cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5375428
title: Golden-Gate compatible Magnaporthe oryzae protoplast transformation vectors

description: The Golden Gate cloning system uses standardised parts to facilitate the assembly of multiple transcriptional units, to ensure that future work with these genes can be carried out with ease (Patron et al., 2015 New Phytologist, v. 208, p. 13-19).<br>Three fungal transformation vectors have been adapted from the pCB1532 vector series (Sweigard et al., 1997. Fungal Genetics Newsletter 44: 52-53). Vector pCB1532B-RFP Addgene #101854 encodes bialaphos/basta/L-phosphinothricin resistance, pCB1532H-RFP #101855 hygromycin resistance and pCB1532S-RFP #101856 sulfonylurea/chlorimuron ethyl resistance. <br>Vectors were domesticated through removal of BsaI cloning sites. An RFP-marker was inserted. The RFP is expressed in E. coli, allowing for red-white selection of transformants. The marker is lost during the Golden Gate reaction, as it is replaced by the inserted transcriptional units. Vectors, sequence information and plasmid maps are available from Addgene https://www.addgene.org/plasmids/articles/28191792/ <br>
DOI: 10.6084/m9.figshare.5375275
title: NPQIP final analysis set

description: This dataset provides raw data including PMID and checklist compliance assessment for 879 scientific publications curated in the context of the NPQIP study: see 10.6084/m9.figshare.6226718 for revised dataset and data dictionary
DOI: 10.6084/m9.figshare.5375338
title: Lack of knowledge and availability of diagnostic equipment could hinder the diagnosis of sarcopenia and its management

description: Data from the Sarcopenia Road Show (Reijnierse et al.)
DOI: 10.6084/m9.figshare.5375470.v1
title: Aggressive interactions.xlsx

description: Dataset of aggression among laying hen groups.
DOI: 10.6084/m9.figshare.5375143
title: Dynamic Characterization of a Ducted Inverse Diffusion Flame Using Recurrence Analysis

description: Normal diffusion flame or partially premixed flame is used in many applications, such as aviation engines, tanks, ocean vessels, and industrial furnaces, because of its high flame stability and relatively low susceptibility to dynamic instabilities compared to lean premixed flames, which give lower emissions. However, associated with such flames are high NO<i><sub>x</sub></i> and soot emissions, which are particularly high for heavier hydrocarbon fuels. Increasingly stringent environmental norms have thus dictated the search for alternate approaches; one such being the inverse diffusion flame, which is currently being used in rocket motors, for staged combustion in gas turbine combustors, and furnaces. However, the dynamic response of such a flame, particularly in ducted applications where a coupling between unsteady heat release rate and duct acoustics may occur, is relatively less explored. The present work aims to plug that knowledge gap through an experimental investigation of a laboratory-scale ducted inverse diffusion flame. Two parametric variations of the flame were performed—variation of the flame position and variation of the air flow rate. Using tools of nonlinear dynamics, such as phase space reconstruction and recurrence quantification, several interesting dynamic characteristics were observed, such as limit cycles, intermittency, and homoclinic orbits. For a constant air flow rate, the system was observed to transition from a type-II intermittency regime to a limit cycle and then again to intermittent behavior as the position of the flame within the duct was varied. A similar trend was observed when the air flow rate was varied at a fixed flame position.
DOI: 10.6084/m9.figshare.5375143.v2
title: Dynamic Characterization of a Ducted Inverse Diffusion Flame Using Recurrence Analysis

