cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4036779.v1
title: Identification of a European interserotypic reassortant strain of infectious bursal disease virus

description: Infectious bursal disease virus (IBDV, family <i>Birnaviridae</i>) is a bi-segmented double-stranded RNA virus for which two serotypes are described. Serotype 1 replicates in the bursa of Fabricius and causes an immunosuppressive and potentially fatal disease in young chickens. Serotype 2 is apathogenic in poultry species. Up to now, only one natural event of interserotypic reassortment has been described after the introduction of very virulent IBDV (vvIBDV) in the USA in 2009, resulting in an IBDV strain with its segment A related to vvIBDV and its segment B related to US serotype 2 strain OH. Here, we present the first European isolate illustrative of interserotypic reassortment. The reassorting isolate, named 100056, exhibits a genomic segment A typical of current European vvIBDV but a segment B close to European serotype 2 viruses, supporting an origin distinct from US strains. When inoculated into SPF chickens, isolate 100056 induced mild clinical signs in the absence of mortality but caused a severe bursal atrophy, which strongly suggests an immunosuppressive potential. These results illustrate that interserotypic reassortment is another mechanism that can create IBDV strains with a modified acute pathogenicity. As a consequence, and for a more precise inference of the possible phenotype, care should be taken that the molecular identification of IBDV strains is targeted to both genome segments.
DOI: 10.7910/dvn/v1rjpf/oncqca
title: ykc20151115_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/fvcxqo
title: ykc20151211_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/bc79gr
title: ykc20151107_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/wgqflk
title: ykc20151226_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036626
title: PowerPoint Slides for: Renal Interstitial Fibrosis: An Imperfect Predictor of Kidney Disease Progression in Some Patient Cohorts

description: <i>Background:</i> The extent of interstitial fibrosis on kidney biopsy is regarded as a prognostic indicator and guide to treatment. Patients with extensive fibrosis are assigned to supportive treatments with the expectation that they have advanced beyond the point at which immunosuppressive or other disease-modifying therapies would be of benefit. Our study highlights some of the limitations of using interstitial fibrosis to predict who will develop end-stage renal disease (ESRD). <i>Methods:</i> Analysis of 434 consecutive renal biopsies performed between 2001 and 2012 at a single center. We assessed the influence of various clinical factors along with fibrosis as predictors of ESRD and dialysis-free survival in various patient groups. <i>Results:</i>Interstitial fibrosis performed well overall as a predictor of progression to dialysis. On average, patients with &gt;50% fibrosis progressed more rapidly than those with either 25-49 or 0-24% fibrosis with a median time to dialysis of 1.2, 6.5 and &gt;10 years, respectively. In contrast, interstitial fibrosis was of less value as a predictor of disease progression in a subset of cases that included patients over the age of 70 and those with diabetic nephropathy on biopsy. Surprisingly, 13.9% of patients with normal renal function had 25-49% fibrosis and 5% had more than 50% fibrosis on biopsy, and 5 years after undergoing biopsy 21% of patients with &gt;50% fibrosis still remained dialysis free. <i>Conclusion:</i> Renal fibrosis is an imperfect prognostic indicator for the development of ESRD and caution should be exercised in applying it too rigidly, especially in elderly or diabetic patients.
DOI: 10.6084/m9.figshare.4036626.v1
title: PowerPoint Slides for: Renal Interstitial Fibrosis: An Imperfect Predictor of Kidney Disease Progression in Some Patient Cohorts

