cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5960205
title: Dataset related to article "Long term results of a phase II trial of hypofractionated adjuvant radiotherapy for early-stage breast cancer with volumetric modulated arc therapy and simultaneous integrated boost "

description: This record contains raw data related to article “Long term results of a phase II trial of hypofractionated adjuvant radiotherapy for early-stage breast cancer with volumetric modulated arc therapy and simultaneous integrated boost" <strong>Purpose: </strong> to report toxicity and cosmetic outcome with a median follow-up of 6 years of a phase II trial of hypofractionated radiotherapy with volumetric modulated arc therapy (VMAT) and simultaneous integrated boost (SIB) for early-stage breast cancer after conservative surgery. <strong>Materials and methods: </strong> From August 2010 to September 2014, patients requiring adjuvant radiotherapy for early-stage breast cancer were treated according to a phase I-II protocol with SIB to 40.5 and 48 Gy to the breast and the boost region, respectively, with VMAT technique. The primary endpoint evaluated the treatment feasibility regarding adherence to required dose constraints for target, heart and lungs. Acute and late toxicity, local and distant control were secondary endpoints. <strong>Results: </strong> 450 patients were included in the trial and analysed after a median follow-up of 6 years. Acute toxicity was already presented in a previous paper. Regarding late toxicity, 93% of patients had no skin alteration at five years, while 5.3% and 1.3% did record G1 and G2 residual toxicity, respectively. Cosmetic outcome was scored good or excellent in almost all cases (97.2%), fair only in 2.3% of patients. Residual tenderness in the irradiated breast was reported by 10% of patients. Cosmesis and breast pain improved during follow-up. Two cases of G2 pneumonitis and two cases of ischemic cardiopathy were registered during follow-up. Five cases presented local recurrence in the homolateral breast, four patients had a new primary cancer in the contralateral breast, while distant metastasis developed in 7 patients. <strong>Conclusion: </strong> After more than six years, hypofractionated VMAT with SIB for adjuvant radiotherapy in early-stage breast cancer patients remains a safe and effective approach. Mature data on skin toxicity and cosmetic outcome are encouraging. However, longer follow-up is required to evaluate local control, cardiac toxicity and secondary carcinogenesis.
DOI: 10.5281/zenodo.5960204
title: Dataset related to article "Long term results of a phase II trial of hypofractionated adjuvant radiotherapy for early-stage breast cancer with volumetric modulated arc therapy and simultaneous integrated boost "

description: This record contains raw data related to article “Long term results of a phase II trial of hypofractionated adjuvant radiotherapy for early-stage breast cancer with volumetric modulated arc therapy and simultaneous integrated boost" <strong>Purpose: </strong> to report toxicity and cosmetic outcome with a median follow-up of 6 years of a phase II trial of hypofractionated radiotherapy with volumetric modulated arc therapy (VMAT) and simultaneous integrated boost (SIB) for early-stage breast cancer after conservative surgery. <strong>Materials and methods: </strong> From August 2010 to September 2014, patients requiring adjuvant radiotherapy for early-stage breast cancer were treated according to a phase I-II protocol with SIB to 40.5 and 48 Gy to the breast and the boost region, respectively, with VMAT technique. The primary endpoint evaluated the treatment feasibility regarding adherence to required dose constraints for target, heart and lungs. Acute and late toxicity, local and distant control were secondary endpoints. <strong>Results: </strong> 450 patients were included in the trial and analysed after a median follow-up of 6 years. Acute toxicity was already presented in a previous paper. Regarding late toxicity, 93% of patients had no skin alteration at five years, while 5.3% and 1.3% did record G1 and G2 residual toxicity, respectively. Cosmetic outcome was scored good or excellent in almost all cases (97.2%), fair only in 2.3% of patients. Residual tenderness in the irradiated breast was reported by 10% of patients. Cosmesis and breast pain improved during follow-up. Two cases of G2 pneumonitis and two cases of ischemic cardiopathy were registered during follow-up. Five cases presented local recurrence in the homolateral breast, four patients had a new primary cancer in the contralateral breast, while distant metastasis developed in 7 patients. <strong>Conclusion: </strong> After more than six years, hypofractionated VMAT with SIB for adjuvant radiotherapy in early-stage breast cancer patients remains a safe and effective approach. Mature data on skin toxicity and cosmetic outcome are encouraging. However, longer follow-up is required to evaluate local control, cardiac toxicity and secondary carcinogenesis.
DOI: 10.6073/pasta/3688be04a98697c95efa5747eb3c9513
title: Invasive grass litter suppresses a native grass species and promotes disease