description: Normal diffusion flame or partially premixed flame is used in many applications, such as aviation engines, tanks, ocean vessels, and industrial furnaces, because of its high flame stability and relatively low susceptibility to dynamic instabilities compared to lean premixed flames, which give lower emissions. However, associated with such flames are high NO<i><sub>x</sub></i> and soot emissions, which are particularly high for heavier hydrocarbon fuels. Increasingly stringent environmental norms have thus dictated the search for alternate approaches; one such being the inverse diffusion flame, which is currently being used in rocket motors, for staged combustion in gas turbine combustors, and furnaces. However, the dynamic response of such a flame, particularly in ducted applications where a coupling between unsteady heat release rate and duct acoustics may occur, is relatively less explored. The present work aims to plug that knowledge gap through an experimental investigation of a laboratory-scale ducted inverse diffusion flame. Two parametric variations of the flame were performed—variation of the flame position and variation of the air flow rate. Using tools of nonlinear dynamics, such as phase space reconstruction and recurrence quantification, several interesting dynamic characteristics were observed, such as limit cycles, intermittency, and homoclinic orbits. For a constant air flow rate, the system was observed to transition from a type-II intermittency regime to a limit cycle and then again to intermittent behavior as the position of the flame within the duct was varied. A similar trend was observed when the air flow rate was varied at a fixed flame position.
DOI: 10.6084/m9.figshare.5375143.v1
title: Dynamic characterization of a ducted inverse diffusion flame using recurrence analysis

description: Normal diffusion flame or partially premixed flame is used in many applications such as aviation engines, tanks, ocean vessels, and industrial furnaces because of= flames, which give lower emissions. However, associated with such flames are high NO<i><sub>x</sub></i> and soot emissions, which are particularly high for heavier hydrocarbon fuels. Increasingly stringent environmental norms have thus dictated the search for alternate approaches; one such being the inverse diffusion flame, which is currently being used in rocket motors, for staged combustion in gas turbine combustors, and furnaces. However, the dynamic response of such a flame, particularly in ducted applications where a coupling between unsteady heat release rate and duct acoustics may occur, is relatively less explored. The present work aims to plug that knowledge gap through an experimental investigation of a laboratory-scale ducted inverse diffusion flame. Two parametric variations of the flame were performed – variation of the flame position and variation of the air flow rate. Using tools of nonlinear dynamics such as phase space reconstruction and recurrence quantification, several interesting dynamic characteristics were observed such as limit cycles, intermittency, and homoclinic orbits. For a constant air flow rate, the system was observed to transition from a type-II intermittency regime to a limit cycle and then again to intermittent behavior as the position of the flame within the duct was varied. A similar trend was observed when the air flow rate was varied at a fixed flame position.
DOI: 10.6084/m9.figshare.5374969
title: Supplementary Material for:Effect of Cardiac Surgery-Associated Acute Kidney Injury on Long-Term Outcomes of Chinese Patients: A Historical Cohort Study

description: <i>Background/Aims:</i> To evaluate the long-term outcomes of Chinese patients with cardiac surgery-associated acute kidney injury (CSA-AKI). <i>Methods:</i> Patients who underwent cardiac surgery with a median 3-year follow-up were enrolled. The long-term survival rate and the incidence of chronic kidney disease (CKD) were recorded, and related risk factors were analyzed. <i>Results:</i> Of all 1,363 patients, 457 (33.5%) developed CSA-AKI. The AKI patients had a lower 3-year survival rate (88.8 vs. 97.2%, respectively, <i>p</i> &lt; 0.001) and a higher incidence of CKD stages 3-5 (9.9 vs. 2.3%, respectively, <i>p</i> &lt; 0.001) than the non-AKI patients. Cox regression analysis showed that AKI, atrial fibrillation, chronic cardiac insufficiency, longer surgical duration, respiratory failure after surgery, and longer mechanical ventilation time were associated with long-term mortality, while AKI, older age, and lower baseline kidney function were associated with incident CKD stages 3-5. <i>Conclusion:</i> CSA-AKI increased the risk of 3-year mortality and incident CKD stages 3-5.
DOI: 10.6084/m9.figshare.5374969.v1
title: Supplementary Material for:Effect of Cardiac Surgery-Associated Acute Kidney Injury on Long-Term Outcomes of Chinese Patients: A Historical Cohort Study