description: <i>Background:</i> The extent of interstitial fibrosis on kidney biopsy is regarded as a prognostic indicator and guide to treatment. Patients with extensive fibrosis are assigned to supportive treatments with the expectation that they have advanced beyond the point at which immunosuppressive or other disease-modifying therapies would be of benefit. Our study highlights some of the limitations of using interstitial fibrosis to predict who will develop end-stage renal disease (ESRD). <i>Methods:</i> Analysis of 434 consecutive renal biopsies performed between 2001 and 2012 at a single center. We assessed the influence of various clinical factors along with fibrosis as predictors of ESRD and dialysis-free survival in various patient groups. <i>Results:</i>Interstitial fibrosis performed well overall as a predictor of progression to dialysis. On average, patients with &gt;50% fibrosis progressed more rapidly than those with either 25-49 or 0-24% fibrosis with a median time to dialysis of 1.2, 6.5 and &gt;10 years, respectively. In contrast, interstitial fibrosis was of less value as a predictor of disease progression in a subset of cases that included patients over the age of 70 and those with diabetic nephropathy on biopsy. Surprisingly, 13.9% of patients with normal renal function had 25-49% fibrosis and 5% had more than 50% fibrosis on biopsy, and 5 years after undergoing biopsy 21% of patients with &gt;50% fibrosis still remained dialysis free. <i>Conclusion:</i> Renal fibrosis is an imperfect prognostic indicator for the development of ESRD and caution should be exercised in applying it too rigidly, especially in elderly or diabetic patients.
DOI: 10.7910/dvn/v1rjpf/75gd76
title: ykc20151130_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/qubntg
title: ykc20151119_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/jvuejy
title: ykc20151220_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036617
title: PowerPoint Slides for: Medical Neighborhood Model for the Care of Chronic Kidney Disease Patients

description: <i>Background:</i> The patient-centered medical home is a popular model of care, but the patient-centered medical neighborhood (PCMN) is rarely described. We developed a PCMN in an academic practice to improve care for patients with chronic kidney disease (CKD). The purpose of this study is to identify the prevalence of CKD in this practice and describe baseline characteristics, develop an interdisciplinary team-based approach to care and determine cost associated with CKD patients. <i>Methods:</i>Patients with CKD stage 3a with comorbidities through stage 5 were identified. Data collected include demographics, comorbidities and whether patients had a nephrologist. Using a screening tool based on the 2012 Kidney Disease Improving Global Outcomes guidelines, a nurse care manager (NCM) made recommendations about management including indications for referral. A pharmacist reviewed patients' charts and made medication-related recommendations. Blue Cross Blue Shield (BCBS) insurance provided cost data for a subset of patients. <i>Results:</i> A total of 1,255 patients were identified. Half did not have a formal diagnosis of CKD and three-quarters had never seen a nephrologist. Based on the results of the screening tool, the NCM recommended nephrology E-consult or full consult for 85 patients. The subset of BCBS patients had a mean healthcare cost of $1,528.69 per member per month. <i>Conclusions:</i> We implemented a PCMN that allowed for easy identification of a high-risk, high-cost population of CKD patients and optimized their care to reflect guideline-based standards.
DOI: 10.6084/m9.figshare.4036593
title: A genome–wide screen to identify genes controlling the rate of entry into mitosis in fission yeast

description: We have carried out a haploinsufficiency (HI) screen in fission yeast using heterozygous deletion diploid mutants of a genome-wide set of cell cycle genes to identify genes encoding products whose level determines the rate of progression through the cell cycle. Cell size at division was used as a measure of advancement or delay of the G2-M transition of rod-shaped fission yeast cells. We found that 13 mutants were significantly longer or shorter (greater than 10%) than control cells at cell division. These included mutants of the <i>cdc2, cdc25, wee1</i> and <i>pom1</i> genes, which have previously been shown to play a role in the timing of entry into mitosis, and which validate this approach. Seven of these genes are involved in regulation of the G2-M transition, 5 for nuclear transport and one for nucleotide metabolism. In addition we identified 4 more genes that were 8–10% longer or shorter than the control that also had roles in regulation of the G2-M transition or in nuclear transport. The genes identified here are all conserved in human cells, suggesting that this dataset will be useful as a basis for further studies to identify rate-limiting steps for progression through the cell cycle in other eukaryotes.
DOI: 10.7910/dvn/v1rjpf/douken
title: ykc20151204_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/doankr
title: ykc20151118_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036593.v1
title: A genome–wide screen to identify genes controlling the rate of entry into mitosis in fission yeast

