cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6736409
title: Supplementary Material for: Specifications of Computerized Provider Order Entry and Clinical Decision Support Systems for Cancer Patients Undergoing Chemotherapy: A Systematic Review

description: <b><i>Objective:</i></b> Chemotherapy medication errors are catastrophic. The prescription phase in the chemotherapy process plays a key role in the creation of medication errors, and therefore the use of computerized physician order entry (CPOE) and clinical decision support system (CDS) systems is recommended to reduce chemotherapy medication errors. The purpose of this study was to carry out a systematic review on the specifications of the CPOE and CDS systems for chemotherapy prescription. <b><i>Materials and Methods:</i></b> A systematic review on articles published in English up to September 22, 2017, using the 3 databases PubMed, Embase, and Medline was conducted. Those articles that focused on the specifications of CPOE and CDSS in chemotherapy prescription were included in this review. <b><i>Findings:</i></b> Of the 2,471 articles identified, 58 articles met the inclusion criteria and were included in this study. Specifications related to chemotherapy CPOE systems were categorized into the following 6 groups: automation and facilitation of the chemotherapy prescription phase, hospital workflow support, documentation and reporting, drug safety, information security, and system communications. The specifications of chemotherapy CDSS were also divided into 4 categories: embedding chemotherapy protocols, automated dose calculations and adjustment, providing alerts/reminders at the time of prescribing, and guiding or asking the user to complete the important prescription parameters. In 12 articles, the chemotherapy prescription CDSS were designed and evaluated independently of the CPOE; 45 articles provided prescription chemotherapy CDSS as part of the CPOE system, and in 1 article CPOE was introduced with no CDSS. <b><i>Conclusion:</i></b> In complicated settings such as chemotherapy, simplification of the processes is more imperative. The use of chemotherapy CPOE, which includes specifications for helping the medical staff with their workload, encourages the professionals to use such systems and increases the likelihood for success of these systems.
DOI: 10.6084/m9.figshare.6736409.v1
title: Supplementary Material for: Specifications of Computerized Provider Order Entry and Clinical Decision Support Systems for Cancer Patients Undergoing Chemotherapy: A Systematic Review

description: <b><i>Objective:</i></b> Chemotherapy medication errors are catastrophic. The prescription phase in the chemotherapy process plays a key role in the creation of medication errors, and therefore the use of computerized physician order entry (CPOE) and clinical decision support system (CDS) systems is recommended to reduce chemotherapy medication errors. The purpose of this study was to carry out a systematic review on the specifications of the CPOE and CDS systems for chemotherapy prescription. <b><i>Materials and Methods:</i></b> A systematic review on articles published in English up to September 22, 2017, using the 3 databases PubMed, Embase, and Medline was conducted. Those articles that focused on the specifications of CPOE and CDSS in chemotherapy prescription were included in this review. <b><i>Findings:</i></b> Of the 2,471 articles identified, 58 articles met the inclusion criteria and were included in this study. Specifications related to chemotherapy CPOE systems were categorized into the following 6 groups: automation and facilitation of the chemotherapy prescription phase, hospital workflow support, documentation and reporting, drug safety, information security, and system communications. The specifications of chemotherapy CDSS were also divided into 4 categories: embedding chemotherapy protocols, automated dose calculations and adjustment, providing alerts/reminders at the time of prescribing, and guiding or asking the user to complete the important prescription parameters. In 12 articles, the chemotherapy prescription CDSS were designed and evaluated independently of the CPOE; 45 articles provided prescription chemotherapy CDSS as part of the CPOE system, and in 1 article CPOE was introduced with no CDSS. <b><i>Conclusion:</i></b> In complicated settings such as chemotherapy, simplification of the processes is more imperative. The use of chemotherapy CPOE, which includes specifications for helping the medical staff with their workload, encourages the professionals to use such systems and increases the likelihood for success of these systems.
DOI: 10.6084/m9.figshare.6736331.v1
title: The subset of patients with acute heart failure able to secrete relaxin-2 at pregnancy concentrations could have a longer survival: a pilot study