description: Plant litter can alter ecosystems and promote plant invasions by altering resource availability, depositing phytotoxins, and transmitting microorganisms to living plants. Transmission of microorganisms from invasive plant litter to live plants may gain importance as invasive plants, which often escape pathogens upon introduction to a new range, acquire new pathogens over time. It is unclear, however, if invasive plant litter affects native plant communities by promoting disease. Microstegium vimineum is an invasive grass that suppresses native populations, in part through litter production, and has acquired new fungal leaf spot diseases since its introduction to the United States. In a greenhouse experiment, we evaluated how M. vimineum litter and its pathogens mediated competition with the native grass Elymus virginicus. Microstegium vimineum litter promoted disease on E. virginicus and suppressed establishment and biomass of both species. Litter had stronger negative effects on E. virginicus than M. vimineum, increasing the relative biomass of M. vimineum. Live plant competition reduced biomass of both species and live M. vimineum increased disease incidence on E. virginicus. Altogether, invasive grass litter suppressed both species, ultimately favoring the invasive species in competition, and increased disease incidence on the native species.
DOI: 10.25934/pr00002465.0
title: Available IPD datapackage for study 'A Multicenter, Randomized, Double-Blind Study to Determine the Efficacy and Safety of the Addition of SYR-322 25 mg Versus Dose Titration From 30 mg to 45 mg of Pioglitazone HCl (ACTOS®) in Subjects With Type 2 Diabetes Mellitus Who Have Inadequate Control on a Combination of Metformin and 30 mg of Pioglitazone HCl Therapy'

description: The purpose of the study is to compare the effect of adding alogliptin, once daily (QD), to the ongoing treatment regimen of pioglitazone HCl and metformin in patients with inadequate glycemic control.
DOI: 10.5281/zenodo.5772211
title: Lemna minor annotation R package (org.Lminor.eg.db) and corresponding files behind the custom built

description: This public repository containing the following files: Custom built annotation R package for the <em>Lemna minor </em>reference genome [ org.Lminor.eg.db.7z ]. The package was built via AnnotationForge using sequence homology of protein coding genes for functional characterisation (Description, PFAMs, GO terms). A combined approach using blastx and EMBL's eggNOG mapper was used for this task. This package is compatible with clusterProfiler for downstream functional enrichment analysis (ORA / GSEA) of <em>L. minor</em> transcriptomic / proteomic data.<br> <br> For <strong>how to install and use this package</strong> in your R session,<strong> check the R code example below</strong>.<br> Reference genome, genome annotation (gtf), gene coding sequences (cds) and cds translated peptide sequences (cds.pep) of the duckweed <em>Lemna minor </em>[ Lminor_refGenome_GTF_CDS.7z ].<br> The reference genome assembly fasta was downloaded from www.lemna.org. Matching GTF annotation file was generated via '<em>gffread</em>', from the GFF<em> </em>annotation file available here.<br> With the cds translated peptide file, a blastp search was performed against a custom plant protein sequence database [ Lminor_ref.org.Db4blastp.7z ]. The custom database was built from the proteomes of well annotated reference plant species. (For details refer to the readme file within the compressed folder) For more details please refer to our publication in XXX<br> DOI: XXX <pre><code class="language-bash"># 1. Download and unzip (7zip format) the org.Lminor.eg.db package. # 2. Install the package via: orgDb = "path/to/org.Lminor.eg.db/" install.packages(orgDb, type="source", repos=NULL) # 3. Restart R session then load package require(org.Lminor.eg.db) require(AnnotationDbi) # to check for columns and keytypes: columns(org.Lminor.eg.db) keytypes(org.Lminor.eg.db) # query the org.Lminor.eg.db for particular Lemna gene IDs (GID) gid = keys(org.Lminor.eg.db, keytype="GID") col = columns(org.Lminor.eg.db)[c(5,17,9,15,1,8,14)] df = select(org.Lminor.eg.db, keys=gid[1000:1100], columns=col, keytype="GID") View(df) ### Running overrepresenation analysis in clusterProfiler using the Lminor annotation package ### # ORA for multiple gene sets via compareCluster() require(clusterProfiler) genLs = list(setA = gid[1:40], setB = gid[100:140], setC = gid[1000:1040]) res = compareCluster(genLs, fun = "enrichGO", OrgDb = "org.Lminor.eg.db", keyType = "GID", ont = "BP", universe = gid) # Compute semantic similiarities among GO terms: d = GOSemSim::godata('org.Lminor.eg.db', ont="BP", computeIC=FALSE, keytype = "GID") res = enrichplot::pairwise_termsim(res, method = "Wang", semData = d) # Rmv GO terms with redudant biological information resS = simplify(res, .8) # resort results after pvalues resS@compareClusterResult = resS@compareClusterResult[order(resS@compareClusterResult$pvalue),] View(res@compareClusterResult) # Network plot emapplot(resS, showCategory = 30)</code></pre>
description: Link to publication will be added after release.
DOI: 10.25405/data.ncl.19077203
title: Expanded Interiors Re-Staged - School workshop feedback