description: We have carried out a haploinsufficiency (HI) screen in fission yeast using heterozygous deletion diploid mutants of a genome-wide set of cell cycle genes to identify genes encoding products whose level determines the rate of progression through the cell cycle. Cell size at division was used as a measure of advancement or delay of the G2-M transition of rod-shaped fission yeast cells. We found that 13 mutants were significantly longer or shorter (greater than 10%) than control cells at cell division. These included mutants of the <i>cdc2, cdc25, wee1</i> and <i>pom1</i> genes, which have previously been shown to play a role in the timing of entry into mitosis, and which validate this approach. Seven of these genes are involved in regulation of the G2-M transition, 5 for nuclear transport and one for nucleotide metabolism. In addition we identified 4 more genes that were 8–10% longer or shorter than the control that also had roles in regulation of the G2-M transition or in nuclear transport. The genes identified here are all conserved in human cells, suggesting that this dataset will be useful as a basis for further studies to identify rate-limiting steps for progression through the cell cycle in other eukaryotes.
DOI: 10.6084/m9.figshare.4036617.v1
title: PowerPoint Slides for: Medical Neighborhood Model for the Care of Chronic Kidney Disease Patients

description: <i>Background:</i> The patient-centered medical home is a popular model of care, but the patient-centered medical neighborhood (PCMN) is rarely described. We developed a PCMN in an academic practice to improve care for patients with chronic kidney disease (CKD). The purpose of this study is to identify the prevalence of CKD in this practice and describe baseline characteristics, develop an interdisciplinary team-based approach to care and determine cost associated with CKD patients. <i>Methods:</i>Patients with CKD stage 3a with comorbidities through stage 5 were identified. Data collected include demographics, comorbidities and whether patients had a nephrologist. Using a screening tool based on the 2012 Kidney Disease Improving Global Outcomes guidelines, a nurse care manager (NCM) made recommendations about management including indications for referral. A pharmacist reviewed patients' charts and made medication-related recommendations. Blue Cross Blue Shield (BCBS) insurance provided cost data for a subset of patients. <i>Results:</i> A total of 1,255 patients were identified. Half did not have a formal diagnosis of CKD and three-quarters had never seen a nephrologist. Based on the results of the screening tool, the NCM recommended nephrology E-consult or full consult for 85 patients. The subset of BCBS patients had a mean healthcare cost of $1,528.69 per member per month. <i>Conclusions:</i> We implemented a PCMN that allowed for easy identification of a high-risk, high-cost population of CKD patients and optimized their care to reflect guideline-based standards.
DOI: 10.7910/dvn/v1rjpf/nfcnd9
title: ykc20150421_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/bha3u4
title: ykc20151117_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036584
title: Megalosauripus transjuranicus and other large tridactyl tracks from the Ajoie district (NW Switzerland). 3D meshes

description: 3D models of the large tridactyl tracks including the type specimens of <i>Megalosauripus transjurani.</i> All the collected and/or casted specimens, are stored and accessible at the PALA16 collections (Office de la Culture, 2900, Porrentruy, Switzerland) and will be transferred to the JURASSICA Muséum (Route de Fontenais 21, 2900, Porrentruy, Switzerland) at the end of 2018.Files are labelled accordingly the track IDs. All photogrammetric models were generated with a Canon EOS 70D thought Agisoft Photoscan Pro (v. 1.2.5 and 1.2.6); number of photos used, accuracy and resolution of each models are in the associated pdf. "laser" in the file name indicates tracks that were laser-scanned in 2011 with a FARO Platinum Scanarm 3.0 m. Processing information in the associated pdf. <b>Citation for this article</b>: Razzolini N.L., Belvedere M., Marty D., Paratte G., Lovis C., Cattin M., and Meyer C.A. 2017. <i>Megalosauripus transjuranicus</i> ichnosp. nov. A new Late Jurassic theropod ichnotaxon from NW Switzerland and implications for tridactyl dinosaur ichnology and ichnotaxomy. PLoS ONE 12(7): e0180289. Doi: 10.1371/journal.pone.0180289
DOI: 10.7910/dvn/v1rjpf/odhbph
title: ykc20151002_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/8tzskw
title: ykc20151001_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/vlofox
title: ykc20151213_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/iwqwyy
title: ykc20151124_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036533
title: Adolescent coping in Fiji: The Measure of Adolescent Coping Strategies (MACS) scale