description: <b>Objective:</b> To investigate how many patients with acute heart failure (AHF) hypersecrete relaxin-2 concentrations similar to those of pregnant women and determine their long-term outcome. <b>Methods:</b> In consecutive AHF patients relaxin-2 was quantified by ELISA sandwich method. Patients were divided into pregnancy-like group (PLG, relaxin-2 ≥ 500 pg/mL) and control group (CG, relaxin-2 10 days), combined endpoint (death, rehospitalisation, ED revisit) 30 days after discharge, and 30-day, one-year and three-year death rates. <b>Results</b>: We included 814 patients [81 (SD = 9) years; 53.0% women] followed during 1.9 (SD 2.8) years; 517 (63.5%) died. Twenty patients (2.5%) formed the PLG (median relaxin-2 = 1459 pg/mL; IQR = 1722) and 794 the CG (median = 26; IQR = 44). There was no interaction with variables included on adjustment (age, sex, ischaemic cardiomyopathy, NT-proBNP, glycaemia, and sodium). PLG patients did not have better short-term secondary endpoints, but did show a significantly lower three-year mortality [OR<sub>adjusted</sub> = 0.17 (0.05–0.5), <i>p</i> = 0.003]. <b>Conclusions:</b> The small proportion of AHF patients achieving relaxin-2 concentrations similar to those observed in pregnancy may survive longer.
DOI: 10.6084/m9.figshare.6736313
title: Streptococcus pyogenes Causing Skin and Soft Tissue Infections Are Enriched in the Recently Emerged emm89 Clade 3 and Are Not Associated with Abrogation of CovRS - Dataset 1

description: Isolation source, antimicrobial resistance, emm type, emm cluster, sequence type, superantigen gene profile, presence of hasABC locus, SpeB activity, and covRS and ropB sequence data of 320 Streptococcus pyogenes isolated from skin and soft tissue infections in Portugal during 2003-2009.
DOI: 10.6084/m9.figshare.6736316
title: Supplementary Material for: Is Human Sebum the Source of Skin Follicular Ultraviolet-Induced Red Fluorescence? A Cellular to Histological Study

description: <b><i>Background:</i></b> The ultraviolet-induced red fluorescence (UVRF) from human skin follicles was suggested to be a result of <i>Propionibacterium acnes</i> and was used for the monitoring of acne. More recent studies suggested that the UVRF may be more related to sebum rather than to microorganisms. <b><i>Objective:</i></b> To clarify whether human sebum or follicular microorganisms are the source of UVRF. <b><i>Methods:</i></b> We examined the fluorescence of human-derived SZ95 sebocytes, human sebaceous glands, sebum extracted from the sebaceous glands, and bacteria isolated from human hair follicles under ultraviolet light. <b><i>Results:</i></b> SZ95 sebocytes, human sebaceous glands, and sebum do not emit UVRF. Two types of UVRF peaking at about 635 nm and at about 620 nm were detected in <i>P. acnes</i> and <i>Staphylococcus epidermidis</i>, respectively. This is the first report that <i>S. epidermidis</i> emits UVRF when it is anaerobically cultured and then exposed to air. <b><i>Conclusion:</i></b> Human follicular UVRF is emitted by resident bacteria, not by sebum. Therefore, UVRF may be used to monitor certain species of skin microorganisms.
DOI: 10.6084/m9.figshare.6736316.v1
title: Supplementary Material for: Is Human Sebum the Source of Skin Follicular Ultraviolet-Induced Red Fluorescence? A Cellular to Histological Study

description: <b><i>Background:</i></b> The ultraviolet-induced red fluorescence (UVRF) from human skin follicles was suggested to be a result of <i>Propionibacterium acnes</i> and was used for the monitoring of acne. More recent studies suggested that the UVRF may be more related to sebum rather than to microorganisms. <b><i>Objective:</i></b> To clarify whether human sebum or follicular microorganisms are the source of UVRF. <b><i>Methods:</i></b> We examined the fluorescence of human-derived SZ95 sebocytes, human sebaceous glands, sebum extracted from the sebaceous glands, and bacteria isolated from human hair follicles under ultraviolet light. <b><i>Results:</i></b> SZ95 sebocytes, human sebaceous glands, and sebum do not emit UVRF. Two types of UVRF peaking at about 635 nm and at about 620 nm were detected in <i>P. acnes</i> and <i>Staphylococcus epidermidis</i>, respectively. This is the first report that <i>S. epidermidis</i> emits UVRF when it is anaerobically cultured and then exposed to air. <b><i>Conclusion:</i></b> Human follicular UVRF is emitted by resident bacteria, not by sebum. Therefore, UVRF may be used to monitor certain species of skin microorganisms.
DOI: 10.6084/m9.figshare.6736286
title: Supplementary Material for: Host MICA Polymorphism as a Potential Predictive Marker in Response to Chemotherapy for Colorectal Liver Metastases

