cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1604827.v8
title: Semi-supervised Multi-View Learning for Gene Network Reconstruction

description: Semi-supervised Multi-View Learning for Gene Network Reconstruction SynTReN Data: E.coli and Yeast sub-networks, generated expression data and gold standards (Input_Datasets.zip) Interactions predicted by base methods (Base_Method_Predictions.zip) Interactions predicted by our approach - Clustering performed with PCA (Predictions.zip) Interactions predicted by our approach - Clustering performed with K-means (PredictionsK.zip) Dream5 Data: Expression data and gold standards provided by Marbach et al. 2012 [1] (Input_Datasets_D5.zip) Interactions predicted by the considered DREAM5 base methods provided by Marbach et al. 2012 [1] (Base_Method_Predictions_D5.zip) Interactions predicted by our approach - Clustering performed with PCA (Predictions_D5.zip) Interactions predicted by our approach - Clustering performed with K-means (PredictionsK_D5.zip) <em>[1] Marbach, D., Costello, J. C., Kuffner, R., Vega, N. M., Prill, R. J., Camacho, D. M., Allison, K. R., Kellis, M., Collins, J. J., and Stolovitzky, G., Wisdom of crowds for robust gene network inference, Nature Methods, 9, 796-804, 2012.</em>
DOI: 10.6084/m9.figshare.22346332.v1
title: data and code for biomass in northern China

description: data and code for biomass in northern China
DOI: 10.6084/m9.figshare.25193657.v6
title: Experimental materials for the work entitled "GPT-Powered Elicitation Interview Script Generator for Requirements Engineering Training"

description: This repository includes the materials of the work entitled"GPT-Powered Elicitation Interview Script Generator for Requirements Engineering Training",by Binnur Görer and Fatma Başak Aydemir, which is accepted to be presented in RE@Next! track of RE'24.<b>Files to create Custom GPT: </b>We provide three domain-specific files to augment GPT-4.<i>common_mistakes.txt: </i>includes the details about the common mistakes encountered in requirement elicitation interviews.<i>example_conversation_simplified.txt:</i> includes a sample requirements elicitation interview script.<i>guidelines_for_interviewers_questions_short.docx:</i> includes best practices of requirements elicitation interviewing.<b>Experiment Output:</b> We provide generated interview scripts for four different domains;Social housing app: <i>Interview Script Social Housing App.docx</i>Digital health tracking app: <i>Interview Script for Digital Health Tracking App.docx</i>Food delivery app: <i>Interview Script for Food Delivery App.docx</i>Meeting scheduler system: <i>Interview Script for Meeting Scheduler System.docx</i><b> </b><b>gpt_</b><b>conversation_links.txt includes the ChatGPT links for each generated interview script.</b><b>Evaluation:</b> The grading rubric used in expert study is provided in <i>REI Grading - Expert Study.xlsx</i>
DOI: 10.6084/m9.figshare.26490628.v1
title: <b>A small RNA from </b><b><i>Streptococcus suis</i></b><b> epidemic ST7 strain promotes bacterial</b><b> </b><b>survival in host blood and brain by enhancing oxidative stress resistance</b>

description: In this study, we found a sRNA rss03 widely present in<i> </i><i>S. suis</i> pathogenic strains that are responsible for pig and human infections. Using three methods to identify rss03 targets, we found that rss03 binds to the coding sequence of <i>glpF</i> mRNA (encoding an aquaporin), unexpectedly protecting it from RNase J1-mediated degradation. Additionally, both rss03 and GlpF enhance <i>S. suis</i> oxidative stress resistance and bacterial survival in murine macrophages, sustaining an elevated bacterial load within the blood and brain. These findings enhance our understanding of <i>S. suis</i> pathogenesis and provide the first sRNA targetome and valuable insights into the regulatory mechanisms of sRNAs in <i>Streptococcus</i> species.
DOI: 10.6084/m9.figshare.27178219.v1
title: The mid-Variscan suture in the Morais complex of Trás-os-Montes (Portugal): insights from geochemistry and geochronology of oceanic rocks