description: <i>Background/Aims:</i> To evaluate the long-term outcomes of Chinese patients with cardiac surgery-associated acute kidney injury (CSA-AKI). <i>Methods:</i> Patients who underwent cardiac surgery with a median 3-year follow-up were enrolled. The long-term survival rate and the incidence of chronic kidney disease (CKD) were recorded, and related risk factors were analyzed. <i>Results:</i> Of all 1,363 patients, 457 (33.5%) developed CSA-AKI. The AKI patients had a lower 3-year survival rate (88.8 vs. 97.2%, respectively, <i>p</i> &lt; 0.001) and a higher incidence of CKD stages 3-5 (9.9 vs. 2.3%, respectively, <i>p</i> &lt; 0.001) than the non-AKI patients. Cox regression analysis showed that AKI, atrial fibrillation, chronic cardiac insufficiency, longer surgical duration, respiratory failure after surgery, and longer mechanical ventilation time were associated with long-term mortality, while AKI, older age, and lower baseline kidney function were associated with incident CKD stages 3-5. <i>Conclusion:</i> CSA-AKI increased the risk of 3-year mortality and incident CKD stages 3-5.
DOI: 10.6084/m9.figshare.5374936
title: Supplementary Material for: 3 Behandlung der Schuppenflechte

description: No abstract
DOI: 10.6084/m9.figshare.5374939
title: Higher DNA insert fragment sizes improve mitogenomic assemblies from metagenomic pyrosequencing datasets: an example using Limenitidinae butterflies (Lepidoptera, Nymphalidae)

description: A large number of diverse mitogenomic sequences can be obtained more easily and affordably via mitochondrial metagenomics, which generates high-throughput sequences directly from sheared DNA extractions and assembles mitogenomic sequences using a few bioinformatic processing steps. However, following <i>de novo</i> assembly analysis, the optimal DNA fragment insert size is unclear. In this study, four extracted Limenitidinae butterfly DNA samples were sonically fragmented, and two fragment size ranges (200–400 and 400–600 bp) of each sample were tagged with different barcodes, producing pyrosequencing datasets. The results show that the datasets generated from longer DNA insert fragments result in better coverage and more complete mitogenomic sequences, and the phylogenetic analysis shows high support at nodes, revealing that <i>Athyma</i> butterflies do not represent a monophyletic group. Therefore, we recommend using longer insert DNA fragment sizes to generate high-throughput datasets for obtaining complete mitogenomic sequences which can improve phylogenetic studies.
DOI: 10.6084/m9.figshare.5374939.v1
title: Higher DNA insert fragment sizes improve mitogenomic assemblies from metagenomic pyrosequencing datasets: an example using Limenitidinae butterflies (Lepidoptera, Nymphalidae)

description: A large number of diverse mitogenomic sequences can be obtained more easily and affordably via mitochondrial metagenomics, which generates high-throughput sequences directly from sheared DNA extractions and assembles mitogenomic sequences using a few bioinformatic processing steps. However, following <i>de novo</i> assembly analysis, the optimal DNA fragment insert size is unclear. In this study, four extracted Limenitidinae butterfly DNA samples were sonically fragmented, and two fragment size ranges (200–400 and 400–600 bp) of each sample were tagged with different barcodes, producing pyrosequencing datasets. The results show that the datasets generated from longer DNA insert fragments result in better coverage and more complete mitogenomic sequences, and the phylogenetic analysis shows high support at nodes, revealing that <i>Athyma</i> butterflies do not represent a monophyletic group. Therefore, we recommend using longer insert DNA fragment sizes to generate high-throughput datasets for obtaining complete mitogenomic sequences which can improve phylogenetic studies.
DOI: 10.6084/m9.figshare.5374936.v2
title: Supplementary Material for: 3 Behandlung der Schuppenflechte

description: No abstract
DOI: 10.6084/m9.figshare.5374903
title: required files for TDSelection

description: Files required to run TDSelection source code.
DOI: 10.6084/m9.figshare.5374903.v1
title: required files for TDSelection

description: Files required to run TDSelection source code.
DOI: 10.6084/m9.figshare.5374777.v1
title: R code for promoter inference

description: R code for promoter inference<br>
DOI: 10.6084/m9.figshare.5374717
title: Men and suicide prevention: a scoping review