description: <b><i>Background:</i></b> Understanding the genetic background of a tumor is important to better stratify patient prognosis and select optimal treatment. For colorectal liver metastases (CLM), however, clinically available biomarkers remain limited. <b><i>Methods:</i></b> After a comprehensive sequencing of 578 cancer-related genes in 10 patients exhibiting very good/poor responses to chemotherapy, the A5.1 variant of the <i>MICA</i> gene was selected as a potential biomarker for CLM. The clinical relevance of <i>MICA</i> A5.1 was then investigated in 58 patients who underwent CLM resection after chemotherapy. <b><i>Results:</i></b> The A5.1 variant was observed in 16 (27.6%) patients examined using direct DNA sequencing, and a very high concordance rate (56/58, 96.6%) for the <i>MICA</i> variant was confirmed between tumor tissues and normal liver parenchyma. A multivariate analysis of 38 patients with no history of treatment with anti-EGFR antibodies confirmed that <i>MICA</i> A5.1 was significantly correlated with an optimal CT morphologic response (OR 11.67; 95% CI 2.08–65.60; <i>p</i> = 0.005) and tended to be correlated with a tumor viability of &lt; 20% after chemotherapy (OR 5.91; 95% CI 0.97–36.02; <i>p</i> = 0.054). <i>MICA</i> A5.1 was also associated with a decreased risk of progression after CLM resection. <b><i>Conclusion:</i></b> The <i>MICA</i> A5.1 polymorphism was associated with a better CT morphologic response to chemotherapy and a reduced risk of relapse after CLM resection. Given the high concordance rate in <i>MICA</i> variants between normal liver tissue and CLM, the genetic background of the host could be a new biomarker for CLM.
DOI: 10.6084/m9.figshare.6736313.v1
title: Streptococcus pyogenes Causing Skin and Soft Tissue Infections Have Increased Prevalence of the Recently Emerged emm89 Clade 3 and Are Not Associated with Abrogation of CovRS - Dataset

description: Isolation source, antimicrobial resistance, emm type, emm cluster, sequence type, superantigen gene profile, SpeB activity, and covRS and ropB sequence data of 320 Streptococcus pyogenes isolated from skin and soft tissue infections in Portugal during 2003-2009.
DOI: 10.6084/m9.figshare.6736232
title: Feature Matrix for Development of Models for Estimating the Likelihood of PCR Amplification

description: This data set contains pairs of primers and immunoglobulin heavy chain variable sequences with annotated experimental amplification status according to gel electrophoresis. The data set tabulates the features (e.g. annealing temperature, mismatches) that determine whether a primer leads to the successful amplification of a template.
DOI: 10.6084/m9.figshare.6736313.v2
title: Streptococcus pyogenes Causing Skin and Soft Tissue Infections Are Enriched in the Recently Emerged emm89 Clade 3 and Are Not Associated with Abrogation of CovRS - Dataset

description: Isolation source, antimicrobial resistance, emm type, emm cluster, sequence type, superantigen gene profile, presence of hasABC locus, SpeB activity, and covRS and ropB sequence data of 320 Streptococcus pyogenes isolated from skin and soft tissue infections in Portugal during 2003-2009.
DOI: 10.6084/m9.figshare.6736199
title: Supplementary Material for: Executive Impairments in Binge Drinking: Evidence for a Specific Performance-Monitoring Difficulty during Alcohol-Related Processing