description: The Middle Allochthon of the Galicia-Trás-os-Montes Zone (GTMZ) in NW Iberia is an assemblage of oceanic units representing the Variscan suture of one or more peri-Gondwanan oceans. This contribution brings new geochronological and geochemical data from the Middle Allochthon of the Morais Complex, in northern Portugal. There, the oceanic ensemble consists of a stack of five tectonic units which from bottom to top are the Junqueira, Pombais and Izeda oceanic supracrustals and the Remondes and Morais-Talhinhas ophiolitic units. The Junqueira and Pombais units consist of greenschists and metapelites. No age data are available for these two units, but a correlation is established with a Cambro-Ordovician unit in the Órdenes Complex of Galicia (NW Spain) dated at 500 Ma. The Izeda Unit consists of fine-grained, low-grade amphibolites transitional to epidote-amphibolites and greenschists, for which an age of 484 ± 3 Ma has been obtained for a metabasic tuff. In the ophiolitic ensemble, the Remondes and Morais-Talhinhas units consist of fine-grained amphibolites associated with deformed metagabbros, mafic cumulates and serpentinized ultramafics. In this study, two plagiogranite samples from the Remondes Unit yielded a complex spread of age data with Silurian ages representing the dominant population. This suggests that the newly defined Remondes Unit is younger than the Izeda Unit but older than the previously published age for these rocks, which are considered part of the overlying Morais-Talhinhas Unit, dated as Devonian (406–395 Ma) in a previous study. The geochemistry of the basic rocks in the five units is that of NMORB with a subduction-derived component that varies from weak to null. The ages, together with new and previously published whole rock geochemical data obtained from basic igneous samples, are interpreted to date and reflect the formation of igneous protoliths in oceanic ridge settings associated with the Mid-Variscan Ocean, a part of the Rheic oceanic realm that registered magmatic activity between the late Cambrian and the Lower Devonian.
DOI: 10.6084/m9.figshare.27282649.v1
title: Delphi consensus on oral anticoagulation management in special clinical situations in the cardiology setting

description: <b>Background:</b> Management of oral anticoagulation (OAC) can be challenging, such as in complex cases of nonvalvular atrial fibrillation (NVAF). <b>Materials & methods:</b> A Delphi study comprising two rounds was used for gathering expert opinion through an online questionnaire (83 items grouped in 8 dimensions) on OAC management in specific clinical settings. <b>Results:</b> Consensus was reached for 79 items (95%) in round 1. Experts recommended direct-acting oral anticoagulants (DOACs) for pericardioversion, uninterrupted OAC for catheter ablation, and dual therapy with a DOAC and clopidogrel after percutaneous coronary intervention. They also recommended restarting OAC with a DOAC after an intracranial haemorrhage. <b>Conclusion:</b> The expert-based recommendations obtained may contribute to standardizing and guiding the management of OAC in complex clinical situations in cardiology. The ACOPREFERENCE 2 project was a Delphi study to gather opinions from national experts regarding the management of anticoagulation in special clinical situations of nonvalvular atrial fibrillation patients in the cardiology setting. The study involved an expert scientific committee comprised of cardiologists, and a geographically dispersed Delphi expert panel who provided individual and anonymous feedback through an iterative process involving two survey rounds. The Delphi questionnaire included 83 items grouped in eight dimensions regarding the management of anticoagulation in specific clinical settings. Direct-acting oral anticoagulant (DOAC) therapy is the preferred option for stroke prevention in different clinical scenarios such as cardioversion, catheter ablation, percutaneous coronary intervention (PCI), bleeding, and after an intracranial hemorrhage. The panel consistently supported the use of DOAC therapy for stroke risk management prior to cardioversion. Experts recommended performing catheter ablation without interruption of the oral anticoagulant (vitamin K antagonists or DOAC). Following PCI, dual-antithrombotic therapy, including a DOAC and a P2Y<sub>12</sub> inhibitor, preferably clopidogrel, emerged as an effective and safe alternative to triple therapy. In accordance with the latest European guidelines, the panel discouraged DOAC therapy in patients with mechanical heart valves. Availability of the dabigatran reversal agent idarucizumab was clearly seen as an advantage for the urgent need to reverse the anticoagulant effect of DOAC therapy in perioperative management and bleeding complications. Dabigatran appears to be better accepted by clinicians and patients due to the availability of idarucizumab.
DOI: 10.6084/m9.figshare.5188600.v2
title: Table S2 from Ancient DNA and morphometric analysis reveal extinction and replacement of New Zealand's unique black swans.