description: <b><b>Aldur = age</b>Kyn = sex (strakur=boy, stelpa=girl)Country_born = in what country were you bornTungumal = First language at home<br></b><b><br></b><b>Background</b>: Sveinbjornsdottir and Thorsteinsson (2014) have proposed a two-dimensional theory of adolescent coping with cross-cultural population application within the highest Human Development Index Categories (HDI) category, namely the Measure of Adolescent Coping Strategies (MACS). However, this measure has only had limited testing outside western cultures. The present study examines the outcome for MACS in the second highest HDI category using a sample from the Fiji islands. <b>Method</b>: The MACS was answered by 809 adolescents of diverse origins from different parts of Fiji. Respondents included 397 boys 12 to 20 years of age (<i>M </i>= 15.79) and 409 girls 13 to 19 years of age (<i>M </i>= 15.60). <b>Results</b>: Confirmatory factor analysis (CFA) results showed the MACS to have a reliable factorial and dimensional structure in Fiji. The pattern of findings for comparisons between boys and girls in Fiji was similar to that of comparisons between boys and girls in Australia and Iceland. There were no differences on the five MACS coping factors comparing mother tongue (Fijian and Hindi). <b>Conclusion</b>: the two-dimensional theory of adolescent coping was confirmed and the MACS was found to be a useful adolescent coping measure in Fiji.
DOI: 10.7910/dvn/v1rjpf/4xfqnh
title: ykc20150309_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036506
title: Dataset for: Impact of external pneumatic compression target inflation pressure on transcriptome-wide RNA expression in skeletal muscle

description: Next generation RNA sequencing was employed to determine the acute and sub-chronic impact of peristaltic pulse external pneumatic compression (PEPC) of different target inflation pressures on global gene expression in human vastus lateralis skeletal muscle biopsy samples. Methods: Eighteen (N=18) male participants were randomly assigned to one of three groups: 1) sham (n=6), 2) EPC at 30-40 mmHg (LP-EPC; n=6) and 3) EPC at 70-80 mmHg (MP-EPC; n=6). 1-h treatment with sham/EPC occurred for 7 consecutive days. Vastus lateralis skeletal muscle biopsies were performed at baseline (before first treatment; PRE), 1-h following the first treatment (POST1), and 24-h following the last (7th) treatment (POST2). Changes from PRE in gene expression were analyzed via paired comparisons within each group. Genes were filtered to include only those that had an RPKM &gt; 1.0, a fold-change of &gt; 1.5 and a paired t-test value of &lt;0.01. Results: For the sham condition, 2 genes at POST1 and 1 gene at POST2 were significantly altered. For the LP-EPC condition, 9 genes were upregulated and 0 genes were downregulated at POST1 while 39 genes were upregulated and 1 gene downregulated at POST2. For the MP-EPC condition, 2 genes were significantly upregulated and 21 genes were downregulated at POST1 and 0 genes were altered at POST2. Conclusions: Both LP-EPC and MP-EPC acutely alter skeletal muscle gene expression though only LP-EPC appeared to affect gene expression with sub-chronic application. Moreover, the transcriptome response to EPC demonstrated marked heterogeneity (i.e., genes and directionality) with different target inflation pressures.
DOI: 10.6084/m9.figshare.4036506.v1
title: Dataset for: Impact of external pneumatic compression target inflation pressure on transcriptome-wide RNA expression in skeletal muscle

