integrity? Researchers’ reflections on reporting misconduct

description: This article describes and discusses the views of researchers on the significance of raising concerns about scientific misconduct in their work environment and the reasons or circumstances that might deter them from doing so. In this exploratory qualitative research study, we conducted in-depth interviews with 33 researchers working in life sciences and medicine. They represent three seniority levels and five universities across Switzerland. A large majority of respondents in this research study argued that failure to raise concerns about scientific misconduct compromises research integrity. This is an encouraging result demonstrating that researchers try to adhere to high ethical standards. However, further interaction with respondents highlighted that this correct ethical assessment does not lead researchers to take the consequent action of raising concerns. The factors that discourage researchers from raising concerns need to be addressed at the level of research groups, institutions, and by setting a positive precedent which helps them to believe in the system’s ability to investigate concerns raised in a timely and professional manner. Training of researchers in research integrity related issues will have limited utility unless it is coupled with the creation of research culture where raising concerns is a standard practice of scientific and research activities.
DOI: 10.6084/m9.figshare.6722657
title: Additional file 3: of Facultative methanotrophs are abundant at terrestrial natural gas seeps

description: Table S4. Methylocella-specific mmoX abundance. (XLSX 1606Â kb)
DOI: 10.6084/m9.figshare.6722657.v1
title: Additional file 3: of Facultative methanotrophs are abundant at terrestrial natural gas seeps

description: Table S4. Methylocella-specific mmoX abundance. (XLSX 1606Â kb)
DOI: 10.6084/m9.figshare.6722654
title: Additional file 2: of Facultative methanotrophs are abundant at terrestrial natural gas seeps

description: Table S2. Bacterial abundance assessed by 16S rRNA. (XLSX 147Â kb)
DOI: 10.6084/m9.figshare.6722654.v1
title: Additional file 2: of Facultative methanotrophs are abundant at terrestrial natural gas seeps

description: Table S2. Bacterial abundance assessed by 16S rRNA. (XLSX 147Â kb)
DOI: 10.6084/m9.figshare.6722630
title: Additional file 8: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S6. Proportion of highly biased contigs (fold changes &gt; 10× or
DOI: 10.6084/m9.figshare.6722630.v1
title: Additional file 8: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S6. Proportion of highly biased contigs (fold changes &gt; 10× or
DOI: 10.6084/m9.figshare.6722621
title: Additional file 7: of Comprehensive transcriptomic analysis of heat shock proteins in the molecular subtypes of human breast cancer

description: HSPs differential gene expression between tumour tissues. The values were determined by EdgeR ANOVA-like method performed on 20,531 genes from BRCA TCGA. Only HSPs values are showed. Each column includes log2 fold change values for all comparison, log2 mean counts per million (logCPM), F-statistic and corresponding p-values and FDR values. The conditions compared are Luminal A vs. Luminal B, Luminal A vs. HER2, Luminal A vs. Basal-like, Luminal B vs. HER2, Luminal B vs. Basal-like and HER2 vs. Basal-like. Comparison between HSP-Clusts were also considered, namely HSP-Clust I vs. HSP-Clust II, HSP-Clust I vs HSP-Clust III and HSP-Clust II vs. HSP-Clust III. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.6722621.v1
title: Additional file 7: of Comprehensive transcriptomic analysis of heat shock proteins in the molecular subtypes of human breast cancer

description: HSPs differential gene expression between tumour tissues. The values were determined by EdgeR ANOVA-like method performed on 20,531 genes from BRCA TCGA. Only HSPs values are showed. Each column includes log2 fold change values for all comparison, log2 mean counts per million (logCPM), F-statistic and corresponding p-values and FDR values. The conditions compared are Luminal A vs. Luminal B, Luminal A vs. HER2, Luminal A vs. Basal-like, Luminal B vs. HER2, Luminal B vs. Basal-like and HER2 vs. Basal-like. Comparison between HSP-Clusts were also considered, namely HSP-Clust I vs. HSP-Clust II, HSP-Clust I vs HSP-Clust III and HSP-Clust II vs. HSP-Clust III. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.6722606
title: Additional file 5: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S5. Virus enrichment and random DNA amplification effects on mock viral communities. Number of genomes determined by absolute qPCR. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6722606.v1
title: Additional file 5: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S5. Virus enrichment and random DNA amplification effects on mock viral communities. Number of genomes determined by absolute qPCR. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6722603
title: Additional file 5: of Comprehensive transcriptomic analysis of heat shock proteins in the molecular subtypes of human breast cancer

description: Differential gene expression of 20,531 genes comparing cancer tissue against normal breast tissue. The values were determined by EdgeR and DESeq2 methods; also the analysis was performed according molecular subtype classification. For better data exploration HSP genes were separated in auxiliary tables. (XLSX 22435 kb)
DOI: 10.6084/m9.figshare.6722603.v1
title: Additional file 5: of Comprehensive transcriptomic analysis of heat shock proteins in the molecular subtypes of human breast cancer

