cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.10075373.v1
title: company_revenue_TRAIN.csv

description: Company revenue data for RAMP challenge: https://github.com/ramp-kits/fan_revenue_prediction<br>
DOI: 10.6084/m9.figshare.10075406.v2
title: Refactoring Community Smells in the Wild: The Practitioner’s Field Manual - Replication Package

description: Community smells have been defined as sub-optimal organizational structures that may lead to social debt. Previous studies have shown that they are highly diffused in both open- and closed-source projects, are perceived as harmful by practitioners, and can even lead to the introduction of technical debt in source code. Despite the presence of this body of research, little is known on the practitioners' perceived prominence of community smells in practice as well as on the strategies adopted to deal with them. This paper aims at bridging this gap by proposing an empirical study in which 76 software practitioners are inquired on (i) the prominence of four well-known community smells, i.e., Organizational Silo, Black Cloud, Lone Wolf, and Radio Silence, in their contexts and ii) the methods they adopted to ``refactor'' them. Our results first reveal that community smells frequently manifest themselves in software projects and, more importantly, there exist specific refactoring practices to deal with each of the considered community smells.<br>
DOI: 10.6084/m9.figshare.10075355
title: Metadata record for: A calibrated database of kinematics and EMG of the forearm and hand during activities of daily living

description: This dataset contains key characteristics about the data described in the Data Descriptor A calibrated database of kinematics and EMG of the forearm and hand during activities of daily living. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format<br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.10075367.v1
title: award_notices_RAMP.csv

description: For RAMP challenge: https://github.com/ramp-kits/fan_revenue_prediction<br>
DOI: 10.6084/m9.figshare.10075370.v1
title: company_revenue_TEST.csv

description: RAMP challenge: https://github.com/ramp-kits/fan_revenue_prediction<br>
DOI: 10.6084/m9.figshare.10075406.v3
title: Refactoring Community Smells in the Wild: The Practitioner’s Field Manual - Replication Package

description: Community smells have been defined as sub-optimal organizational structures that may lead to social debt. Previous studies have shown that they are highly diffused in both open- and closed-source projects, are perceived as harmful by practitioners, and can even lead to the introduction of technical debt in source code. Despite the presence of this body of research, little is known on the practitioners' perceived prominence of community smells in practice as well as on the strategies adopted to deal with them. This paper aims at bridging this gap by proposing an empirical study in which 76 software practitioners are inquired on (i) the prominence of four well-known community smells, i.e., Organizational Silo, Black Cloud, Lone Wolf, and Radio Silence, in their contexts and ii) the methods they adopted to ``refactor'' them. Our results first reveal that community smells frequently manifest themselves in software projects and, more importantly, there exist specific refactoring practices to deal with each of the considered community smells.<br>
DOI: 10.6084/m9.figshare.10075355.v2
title: Metadata record for: A calibrated database of kinematics and EMG of the forearm and hand during activities of daily living

description: This dataset contains key characteristics about the data described in the Data Descriptor A calibrated database of kinematics and EMG of the forearm and hand during activities of daily living. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format<br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.10075367.v2
title: award_notices_RAMP.csv

description: For RAMP challenge: https://github.com/ramp-kits/fan_revenue_prediction<br>
DOI: 10.6084/m9.figshare.10075355.v1
title: Metadata record for: A calibrated database of kinematics and EMG of the forearm and hand during activities of daily living

description: This dataset contains key characteristics about the data described in the Data Descriptor A calibrated database of kinematics and EMG of the forearm and hand during activities of daily living. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.10075367.v4
title: award_notices_RAMP.csv

description: For RAMP challenge: https://github.com/ramp-kits/fan_revenue_prediction<br>
DOI: 10.6084/m9.figshare.10075367.v3
title: award_notices_RAMP.csv