description: Black Swan_morphometric_data
DOI: 10.6084/m9.figshare.5241766.v1
title: Erratum: Phase I/II Study of Amrubicin and Nedaplatin in Patients with Untreated, Advanced, Non-Small Cell Lung Cancer

description: A phase I/II study of combination chemotherapy with amrubicin and nedaplatin for patients with untreated, advanced, non-small cell lung cancer (NSCLC) was conducted. Amrubicin was given on days 1-3, with nedaplatin given on day 1. The treatment was repeated every 3 weeks. In the phase I trial, the initial amrubicin dose of 25 mg/m<sup>2</sup> was escalated in 5-mg/m<sup>2</sup> increments until the maximum tolerated dose was reached, with the dose of nedaplatin fixed at 100 mg/m<sup>2</sup>. In the phase II trial, the primary endpoint was the overall response rate (ORR), assuming 20% for a standard therapy and 40% for a target therapy (α = 0.05 and β = 0.20), and the estimated required total number of patients was 35. In the phase I study, nedaplatin 100 mg/m<sup>2</sup> and amrubicin 25 mg/m<sup>2</sup> was recommended. In the phase II study, 17 out of 35 patients achieved a partial response, and the ORR was 48.6%. Grade 3/4 neutropenia, grade 3 anemia and grade 3/4 thrombocytopenia occurred in 62.9, 11.4 and 11.4% of cycles, respectively. Febrile neutropenia occurred in 5 cycles (3.9%) and all cases were manageable. The recommended dose of this combination is well tolerated and effective in patients with advanced NSCLC.
DOI: 10.6084/m9.figshare.5404750.v2
title: MM_processed_files.zip

description: Processed MegaMUGA SNP genotype data on the Collaborative Cross founders, useful for preparing Diversity Outbred mouse genotypes for use with R/qtl2 (http://kbroman.org/qtl2)<br>MM_allelecodes.csv: allele codes used for all SNPsMM_foundergeno*.csv: consensus genotypes for each of the 8 founder linesMM_gmap*.csv: Genetic map positions of the SNPsMM_info.csv: marker, chr, Mbp position, cM position, and tierMM_pmap*.csv: Physical map positions (in Mbp) of the SNPs
DOI: 10.6084/m9.figshare.6225176.v1
title: Fig.2. Plots of content variation of gas at 0.8m in horizontal direction of gas injection-negative pressure.opj

description: Plots of content variation of gas at 0.8m in horizontal direction of gas injection-negative pressure
DOI: 10.6084/m9.figshare.9248864.v1
title: The human gut virome is highly diverse, stable and individual-specific.

description: The human gut contains a vast array of viruses, mostly bacteriophages. The majority remain uncharacterised and their roles in shaping the gut microbiome and in impacting on human health remain poorly understood. We performed longitudinal metagenomic analysis of faecal viruses in healthy adults which reveal high temporal stability, individual specificity and correlation with the bacterial microbiome. Using a database independent approach which uses most of the sequencing data we report the existence of a stable, numerically predominant individual-specific persistent personal virome. Clustering of viral genomes and de novo taxonomic annotation identified several groups of crAss-like and <i>Microviridae</i> bacteriophages as the most stable colonizers of the human gut. CRISPR-based host prediction highlighted connections between these stable viral communities and highly predominant gut bacterial taxa such as <i>Bacteroides</i>, <i>Prevotella</i> and <i>Faecalibacterium</i>. This study provides insights into the structure of the human gut virome and serves as an important baseline for hypothesis-driven research.
DOI: 10.17632/5hw62cdb75
title: Modelling ChatGPT Utilization and Acceptance Among Undergraduate Students in Philippine Higher Education Institution

description: The hypotheses of the research were established based on the UTAUT2 model with the following factors included: Performance Expectancy, Effort Expectancy, Social Influence, Facilitating Conditions, Hedonic Motivation, Price Value, Habit, Age, Gender, Experience, Behavioural Intention, Use Behavior. To examine the direct, indirect, and moderating relationships between various predictors and outcomes, a statistical model was developed. It was discovered that performance expectation (PE), social influence (SI), price value (PV), and habit (HAB) have significant direct effects on behavioral intention (BI). The influence of HAB was the most significant ( = 0.388), followed by PV ( = 0.252), SI ( = 0.190), and PE ( = 0.079). With a beta coefficient of 0.388, the results of the model indicated that, of the four predictors, habit had the greatest influence on behavioral intention. Price value came in second with a beta coefficient of 0.252, while social influence and performance expectations had beta coefficients of 0.190 and 0.079, respectively. In contrast, effort expectancy (EE) had no significant effect on BI. These relationship effect sizes were categorized as minor (f2 0.02) for PE, medium (f2 0.15 for SI and PV, and large (f2 0.35 for HAB). BI was also discovered to have a significant impact on use behavior (UB).