description: Differential gene expression of 20,531 genes comparing cancer tissue against normal breast tissue. The values were determined by EdgeR and DESeq2 methods; also the analysis was performed according molecular subtype classification. For better data exploration HSP genes were separated in auxiliary tables. (XLSX 22435 kb)
DOI: 10.6084/m9.figshare.6722594
title: Additional file 4: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S4. Effect of several treatments in bacteria removal. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6722594.v1
title: Additional file 4: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S4. Effect of several treatments in bacteria removal. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6722582
title: Additional file 3: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S3. Quality-filtered reads obtained by Miseq-Illumina sequencing and mapped to cross-contigs. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6722582.v1
title: Additional file 3: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S3. Quality-filtered reads obtained by Miseq-Illumina sequencing and mapped to cross-contigs. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6722573
title: Additional file 1: of Signatures of ecological processes in microbial community time series

description: Table S1. lists for each test time series the parameters used to generate it (sheet “Model parameters”) and the properties of relative abundance time series, which include noise type, autocorrelation, Hurst bin percentages, the p values of the neutrality test, and the LIMITS results (sheet “Time series properties”). In addition, it includes all these results for the first 100 time points (sheet “First 100 tp properties”), the last 100 time points (sheet “Last 100 tp properties”) and for time series with Poisson noise (sheet “Poisson time series properties”). (XLSX 158 kb)
DOI: 10.6084/m9.figshare.6722573.v1
title: Additional file 1: of Signatures of ecological processes in microbial community time series

description: Table S1. lists for each test time series the parameters used to generate it (sheet “Model parameters”) and the properties of relative abundance time series, which include noise type, autocorrelation, Hurst bin percentages, the p values of the neutrality test, and the LIMITS results (sheet “Time series properties”). In addition, it includes all these results for the first 100 time points (sheet “First 100 tp properties”), the last 100 time points (sheet “Last 100 tp properties”) and for time series with Poisson noise (sheet “Poisson time series properties”). (XLSX 158 kb)
DOI: 10.6084/m9.figshare.6722567
title: Additional file 2: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S2. Oligonucleotides used in this study. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6722567.v1
title: Additional file 2: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S2. Oligonucleotides used in this study. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6722558
title: MOESM1 of Assessing circularity interventions: a review of EEIOA-based studies

description: Additional file 1. List of reviewed publications and bibliometric analysis.
DOI: 10.6084/m9.figshare.6722558.v1
title: MOESM1 of Assessing circularity interventions: a review of EEIOA-based studies

description: Additional file 1. List of reviewed publications and bibliometric analysis.
DOI: 10.6084/m9.figshare.6722555
title: Additional file 1: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S1. Overview of samples and procedures followed for the analysis of mock communities and saliva samples. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.6722555.v1
title: Additional file 1: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S1. Overview of samples and procedures followed for the analysis of mock communities and saliva samples. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.6722549
title: Additional file 1: of Comprehensive transcriptomic analysis of heat shock proteins in the molecular subtypes of human breast cancer

description: Table S1. Clinical data of TCGA patients. The data was updated with the available follow up information (May, 2015). Table S2. Gene mean expression in breast cancer tissues. The mean expression of each gene in all cancer samples was calculated and sorted in decreasing order. Table S3. Summary of misregulated genes in BRCA. Tabulated data show the number and percentages of total genes and HSP genes presenting &gt; 2 fold-change in total samples and according to intrinsic BRCA subtypes. Table S4. Summary of PAM50 classification and immunohistochemical characteristics of tumours. (XLSX 1080 kb)
DOI: 10.6084/m9.figshare.6722549.v1
title: Additional file 1: of Comprehensive transcriptomic analysis of heat shock proteins in the molecular subtypes of human breast cancer

description: Table S1. Clinical data of TCGA patients. The data was updated with the available follow up information (May, 2015). Table S2. Gene mean expression in breast cancer tissues. The mean expression of each gene in all cancer samples was calculated and sorted in decreasing order. Table S3. Summary of misregulated genes in BRCA. Tabulated data show the number and percentages of total genes and HSP genes presenting &gt; 2 fold-change in total samples and according to intrinsic BRCA subtypes. Table S4. Summary of PAM50 classification and immunohistochemical characteristics of tumours. (XLSX 1080 kb)
DOI: 10.6084/m9.figshare.6722528
title: Additional file 13: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S9. Bray-Curtis dissimilarities among saliva viromes. Table S10. Sørensen indexes among saliva viromes. Table S11. Pearson’s correlations of normalised cross-contig abundances among nine viromes derived from the same saliva sample and four additional saliva viromes. (XLSX 200 kb)
DOI: 10.6084/m9.figshare.6722528.v1
title: Additional file 13: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S9. Bray-Curtis dissimilarities among saliva viromes. Table S10. Sørensen indexes among saliva viromes. Table S11. Pearson’s correlations of normalised cross-contig abundances among nine viromes derived from the same saliva sample and four additional saliva viromes. (XLSX 200 kb)
DOI: 10.6084/m9.figshare.6722513
title: Additional file 12: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S8. Normalized abundances (RPKMs) of 4598 cross-contigs from Unamp1-derived viromes, Unamp2, and three MDA amplified saliva viromes from different subjects. (XLSX 516 kb)
DOI: 10.6084/m9.figshare.6722513.v1
title: Additional file 12: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S8. Normalized abundances (RPKMs) of 4598 cross-contigs from Unamp1-derived viromes, Unamp2, and three MDA amplified saliva viromes from different subjects. (XLSX 516 kb)
DOI: 10.6084/m9.figshare.6722495
title: Additional file 11: of Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses

description: Table S7. Normalized abundances (RPKMs) of 2570 cross-contigs from Unamp1-derived samples. (XLSX 256 kb)