description: <i>Background</i>: Male suicide rates are higher than their female counterparts in almost every country around the world. Several developed countries have attempted to implement suicide prevention programmes, but few have specifically targeted men. <i>Aims</i>: To identify what is currently known about suicide prevention strategies, programmes, and interventions of relevance to men. <i>Method</i>: A scoping review guided by Arksey and O'Malley’s five-stage framework. <i>Results</i>: Twenty-two studies were included. Thematic analysis identified three categories: (i) male suicide prevention interventions; (ii) factors or coping strategies that interrupt the suicidal process in men; (iii) men’s perspectives on service provision. Interventions included awareness campaigns; training of community “gatekeepers”; psychological support; and educational initiatives targeted to either GPs or depressed or suicidal men. Men emphasised the need to receive support from a trusted and respected individual, preferably in an informal setting. Connecting with others, reframing help-seeking as masculine, and the use of emotional regulation techniques were all identified as factors with potential to interrupt the suicidal process. <i>Conclusions</i>: This review demonstrates the need for further research examining the perspectives of suicidal middle-aged men and their close family and friends.
DOI: 10.6084/m9.figshare.5374717.v2
title: Men and suicide prevention: a scoping review

description: <i>Background</i>: Male suicide rates are higher than their female counterparts in almost every country around the world. Several developed countries have attempted to implement suicide prevention programmes, but few have specifically targeted men. <i>Aims</i>: To identify what is currently known about suicide prevention strategies, programmes, and interventions of relevance to men. <i>Method</i>: A scoping review guided by Arksey and O'Malley’s five-stage framework. <i>Results</i>: Twenty-two studies were included. Thematic analysis identified three categories: (i) male suicide prevention interventions; (ii) factors or coping strategies that interrupt the suicidal process in men; (iii) men’s perspectives on service provision. Interventions included awareness campaigns; training of community “gatekeepers”; psychological support; and educational initiatives targeted to either GPs or depressed or suicidal men. Men emphasised the need to receive support from a trusted and respected individual, preferably in an informal setting. Connecting with others, reframing help-seeking as masculine, and the use of emotional regulation techniques were all identified as factors with potential to interrupt the suicidal process. <i>Conclusions</i>: This review demonstrates the need for further research examining the perspectives of suicidal middle-aged men and their close family and friends.
DOI: 10.6084/m9.figshare.5374717.v1
title: Men and suicide prevention: a scoping review

description: <i>Background</i>: Male suicide rates are higher than their female counterparts in almost every country around the world. Several developed countries have attempted to implement suicide prevention programmes, but few have specifically targeted men. <i>Aims</i>: To identify what is currently known about suicide prevention strategies, programmes, and interventions of relevance to men. <i>Method</i>: A scoping review guided by Arksey and O'Malley’s five-stage framework. <i>Results</i>: Twenty-two studies were included. Thematic analysis identified three categories: (i) male suicide prevention interventions; (ii) factors or coping strategies that interrupt the suicidal process in men; (iii) men’s perspectives on service provision. Interventions included awareness campaigns; training of community “gatekeepers”; psychological support; and educational initiatives targeted to either GPs or depressed or suicidal men. Men emphasised the need to receive support from a trusted and respected individual, preferably in an informal setting. Connecting with others, reframing help-seeking as masculine, and the use of emotional regulation techniques were all identified as factors with potential to interrupt the suicidal process. <i>Conclusions</i>: This review demonstrates the need for further research examining the perspectives of suicidal middle-aged men and their close family and friends.
DOI: 10.6084/m9.figshare.12854441.v1
title: New remains of <i>Cephalomys arcidens</i> (Rodentia, Caviomorpha) and a redefinition of the enigmatic Cephalomyidae