description: For RAMP challenge: https://github.com/ramp-kits/fan_revenue_prediction<br>
DOI: 10.6084/m9.figshare.10075406.v4
title: Refactoring Community Smells in the Wild: The Practitioner’s Field Manual - Replication Package

description: Community smells have been defined as sub-optimal organizational structures that may lead to social debt. Previous studies have shown that they are highly diffused in both open- and closed-source projects, are perceived as harmful by practitioners, and can even lead to the introduction of technical debt in source code. Despite the presence of this body of research, little is known on the practitioners' perceived prominence of community smells in practice as well as on the strategies adopted to deal with them. This paper aims at bridging this gap by proposing an empirical study in which 76 software practitioners are inquired on (i) the prominence of four well-known community smells, i.e., Organizational Silo, Black Cloud, Lone Wolf, and Radio Silence, in their contexts and ii) the methods they adopted to ``refactor'' them. Our results first reveal that community smells frequently manifest themselves in software projects and, more importantly, there exist specific refactoring practices to deal with each of the considered community smells.<br>
DOI: 10.6084/m9.figshare.10075406.v5
title: Refactoring Community Smells in the Wild: The Practitioner’s Field Manual - Replication Package

description: Community smells have been defined as sub-optimal organizational structures that may lead to social debt. Previous studies have shown that they are highly diffused in both open- and closed-source projects, are perceived as harmful by practitioners, and can even lead to the introduction of technical debt in source code. Despite the presence of this body of research, little is known on the practitioners' perceived prominence of community smells in practice as well as on the strategies adopted to deal with them. This paper aims at bridging this gap by proposing an empirical study in which 76 software practitioners are inquired on (i) the prominence of four well-known community smells, i.e., Organizational Silo, Black Cloud, Lone Wolf, and Radio Silence, in their contexts and ii) the methods they adopted to ``refactor'' them. Our results first reveal that community smells frequently manifest themselves in software projects and, more importantly, there exist specific refactoring practices to deal with each of the considered community smells.<br>
DOI: 10.6084/m9.figshare.10075235
title: Supplementary Material for: Design and Baseline Characteristics of the Finerenone in Reducing Cardiovascular Mortality and Morbidity in Diabetic Kidney Disease Trial

description: <b><i>Background:</i></b> Among people with diabetes, those with kidney disease have exceptionally high rates of cardiovascular (CV) morbidity and mortality and progression of their underlying kidney disease. Finerenone is a novel, nonsteroidal, selective mineralocorticoid receptor antagonist that has shown to reduce albuminuria in type 2 diabetes (T2D) patients with chronic kidney disease (CKD) while revealing only a low risk of hyperkalemia. However, the effect of finerenone on CV and renal outcomes has not yet been investigated in long-term trials. <b><i>Patients and</i></b> <b><i>Methods:</i></b> The Finerenone in Reducing CV Mortality and Morbidity in Diabetic Kidney Disease (FIGARO-DKD) trial aims to assess the efficacy and safety of finerenone compared to placebo at reducing clinically important CV and renal outcomes in T2D patients with CKD. FIGARO-DKD is a randomized, double-blind, placebo-controlled, parallel-group, event-driven trial running in 47 countries with an expected duration of approximately 6 years. FIGARO-DKD randomized 7,437 patients with an estimated glomerular filtration rate ≥25 mL/min/1.73 m<sup>2</sup> and albuminuria (urinary albumin-to-creatinine ratio ≥30 to ≤5,000 mg/g). The study has at least 90% power to detect a 20% reduction in the risk of the primary outcome (overall two-sided significance level α = 0.05), the composite of time to first occurrence of CV death, nonfatal myocardial infarction, nonfatal stroke, or hospitalization for heart failure. <b><i>Conclusions:</i></b> FIGARO-DKD will determine whether an optimally treated cohort of T2D patients with CKD at high risk of CV and renal events will experience cardiorenal benefits with the addition of finerenone to their treatment regimen. Trial Registration: EudraCT number: 2015-000950-39; ClinicalTrials.gov identifier: NCT02545049.
DOI: 10.6084/m9.figshare.10075205
title: Suppllementary data 1. Fasta file of picoplankton OTUs for V4