description: Please read in conjunction with the <b>Project Overview Metadata.</b><b><br></b>This dataset comprises feedback from the three school workshops, which were undertaken as part of the <i>Expanded Interiors Re-Staged</i> project. These resources consist of a sample questionnaire, one for teachers and one for pupils, and a compilation of the feedback collated by question.<br>The three school workshops took place in July 2021 at two primary schools in the North-East of England whose locations are in the vicinity of Hadrian’s Wall. The project ran one workshop with pupils in Years 3 and 4 (ages 7-9) and two workshops with pupils in Year 6 (ages 10 – 11). The aim of the workshops was to connect, within an educational context, the research from <i>Expanded Interiors Re-Staged</i> and <i>Expanded Interiors</i> (the previous project)<i>,</i> with the local heritage of the North-East of England, while exploring the connections between Roman and contemporary visual culture. This happened through a presentation by the artist, and hands-on creative activities with the children. <br>
DOI: 10.25405/data.ncl.19077203.v1
title: Expanded Interiors Re-Staged - School workshop feedback

description: Please read in conjunction with the <b>Project Overview Metadata.</b><b><br></b>This dataset comprises feedback from the three school workshops, which were undertaken as part of the <i>Expanded Interiors Re-Staged</i> project. These resources consist of a sample questionnaire, one for teachers and one for pupils, and a compilation of the feedback collated by question.<br>The three school workshops took place in July 2021 at two primary schools in the North-East of England whose locations are in the vicinity of Hadrian’s Wall. The project ran one workshop with pupils in Years 3 and 4 (ages 7-9) and two workshops with pupils in Year 6 (ages 10 – 11). The aim of the workshops was to connect, within an educational context, the research from <i>Expanded Interiors Re-Staged</i> and <i>Expanded Interiors</i> (the previous project)<i>,</i> with the local heritage of the North-East of England, while exploring the connections between Roman and contemporary visual culture. This happened through a presentation by the artist, and hands-on creative activities with the children. <br>
DOI: 10.25405/data.ncl.19077452
title: Expanded Interiors Re-Staged - Exhibition feedback

description: Please read in conjunction with the <b>Project Overview Metadata</b><b><br></b> This dataset comprises the comments gathered from the 89 visitors to the <i>Expanded Interiors Re-Staged</i> exhibition who gave feedback about their experience either 1) via an online questionnaire on the project website (https://research.ncl.ac.uk/expandedinteriorsrestaged/questionnaire/) or 2) from written responses on a paper questionnaire, handed out at the exhibition, which were subsequently transferred into the online questionnaire form by members of the project team. This dataset consists of collated feedback from the 89 respondents. The feedback is available as a pdf. document and has been collated by question.<br>The exhibition,<i> Expanded Interiors Re-Staged,</i> relocated to Newcastle’s Hatton Gallery contemporary installations created by visual artist Catrin Huber as part of an earlier project, <i>Expanded Interiors, </i>which had been sited<i> </i>and displayed at the UNESCO World Heritage Sites of Herculaneum and Pompeii. The installations sited at the House of the Beautiful Courtyard in Herculaneum and the House of the Cryptoporticus in Pompeii, had responded to and were in dialogue with the specific nature of the buildings and wall paintings from these two Roman houses. They were shown in situ from May 2018 – January 2019.<br> In the Hatton Gallery in Newcastle these installations were exhibited alongside new work developed by Catrin Huber to set them in a fresh dialogue in a new context, with the distinctive architecture of the Hatton Gallery. <br><br> Artist Rosie Morris, who was part of the original <em>Expanded Interiors</em> research team was commissioned to develop her own contemporary installation in response to the research done within the Roman houses, and the new venue <br><br>
DOI: 10.25405/data.ncl.19077452.v1
title: Expanded Interiors Re-Staged - Exhibition feedback