description: <i>Cephalomys</i> is the best-known cephalomyid, recorded in five localities in Argentina and known from well-preserved mandibles, fragments of skull, and a large number of isolated teeth, from both juveniles and adults. Despite this, a modern description is lacking and the validity of some species of <i>Cephalomys</i> has been questioned in the last few years. New material from the Deseadan locality of Cabeza Blanca (Chubut, Argentina), including skull fragments unknown for the species thus far, and well-preserved juvenile teeth, along with a large number of specimens from collections in Argentina, allow us to propose a more complete description of the genus and a new taxonomic arrangement for the <i>Cephalomys</i> species. We also analysed some dubious records of <i>Cephalomys</i> from Quebrada Honda and Pico Truncado and confirm that they are not part of this genus. We consider <i>C. plexus</i> to be a synonym of <i>C. arcidens</i>, we consider the combination previously proposed for <i>C. bolivianus</i> (as a species of <i>Asteromys</i>) to be valid, and we consider <i>C. ceciae</i> also to be a valid species. We performed a phylogenetic analysis including for the first time all cephalomyids (<i>Cephalomys</i>, <i>Litodontomys</i>, <i>Cephalomyopsis</i>, <i>Soriamys</i> and <i>Banderomys</i>) and possibly related genera (<i>Perimys</i>, <i>Scotamys</i>, <i>Asteromys</i>) to test the position of the family Cephalomyidae among the other caviomorph rodents, as well as its validity and internal relationships. The results recovered Cephalomyidae as a clade, including <i>Cephalomys</i>, <i>Cephalomyopsis</i> and <i>Litodontomys</i>. The monophyly of <i>Cephalomys</i> could not be confirmed. <i>Soriamys</i> and <i>Banderomys</i> were recovered within Cavioidea. <i>Perimys</i>, <i>Scotamys</i> and <i>Asteromys</i> were recovered within Chinchilloidea, and we analysed the implications of their positions within the group. The implications in terms of the biochron, distribution and evolutionary history of the Cephalomyidae, considering the new definition for the family proposed herein (including only <i>Cephalomys</i>, <i>Cephalomyopsis</i> and <i>Litodontomys</i>), are discussed, as well as inferences regarding caviomorph evolution at the scale of the entire group.
DOI: 10.6084/m9.figshare.12854441
title: New remains of <i>Cephalomys arcidens</i> (Rodentia, Caviomorpha) and a redefinition of the enigmatic Cephalomyidae

description: <i>Cephalomys</i> is the best-known cephalomyid, recorded in five localities in Argentina and known from well-preserved mandibles, fragments of skull, and a large number of isolated teeth, from both juveniles and adults. Despite this, a modern description is lacking and the validity of some species of <i>Cephalomys</i> has been questioned in the last few years. New material from the Deseadan locality of Cabeza Blanca (Chubut, Argentina), including skull fragments unknown for the species thus far, and well-preserved juvenile teeth, along with a large number of specimens from collections in Argentina, allow us to propose a more complete description of the genus and a new taxonomic arrangement for the <i>Cephalomys</i> species. We also analysed some dubious records of <i>Cephalomys</i> from Quebrada Honda and Pico Truncado and confirm that they are not part of this genus. We consider <i>C. plexus</i> to be a synonym of <i>C. arcidens</i>, we consider the combination previously proposed for <i>C. bolivianus</i> (as a species of <i>Asteromys</i>) to be valid, and we consider <i>C. ceciae</i> also to be a valid species. We performed a phylogenetic analysis including for the first time all cephalomyids (<i>Cephalomys</i>, <i>Litodontomys</i>, <i>Cephalomyopsis</i>, <i>Soriamys</i> and <i>Banderomys</i>) and possibly related genera (<i>Perimys</i>, <i>Scotamys</i>, <i>Asteromys</i>) to test the position of the family Cephalomyidae among the other caviomorph rodents, as well as its validity and internal relationships. The results recovered Cephalomyidae as a clade, including <i>Cephalomys</i>, <i>Cephalomyopsis</i> and <i>Litodontomys</i>. The monophyly of <i>Cephalomys</i> could not be confirmed. <i>Soriamys</i> and <i>Banderomys</i> were recovered within Cavioidea. <i>Perimys</i>, <i>Scotamys</i> and <i>Asteromys</i> were recovered within Chinchilloidea, and we analysed the implications of their positions within the group. The implications in terms of the biochron, distribution and evolutionary history of the Cephalomyidae, considering the new definition for the family proposed herein (including only <i>Cephalomys</i>, <i>Cephalomyopsis</i> and <i>Litodontomys</i>), are discussed, as well as inferences regarding caviomorph evolution at the scale of the entire group.