description: Fasta file of picoplankton OTUs for V4
DOI: 10.6084/m9.figshare.10075205.v1
title: Suppllementary data 1. Fasta file of picoplankton OTUs for V4

description: Fasta file of picoplankton OTUs for V4
DOI: 10.6084/m9.figshare.10075235.v1
title: Supplementary Material for: Design and Baseline Characteristics of the Finerenone in Reducing Cardiovascular Mortality and Morbidity in Diabetic Kidney Disease Trial

description: <b><i>Background:</i></b> Among people with diabetes, those with kidney disease have exceptionally high rates of cardiovascular (CV) morbidity and mortality and progression of their underlying kidney disease. Finerenone is a novel, nonsteroidal, selective mineralocorticoid receptor antagonist that has shown to reduce albuminuria in type 2 diabetes (T2D) patients with chronic kidney disease (CKD) while revealing only a low risk of hyperkalemia. However, the effect of finerenone on CV and renal outcomes has not yet been investigated in long-term trials. <b><i>Patients and</i></b> <b><i>Methods:</i></b> The Finerenone in Reducing CV Mortality and Morbidity in Diabetic Kidney Disease (FIGARO-DKD) trial aims to assess the efficacy and safety of finerenone compared to placebo at reducing clinically important CV and renal outcomes in T2D patients with CKD. FIGARO-DKD is a randomized, double-blind, placebo-controlled, parallel-group, event-driven trial running in 47 countries with an expected duration of approximately 6 years. FIGARO-DKD randomized 7,437 patients with an estimated glomerular filtration rate ≥25 mL/min/1.73 m<sup>2</sup> and albuminuria (urinary albumin-to-creatinine ratio ≥30 to ≤5,000 mg/g). The study has at least 90% power to detect a 20% reduction in the risk of the primary outcome (overall two-sided significance level α = 0.05), the composite of time to first occurrence of CV death, nonfatal myocardial infarction, nonfatal stroke, or hospitalization for heart failure. <b><i>Conclusions:</i></b> FIGARO-DKD will determine whether an optimally treated cohort of T2D patients with CKD at high risk of CV and renal events will experience cardiorenal benefits with the addition of finerenone to their treatment regimen. Trial Registration: EudraCT number: 2015-000950-39; ClinicalTrials.gov identifier: NCT02545049.
DOI: 10.6084/m9.figshare.10075001
title: Data for De novo Comparative Transcriptome Analysis of Genes Differentially Expressed in the Scion of Homografted and Heterografted Tomato Seedlings

description: This data record contains a single .xml file holding annotation data, analysis results and primer sequences for comparitive transcriptome analysis of homografted and heterografted tomato seedlings. The data tables correspond to supplementary tables 1-4 in the related research publication.<br>The data file can be accessed via MS Excel, or openly available spreadsheet or notepad software.<br>The related study investigates potential molecular mechanisms involved in plant grafting using genetic approaches, in particular underlying mechanisms implicated in the regulation of development and stress responses at the whole-plant level. The investigation employs transcriptome analysis of grafted plants to reveal specific genes involved in the regulation of grafting-induced physiological responses. Transcriptome results are validated using quantitative real-time PCR (qPCR) analysis.<br>The study provides a foundation for the elucidation of the differentially expressed genes (DEGs) in the scion of hetero- and homografted seedlings. Grafting is significant in vegetable production to enhance plant vigour through the avoidance of soil pathogens and the increased tolerance to low temperature, high salinity, and drought.<br>The data files contains the following elements:<br><b>Supplementary Table S1.</b> The DEGs and functional annotation detected between hetero- and homografted tomato seedlings. Including: gene names, fold changes, biotypes and other annotations.<b>Supplementary Table S2. </b>KEGG pathway enrichment analysis detected between hetero- and homografted tomato seedlings. Including: athway name, mapping and gene counts.<br><b>Supplementary Table S3. </b>Familial classification of transcription factors differentially expressed in the scion of heterografted tomato seedlings, Including: Gene name, References sepcies, family and reference gene introduction.<br><b>Supplementary table S4. </b>Quantitative real-time PCR (RT-qPCR) validated primer sequences for selected differentially expressed genes detected between hetero- and homografted tomato seedlings.<br><br>Raw FASTQ files were deposited in the NCBI Sequence Read Archive under the accession number SUB5937299<br>
DOI: 10.6084/m9.figshare.10075235.v2
title: Supplementary Material for: Design and Baseline Characteristics of the Finerenone in Reducing Cardiovascular Mortality and Morbidity in Diabetic Kidney Disease Trial