description: This study evaluated inhibition and performance-monitoring abilities through the explicit processing of alcohol cues. Twenty-two binge drinkers (BD) and 22 control participants performed a speeded Go/No-Go task using pictures of alcohol and soft cans as Go and No-Go targets. This task measures inhibitory control and performance monitoring (i.e., task adjustment through errors and feedback processing) during the explicit processing of alcohol cues. Groups did not significantly differ regarding inhibition abilities. However, BD had poorer performance-monitoring abilities, reflected by a difficulty to adjust after errors, especially when these errors were related to alcohol cues. These findings suggest that the explicit processing of alcohol cues negatively impacts cognitive abilities among BD.
DOI: 10.6084/m9.figshare.6736199.v1
title: Supplementary Material for: Executive Impairments in Binge Drinking: Evidence for a Specific Performance-Monitoring Difficulty during Alcohol-Related Processing

description: This study evaluated inhibition and performance-monitoring abilities through the explicit processing of alcohol cues. Twenty-two binge drinkers (BD) and 22 control participants performed a speeded Go/No-Go task using pictures of alcohol and soft cans as Go and No-Go targets. This task measures inhibitory control and performance monitoring (i.e., task adjustment through errors and feedback processing) during the explicit processing of alcohol cues. Groups did not significantly differ regarding inhibition abilities. However, BD had poorer performance-monitoring abilities, reflected by a difficulty to adjust after errors, especially when these errors were related to alcohol cues. These findings suggest that the explicit processing of alcohol cues negatively impacts cognitive abilities among BD.
DOI: 10.6084/m9.figshare.6736313.v4
title: Streptococcus pyogenes Causing Skin and Soft Tissue Infections Are Enriched in the Recently Emerged emm89 Clade 3 and Are Not Associated with Abrogation of CovRS - Dataset 1

description: Isolation source, antimicrobial resistance, emm type, emm cluster, sequence type, superantigen gene profile, presence of hasABC locus, SpeB activity, and covRS and ropB sequence data of 320 Streptococcus pyogenes isolated from skin and soft tissue infections in Portugal during 2003-2009.
DOI: 10.6084/m9.figshare.6736313.v3
title: Streptococcus pyogenes Causing Skin and Soft Tissue Infections Are Enriched in the Recently Emerged emm89 Clade 3 and Are Not Associated with Abrogation of CovRS - Dataset 1

description: Isolation source, antimicrobial resistance, emm type, emm cluster, sequence type, superantigen gene profile, presence of hasABC locus, SpeB activity, and covRS and ropB sequence data of 320 Streptococcus pyogenes isolated from skin and soft tissue infections in Portugal during 2003-2009.
DOI: 10.6084/m9.figshare.6736175
title: PCR Results for Immunogloublin Heavy Chain Variable Sequences

description: This data set indicates the amplification status for pairs of primers and immunoglobulin heavy chain variable sequences. CSV files were generated on the basis of raw gel electrophoresis data (XLS file). In the files, cells with an entry of "1" indicate that a template was amplified by the corresponding primer, while a "0" indicates that this was not the case. Measurements were performed in triplicates. Two primer sets were used. Files containing "Tiller" represent primers from Set2, while file containing "Opt" represent primers from set 1. For each primer set, there are five files. Each file represent the labeling of the gel electrophoresis bands by a single person.
DOI: 10.6084/m9.figshare.6736169
title: Configure iTerm to open chromosome positions in the UCSC Genome Browser

description: How to configure the iTerm2 terminal emulator to open a chromosome position in the UCSC Genome Browser
DOI: 10.6084/m9.figshare.6736154
title: The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria - Supplementary Material and Datafiles

description: Supplementary material and data file accompanying the article - The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria- by Uche Eseosa Ekhator and Abraham Abebe Asfaw.
DOI: 10.6084/m9.figshare.6736148
title: Supplementary of the effect of liver enzymes on adiposity: a Mendelian randomization study

description: <b>Legends for Supplemental Tables:</b> Supplemental Table 1. Baseline characteristics of the participants who were included (n=3,458) and excluded (n=4,869) in the analyses of the Hong Kong’s “Children of 1997” birth cohort, Hong Kong, China, 1997 to 2016 Supplemental Table 2. Characteristics of palindromic single nucleotide polymorphisms (SNPs) in the exposure and outcome genome-wide association studies (GWAS). Supplemental Table 3. Characteristics of unequivocally aligned single nucleotide polymorphisms (SNPs) in the exposure and outcome genome-wide association study (GWAS). Supplemental Table 4. Single nucleotide polymorphisms (SNPs) with potential pleiotropic effects other than via the specific liver enzyme from Ensembl and from GWAS Catalog <br>
DOI: 10.6084/m9.figshare.6736154.v1
title: The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria - Supplementary Material and Datafiles