description: Please read in conjunction with the <b>Project Overview Metadata</b><b><br></b> This dataset comprises the comments gathered from the 89 visitors to the <i>Expanded Interiors Re-Staged</i> exhibition who gave feedback about their experience either 1) via an online questionnaire on the project website (https://research.ncl.ac.uk/expandedinteriorsrestaged/questionnaire/) or 2) from written responses on a paper questionnaire, handed out at the exhibition, which were subsequently transferred into the online questionnaire form by members of the project team. This dataset consists of collated feedback from the 89 respondents. The feedback is available as a pdf. document and has been collated by question.<br>The exhibition,<i> Expanded Interiors Re-Staged,</i> relocated to Newcastle’s Hatton Gallery contemporary installations created by visual artist Catrin Huber as part of an earlier project, <i>Expanded Interiors, </i>which had been sited<i> </i>and displayed at the UNESCO World Heritage Sites of Herculaneum and Pompeii. The installations sited at the House of the Beautiful Courtyard in Herculaneum and the House of the Cryptoporticus in Pompeii, had responded to and were in dialogue with the specific nature of the buildings and wall paintings from these two Roman houses. They were shown in situ from May 2018 – January 2019.<br> In the Hatton Gallery in Newcastle these installations were exhibited alongside new work developed by Catrin Huber to set them in a fresh dialogue in a new context, with the distinctive architecture of the Hatton Gallery. <br><br> Artist Rosie Morris, who was part of the original <em>Expanded Interiors</em> research team was commissioned to develop her own contemporary installation in response to the research done within the Roman houses, and the new venue <br><br>
DOI: 10.5281/zenodo.5898549
title: Tele-manipulation dataset of the Analog-1 experiment

description: This dataset contains log data and matlab functions. The data was collected during the main space mission Analog-1. The data serves the analysis of telemanipulation with force feedback under KU-forward space communication using the Time Domain Passivity Approach for High Delays (TDPA-HD).
DOI: 10.5281/zenodo.5898548
title: Tele-manipulation dataset of the Analog-1 experiment

description: This dataset contains log data and matlab functions. The data was collected during the main space mission Analog-1. The data serves the analysis of telemanipulation with force feedback under KU-forward space communication using the Time Domain Passivity Approach for High Delays (TDPA-HD).
DOI: 10.5281/zenodo.5960427
title: Brugada Syndrome: New Insights From Cardiac Magnetic Resonance and Electroanatomical Imaging

description: Dataset from Pappone C, Santinelli V, Mecarocci V, Tondi L, Ciconte G, Manguso F, Sturla F, Vicedomini G, Micaglio E, Anastasia L, Pica S, Camporeale A, Lombardi M. Brugada Syndrome: New Insights From Cardiac Magnetic Resonance and Electroanatomical Imaging. Circ Arrhythm Electrophysiol. 2021 Nov;14(11):e010004. doi: 10.1161/CIRCEP.121.010004. Epub 2021 Oct 25. PMID: 34693720. Abstract <strong>Background: </strong>Brugada syndrome (BrS) is considered a purely electrical disease with variable electrical substrates. Variable rates of mechanical abnormalities have been also reported. Whether exists a link between electrical and mechanical abnormalities has never been previously explored. This investigational physiopathological study aimed to determine the relationship between the substrate size/location, as exposed by ajmaline provocation, and the severity of mechanical abnormalities, as assessed by cardiac magnetic resonance in patients with BrS. <strong>Methods: </strong>Twenty-four consecutive high-risk patients with BrS (mean age, 38±11 years, 17 males), presenting with malignant syncope and documented polymorphic ventricular tachycardia/ventricular fibrillation, and candidate to implantable cardioverter defibrillator implantation, underwent cardiac magnetic resonance and electroanatomic maps. During each examination, ajmaline test (1 mg/kg over 5 minutes) was performed. Cardiac magnetic resonance findings were compared with 24 age, sex, and body surface area-matched controls. In patients with BrS, the correlation between the electrical substrate extent and right ventricular regional mechanical abnormalities before/after ajmaline challenge was analyzed. <strong>Results: </strong>After ajmaline, patients with BrS showed a reduction of right ventricular (RV) ejection fraction (<em>P</em>&lt;0.001), associated with decreased transversal displacement (U, <em>P</em>&lt;0.001) and longitudinal strain (ε, <em>P</em>&lt;0.001) localized at RV outflow tract. In patients with BrS significant preajmaline/postajmaline changes of transversal displacement (ΔU, <em>P</em>&lt;0.001) and longitudinal strain (Δε, <em>P</em>&lt;0.001) were found. In the control group, no mechanical changes were observed after ajmaline. The electrical substrate consistently increased after ajmaline from 1.7±2.8 cm<sup>2</sup> to 14.2±7.3 cm<sup>2</sup> (<em>P</em>&lt;0.001), extending from the RV outflow tract to the neighboring segments of the RV anterior wall. Postajmaline RV ejection fraction inversely correlated with postajmaline substrate extent (<em>r</em>=-0.830, <em>P</em>&lt;0.001). In patients with BrS and normal controls, cardiac magnetic resonance detected neither myocardial fibrosis nor RV outflow tract morphological abnormalities. <strong>Conclusions: </strong>BrS is a dynamic RV electromechanical disease, where functional abnormalities correlate with the maximal extent of the substrate size.
DOI: 10.5281/zenodo.5960426
title: Brugada Syndrome: New Insights From Cardiac Magnetic Resonance and Electroanatomical Imaging