description: <b><i>Background:</i></b> Among people with diabetes, those with kidney disease have exceptionally high rates of cardiovascular (CV) morbidity and mortality and progression of their underlying kidney disease. Finerenone is a novel, nonsteroidal, selective mineralocorticoid receptor antagonist that has shown to reduce albuminuria in type 2 diabetes (T2D) patients with chronic kidney disease (CKD) while revealing only a low risk of hyperkalemia. However, the effect of finerenone on CV and renal outcomes has not yet been investigated in long-term trials. <b><i>Patients and</i></b> <b><i>Methods:</i></b> The Finerenone in Reducing CV Mortality and Morbidity in Diabetic Kidney Disease (FIGARO-DKD) trial aims to assess the efficacy and safety of finerenone compared to placebo at reducing clinically important CV and renal outcomes in T2D patients with CKD. FIGARO-DKD is a randomized, double-blind, placebo-controlled, parallel-group, event-driven trial running in 47 countries with an expected duration of approximately 6 years. FIGARO-DKD randomized 7,437 patients with an estimated glomerular filtration rate ≥25 mL/min/1.73 m<sup>2</sup> and albuminuria (urinary albumin-to-creatinine ratio ≥30 to ≤5,000 mg/g). The study has at least 90% power to detect a 20% reduction in the risk of the primary outcome (overall two-sided significance level α = 0.05), the composite of time to first occurrence of CV death, nonfatal myocardial infarction, nonfatal stroke, or hospitalization for heart failure. <b><i>Conclusions:</i></b> FIGARO-DKD will determine whether an optimally treated cohort of T2D patients with CKD at high risk of CV and renal events will experience cardiorenal benefits with the addition of finerenone to their treatment regimen. Trial Registration: EudraCT number: 2015-000950-39; ClinicalTrials.gov identifier: NCT02545049.
DOI: 10.6084/m9.figshare.10074902
title: Heterogeneous antimicrobial activity in broncho-alveolar aspirates from mechanically ventilated intensive care unit patients

description: Pneumonia is an infection of the lungs, where the alveoli in the affected area are filled with pus and fluid. Although ventilated patients are at risk, not all ventilated patients develop pneumonia. This suggests that the sputum environment may possess antimicrobial activities. Despite the generally acknowledged importance of antimicrobial activity in protecting the human lung against infections, this has not been systematically assessed to date. Therefore, the objective of the present study was to measure antimicrobial activity in broncho-alveolar aspirate (‘sputum”) samples from patients in an intensive care unit (ICU) and to correlate the detected antimicrobial activity with antibiotic levels, the sputum microbiome, and the respective patients’ characteristics. To this end, clinical metadata and sputum were collected from 53 mechanically ventilated ICU patients. The antimicrobial activity of sputum samples was tested against <i>Streptococcus pneumoniae, Staphylococcus aureus</i> and <i>Streptococcus anginosus</i>. Here we show that sputa collected from different patients presented a high degree of variation in antimicrobial activity, which can be partially attributed to antibiotic therapy. The sputum microbiome, although potentially capable of producing antimicrobial agents, seemed to contribute in a minor way, if any, to the antimicrobial activity of sputum. Remarkably, despite its potentially protective effect, the level of antimicrobial activity in the investigated sputa correlated inversely with patient outcome, most likely because disease severity outweighed the beneficial antimicrobial activities.
DOI: 10.6084/m9.figshare.10075001.v1
title: Data for De novo Comparative Transcriptome Analysis of Genes Differentially Expressed in the Scion of Homografted and Heterografted Tomato Seedlings