description: Supplementary material and data file accompanying the article - The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria- by Uche Eseosa Ekhator and Abraham Abebe Asfaw.
DOI: 10.6084/m9.figshare.6736148.v2
title: Supplementary of the effect of liver enzymes on adiposity: a Mendelian randomization study

description: <b>Legends for Supplemental Tables:</b> Supplemental Table 1. Baseline characteristics of the participants who were included (n=3,458) and excluded (n=4,869) in the analyses of the Hong Kong’s “Children of 1997” birth cohort, Hong Kong, China, 1997 to 2016 Supplemental Table 2. Characteristics of palindromic single nucleotide polymorphisms (SNPs) in the exposure and outcome genome-wide association studies (GWAS). Supplemental Table 3. Characteristics of unequivocally aligned single nucleotide polymorphisms (SNPs) in the exposure and outcome genome-wide association study (GWAS). Supplemental Table 4. Single nucleotide polymorphisms (SNPs) with potential pleiotropic effects other than via the specific liver enzyme from Ensembl and from GWAS Catalog <br>
DOI: 10.6084/m9.figshare.6736154.v3
title: The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria - Supplementary Material and Datafiles

description: Supplementary material and data file accompanying the article - The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria- by Uche Eseosa Ekhator and Abraham Abebe Asfaw.
DOI: 10.6084/m9.figshare.6736148.v1
title: Supplementary of the effect of liver enzymes on adiposity: a Mendelian randomization study

description: <b>Legends for Supplemental Tables:</b> Supplemental Table 1. Baseline characteristics of the participants who were included (n=3,458) and excluded (n=4,869) in the analyses of the Hong Kong’s “Children of 1997” birth cohort, Hong Kong, China, 1997 to 2016 Supplemental Table 2. Characteristics of palindromic single nucleotide polymorphisms (SNPs) in the exposure and outcome genome-wide association studies (GWAS). Supplemental Table 3. Characteristics of unequivocally aligned single nucleotide polymorphisms (SNPs) in the exposure and outcome genome-wide association study (GWAS). Supplemental Table 4. Single nucleotide polymorphisms (SNPs) with potential pleiotropic effects other than via the specific liver enzyme from Ensembl and from GWAS Catalog <br>
DOI: 10.6084/m9.figshare.6736154.v2
title: The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria - Supplementary Material and Datafiles

description: Supplementary material and data file accompanying the article - The Child Health Effects of Terrorism: Evidence from the Boko Haram Insurgency in Nigeria- by Uche Eseosa Ekhator and Abraham Abebe Asfaw.
DOI: 10.6084/m9.figshare.6736139
title: Automatic Test Smell Detection using Information Retrieval Techniques

description: Software testing is a key activity to control the reliability of production code. Unfortunately, the effectiveness of test cases can be threatened by the presence of faults. Recent work showed that static indicators can be exploited to identify test-related issues. In particular test smells, i.e., sub-optimal design choices applied by developers when implementing test cases, have been shown to be related to test case effectiveness. While some approaches for the automatic detection of test smells have been proposed so far, they generally suffer of poor performance: as a consequence, current detectors cannot properly provide support to developers when diagnosing the quality of test cases. In this paper, we aim at making a step ahead toward the automated detection of test smells by devising a novel textual-based detector, coined TASTE (Textual AnalySis for Test smEll detection), with the aim of evaluating the usefulness of textual analysis for detecting three test smell types, General Fixture, Eager Test, and Lack of Cohesion of Methods. We evaluate TASTE in an empirical study that involves a manually-built dataset composed of 494 test smell instances belonging to 12 software projects, comparing the capabilities of our detector with those of two code metrics-based techniques proposed by Van Rompaey et al. and Greiler et al.Our results show that the structural-based detection applied by existing approaches cannot identify most of the test smells in our dataset, while TASTE is up to 44% more effective. Finally, we find that textual and structural approaches can identify different sets of test smells, thereby indicating complementarity.
DOI: 10.6084/m9.figshare.6736145.v1
title: HCC with chinese herbs_original data.xlsx

description: The data about the treatment of HCC with chinese herbs.