description: Dataset from Pappone C, Santinelli V, Mecarocci V, Tondi L, Ciconte G, Manguso F, Sturla F, Vicedomini G, Micaglio E, Anastasia L, Pica S, Camporeale A, Lombardi M. Brugada Syndrome: New Insights From Cardiac Magnetic Resonance and Electroanatomical Imaging. Circ Arrhythm Electrophysiol. 2021 Nov;14(11):e010004. doi: 10.1161/CIRCEP.121.010004. Epub 2021 Oct 25. PMID: 34693720. Abstract <strong>Background: </strong>Brugada syndrome (BrS) is considered a purely electrical disease with variable electrical substrates. Variable rates of mechanical abnormalities have been also reported. Whether exists a link between electrical and mechanical abnormalities has never been previously explored. This investigational physiopathological study aimed to determine the relationship between the substrate size/location, as exposed by ajmaline provocation, and the severity of mechanical abnormalities, as assessed by cardiac magnetic resonance in patients with BrS. <strong>Methods: </strong>Twenty-four consecutive high-risk patients with BrS (mean age, 38±11 years, 17 males), presenting with malignant syncope and documented polymorphic ventricular tachycardia/ventricular fibrillation, and candidate to implantable cardioverter defibrillator implantation, underwent cardiac magnetic resonance and electroanatomic maps. During each examination, ajmaline test (1 mg/kg over 5 minutes) was performed. Cardiac magnetic resonance findings were compared with 24 age, sex, and body surface area-matched controls. In patients with BrS, the correlation between the electrical substrate extent and right ventricular regional mechanical abnormalities before/after ajmaline challenge was analyzed. <strong>Results: </strong>After ajmaline, patients with BrS showed a reduction of right ventricular (RV) ejection fraction (<em>P</em>&lt;0.001), associated with decreased transversal displacement (U, <em>P</em>&lt;0.001) and longitudinal strain (ε, <em>P</em>&lt;0.001) localized at RV outflow tract. In patients with BrS significant preajmaline/postajmaline changes of transversal displacement (ΔU, <em>P</em>&lt;0.001) and longitudinal strain (Δε, <em>P</em>&lt;0.001) were found. In the control group, no mechanical changes were observed after ajmaline. The electrical substrate consistently increased after ajmaline from 1.7±2.8 cm<sup>2</sup> to 14.2±7.3 cm<sup>2</sup> (<em>P</em>&lt;0.001), extending from the RV outflow tract to the neighboring segments of the RV anterior wall. Postajmaline RV ejection fraction inversely correlated with postajmaline substrate extent (<em>r</em>=-0.830, <em>P</em>&lt;0.001). In patients with BrS and normal controls, cardiac magnetic resonance detected neither myocardial fibrosis nor RV outflow tract morphological abnormalities. <strong>Conclusions: </strong>BrS is a dynamic RV electromechanical disease, where functional abnormalities correlate with the maximal extent of the substrate size.
DOI: 10.25345/c5kc5g
title: MassIVE MSV000088778 - Carry-over effects of dry period heat stress on mammary gland proteome (target analysis)
title: We investigated alterations in the mammary proteome and phosphoproteome during lactation as a result of dry period heat stress using an isobaric tag for relative and absolute quantitation (iTRAQ)-based approach. Cows were cooled (CL; n = 12) with fans and water soakers in a free stall setting or were heat stressed through lack of access to cooling devices (HT; n = 12) during the entire dry period (approximately 46 days). All cows were cooled postpartum. Mammary biopsies were harvested from a subset of cows at 14, 42, and 84 days in milk.
DOI: 10.18112/openneuro.ds004015.v1.0.0
title: Attended speaker paradigm (cEEGrid data)