description: This data record contains a single .xml file holding annotation data, analysis results and primer sequences for comparitive transcriptome analysis of homografted and heterografted tomato seedlings. The data tables correspond to supplementary tables 1-4 in the related research publication.<br>The data file can be accessed via MS Excel, or openly available spreadsheet or notepad software.<br>The related study investigates potential molecular mechanisms involved in plant grafting using genetic approaches, in particular underlying mechanisms implicated in the regulation of development and stress responses at the whole-plant level. The investigation employs transcriptome analysis of grafted plants to reveal specific genes involved in the regulation of grafting-induced physiological responses. Transcriptome results are validated using quantitative real-time PCR (qPCR) analysis.<br>The study provides a foundation for the elucidation of the differentially expressed genes (DEGs) in the scion of hetero- and homografted seedlings. Grafting is significant in vegetable production to enhance plant vigour through the avoidance of soil pathogens and the increased tolerance to low temperature, high salinity, and drought.<br>The data files contains the following elements:<br><b>Supplementary Table S1.</b> The DEGs and functional annotation detected between hetero- and homografted tomato seedlings. Including: gene names, fold changes, biotypes and other annotations.<b>Supplementary Table S2. </b>KEGG pathway enrichment analysis detected between hetero- and homografted tomato seedlings. Including: athway name, mapping and gene counts.<br><b>Supplementary Table S3. </b>Familial classification of transcription factors differentially expressed in the scion of heterografted tomato seedlings, Including: Gene name, References sepcies, family and reference gene introduction.<br><b>Supplementary table S4. </b>Quantitative real-time PCR (RT-qPCR) validated primer sequences for selected differentially expressed genes detected between hetero- and homografted tomato seedlings.<br><br>Raw FASTQ files were deposited in the NCBI Sequence Read Archive under the accession number SUB5937299<br>
DOI: 10.6084/m9.figshare.10074902.v1
title: Heterogeneous antimicrobial activity in broncho-alveolar aspirates from mechanically ventilated intensive care unit patients

description: Pneumonia is an infection of the lungs, where the alveoli in the affected area are filled with pus and fluid. Although ventilated patients are at risk, not all ventilated patients develop pneumonia. This suggests that the sputum environment may possess antimicrobial activities. Despite the generally acknowledged importance of antimicrobial activity in protecting the human lung against infections, this has not been systematically assessed to date. Therefore, the objective of the present study was to measure antimicrobial activity in broncho-alveolar aspirate (‘sputum”) samples from patients in an intensive care unit (ICU) and to correlate the detected antimicrobial activity with antibiotic levels, the sputum microbiome, and the respective patients’ characteristics. To this end, clinical metadata and sputum were collected from 53 mechanically ventilated ICU patients. The antimicrobial activity of sputum samples was tested against <i>Streptococcus pneumoniae, Staphylococcus aureus</i> and <i>Streptococcus anginosus</i>. Here we show that sputa collected from different patients presented a high degree of variation in antimicrobial activity, which can be partially attributed to antibiotic therapy. The sputum microbiome, although potentially capable of producing antimicrobial agents, seemed to contribute in a minor way, if any, to the antimicrobial activity of sputum. Remarkably, despite its potentially protective effect, the level of antimicrobial activity in the investigated sputa correlated inversely with patient outcome, most likely because disease severity outweighed the beneficial antimicrobial activities.