In terms of indirect connections, there was a significant connection between HAB and BI via UB. This indicates that a person's HAB has a substantial impact on their BI, which in turn has a substantial impact on their UB.  Therefore, a person's HAB can serve as a reliable indicator of their UB. Thus, as previously demonstrated, a habit may influence both the direct and indirect use of substances.  In this indirect path, the magnitude of the effect was modest.

Multiple interactions were also investigated for potential moderating effects. The age of a student did not substantially influence the correlations between PV and BI, HAB and BI, or HAB and UB. In contrast, gender substantially moderated the effects of PV and HAB on BI, albeit to a small extent. In addition, experience (EXP) substantially moderated the effects of BI and HAB on UB, both of which had modest effect sizes. Insignificant was the effect of EXP on the relationship between HAB and BI.
DOI: 10.6084/m9.figshare.14825193.v2
title: GRAZPEDWRI-DX

description: The GRAZPEDWRI-DX dataset contains 20,327 wrist trauma images that were annotated by pediatric radiologists. These annotations include objects and tags of fractures, fracture classifications, and several other relevant image descriptors.
DOI: 10.6084/m9.figshare.25144130.v1
title: Construction Data

description: Construction project data that include 15 activities that have finish to start relationships among them.
DOI: 10.6084/m9.figshare.28706267.v1
title: Supplementary File 3. Individual phylogenomic analyses with different settings.

description: Supplementary File 3. Individual phylogenomic analyses with different settings.
DOI: 10.17632/kv7bcwwf85
title: VLDP Data sets

description: Based on the data obtained from a freight transportation company that operates two lines, one of which has one-way transportation time of one day and the other with 2 days, we generated a set of benchmark VLDP  data instances of three different sizes: small-sized (including 15 or 18 orders), medium-sized (20, 25, or 30 orders) and large-sized (40, 50, or 60 orders).  The planning horizon is considered as seven days.  Order related parameters are generated based on an analysis of the real data. We randomly selected some pairs of orders as related orders preferred to be transported by the same shipment, where the ratio of the number of related pair of orders to the number of orders varies between 0 and 0.32 in all instances as in the real data. The penalty associated with each additional distinct shipment day and each additional distinct shipment for related orders are set to $0.2$ and $0.1$,  respectively. 

The vehicle fleet is assumed to be comprised of vehicles owned by the freight logistics company and rented vehicles. The unit cost of using an owned or a rented vehicle is $50 or \80, respectively. There are two types of owned or rented vehicles regarding  their sizes and weight capacities: one type has a width of 5 units, a length of 25 units, and a weight capacity of 7500 units, and the other has a width of 5 units, a length of 30 units , and a weight capacity of 9000 units. The available day of an owned vehicle during the current planning horizon based on its delivery schedule in the previous planning horizon is determined according a procedure described in the related article of authors.

The instances generated based on the above setting are considered as original instances and classified under group G1. Five additional groups of large-size data instances (Groups G2 to G6)  are generated  with controlled variety on sizes or due dates of orders in order to investigate the effect of the  variety of sizes and the variety of due dates on the results. The details of the data set can be found in the related article of the authors.
DOI: 10.17632/ys7645d5gc
title: Data for: Evaluation of laparoscopic guided rectus sheath block in gynecologic laparoscopy: a prospective, double blind randomized trial

description: This is the data of Safety and effectiveness of laparoscopic guided rectus sheath block in gynecologic laparoscopy: a prospective, double blind randomized trial. The data include enrolled women's information; intervention, benign adnexal surgery, age, diagnosis, surgical procedures, operative time, blood loss, height, body weight, BMI, postoperative pain scores, the amount of anesthetics and opioids.
DOI: 10.6084/m9.figshare.11912421.v1
title: Supplementary Material for: Primary Aldosteronism and Pregnancy

description: <b><i>Objective:</i></b> Primary aldosteronism (PA) may present at younger age and may thus complicate pregnancy. Our aim was to identify female patients in whom PA was diagnosed after pregnancy complicated with hypertension and to analyze possible hypertension-related complications during pregnancy. <b><i>Methods:</i></b> We performed retrospective analysis of female patients with PA diagnosed and treated at our Department who were pregnant before the diagnosis of PA. <b><i>Results:</i></b> We found 14 patients with PA (age at diagnosis 32.2 ± 4.2 years, hypertension duration 5.4 ± 3.6 years) suffering from hypertension 3 (IQR 0, 4) years before pregnancy (6 patients had hypertension diagnosed during pregnancy). Three subjects were pregnant twice, and 1 patient had been pregnant three times before the final diagnosis of PA was made. Ten subjects delivered by Caesarean section (in 3 cases due to early-onset preeclampsia and 2 subjects due to significantly increased blood pressure), and 9 cases spontaneously (1 subject complicated twice due to late-onset preeclampsia). Preterm delivery occurred in 5 cases – the earliest one in the sixth month of gestation. Subsequent diagnosis of PA (sometimes with a long delay up to a maximum of 12 years) was made on the basis of significantly low potassium values (2.7 ± 0.4 mmol/L; 2 subjects even suffered from muscle cramps) and hypertension (mostly moderate), elevated plasma/serum aldosterone (54.1 ± 20.2 ng/dL) and suppressed plasma renin activity (0.4 ± 0.2 ng/mL/h) or plasma renin (1.9 ± 1.6 ng/L). Thirteen subjects underwent laparoscopic adrenalectomy (in all but 2 cases, diagnosis of a large cortical adenoma [16 ± 5.9 mm] was made), and 1 subject was classified with bilateral hyperplasia according to adrenal venous sampling. Operation normalized BP in 10 subjects and improved BP control in the remaining 3 subjects. Two patients became pregnant after adrenalectomy, and their pregnancies were uneventful. <b><i>Conclusion:</i></b> PA is associated with a high rate of pregnancy-related complications. The most frequent complication is preeclampsia, in some cases leading to preterm delivery. The optimal prevention of these complications is early diagnosis of PA, and in these particular hypertensive cases, the awareness of hypokalemia.
DOI: 10.6084/m9.figshare.13547909.v1
title: bigtrees.xlsx

description: Raw data necessary to reproduce reults in preprint version of Big trees drive forest structure patterns across a lowland Amazon regrowth gradient.<br>Preprint Available at : doi: https://doi.org/10.1101/2020.04.23.058289
DOI: 10.6084/m9.figshare.20703091.v2
title: MorphQ Replication Package - Experimental Data

description: This dataset contains the programs generated in 48 hours of software testing of Qiskit platform. There is dataset contains two subfolders for the two testing approaches: MorphQ and QDiff Transformations.
DOI: 10.6084/m9.figshare.3552027.v1
title: Appendix C. Elasticity values and life-stage simulation analysis regression coefficients for each parameter in the overall model.

description: Elasticity values and life-stage simulation analysis regression coefficients for each parameter in the overall model.
DOI: 10.6084/m9.figshare.4928696.v1
title: Crocodylus musculoskeletal models

description: Models for Crocodylus johnstoni forelimb; SIMM .jnt (joint), .msl (muscle) and .asc (bones + muscles) files. All can be opened as text files, and are provided in a .zip archive.
DOI: 10.6084/m9.figshare.6287735.v1
title: Raw research data 1 from The behaviour of overweight dogs shows similarity with personality traits of overweight humans

description: This file contains the data for the two-way choice test.
DOI: 10.6084/m9.figshare.10093409.v1
title: Dual use and Peercrowd

description: The dataset includes the variables used in our paper on dual tobacco use among young adult peer crowds.<br>
DOI: 10.6084/m9.figshare.23912655.v1
title: Tree-related microhabitat profiles in European and Oriental beech forests

description: Tree-related microhabitat classes per plot
DOI: 10.6084/m9.figshare.24504151.v1
title: Supplementary Material for: Successful Endoscopic Removal of Anisakis Larvae that Deeply Invaded the Gastric Mucosa Using Jumbo Forceps

description: Anisakiasis is a parasitic disease caused by the ingestion of raw or uncooked seafood infected with third-stage larvae of anisakid nematodes. Generally, the larvae parasites live at the surface of the mucosa, but in this case, the larvae deeply invaded its head into the gastric mucosa and were not removable with a conventional biopsy forceps. In our case, we demonstrated the usefulness of jumbo forceps to remove the Anisakis larvae in such a situation.