description: Next generation RNA sequencing was employed to determine the acute and sub-chronic impact of peristaltic pulse external pneumatic compression (PEPC) of different target inflation pressures on global gene expression in human vastus lateralis skeletal muscle biopsy samples. Methods: Eighteen (N=18) male participants were randomly assigned to one of three groups: 1) sham (n=6), 2) EPC at 30-40 mmHg (LP-EPC; n=6) and 3) EPC at 70-80 mmHg (MP-EPC; n=6). 1-h treatment with sham/EPC occurred for 7 consecutive days. Vastus lateralis skeletal muscle biopsies were performed at baseline (before first treatment; PRE), 1-h following the first treatment (POST1), and 24-h following the last (7th) treatment (POST2). Changes from PRE in gene expression were analyzed via paired comparisons within each group. Genes were filtered to include only those that had an RPKM &gt; 1.0, a fold-change of &gt; 1.5 and a paired t-test value of &lt;0.01. Results: For the sham condition, 2 genes at POST1 and 1 gene at POST2 were significantly altered. For the LP-EPC condition, 9 genes were upregulated and 0 genes were downregulated at POST1 while 39 genes were upregulated and 1 gene downregulated at POST2. For the MP-EPC condition, 2 genes were significantly upregulated and 21 genes were downregulated at POST1 and 0 genes were altered at POST2. Conclusions: Both LP-EPC and MP-EPC acutely alter skeletal muscle gene expression though only LP-EPC appeared to affect gene expression with sub-chronic application. Moreover, the transcriptome response to EPC demonstrated marked heterogeneity (i.e., genes and directionality) with different target inflation pressures.
DOI: 10.7910/dvn/v1rjpf/goeaq8
title: ykc20151105_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036533.v1
title: MACS-Fiji-data-v06figshare.sav

description: <b>Background</b>: Sveinbjornsdottir and Thorsteinsson (2014) have proposed a two-dimensional theory of adolescent coping with cross-cultural population application within the highest Human Development Index Categories (HDI) category, namely the Measure of Adolescent Coping Strategies (MACS). However, this measure has only had limited testing outside western cultures. The present study examines the outcome for MACS in the second highest HDI category using a sample from the Fiji islands. <b>Method</b>: The MACS was answered by 809 adolescents of diverse origins from different parts of Fiji. Respondents included 397 boys 12 to 20 years of age (<i>M </i>= 15.79) and 409 girls 13 to 19 years of age (<i>M </i>= 15.60). <b>Results</b>: Confirmatory factor analysis (CFA) results showed the MACS to have a reliable factorial and dimensional structure in Fiji. The pattern of findings for comparisons between boys and girls in Fiji was similar to that of comparisons between boys and girls in Australia and Iceland. There were no differences on the five MACS coping factors comparing mother tongue (Fijian and Hindi). <b>Conclusion</b>: the two-dimensional theory of adolescent coping was confirmed and the MACS was found to be a useful adolescent coping measure in Fiji.
DOI: 10.7910/dvn/v1rjpf/qww4jq
title: ykc20150312_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036494
title: Individual Differences in Emotion Regulation, Childhood Trauma and Proneness to Shame and Guilt in Adolescence

description: Data from a study on the relations between emotion regulation, childhood trauma and proneness to shame and guilt (Szentagotai-Tatar & Miu, PLOS ONE, under revision)
DOI: 10.7910/dvn/v1rjpf/lq08ek
title: ykc20151224_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/0azmto
title: ykc20151120_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/hcdawv
title: ykc20151227_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036410
title: A Review of MegaJournals

description: A review of Open Access namely since 2011 with a focus on PLOS ONE and Scientific Reports in particular. <br>
DOI: 10.6084/m9.figshare.4036410.v2
title: A Review of MegaJournals

description: A review of Open Access namely since 2011 with a focus on PLOS ONE and Scientific Reports in particular. <br>
DOI: 10.7910/dvn/v1rjpf/v1dpdw
title: ykc20150622_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/0epcn6
title: ykc20151030_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4036314
title: Justin Survey 6 20160927 Tascam wav files

description: <br>Bayfordbury Survey<br>27 Sept 2016<br>19:00-21:00<br>Justin A T halls<br>TascamDR05 (static)<br>MEMS<br>cool, heavily overcast<br>Luton at 1950 17C 94% 1023hPa SSW 3.1m/s waning crescentSixth Bayfordbury survey of the year. Static detector (Tascam) on the logpile<br>just into the path that goes diagonally up to the clearings.<br>Usual route through the Pinetum, across to the railway track and then down that track and through<br>the wood to the memorial. Then back through the clearings and down the diagonal<br>track to collect the Tascam and back to the centre.
DOI: 10.7910/dvn/v1rjpf/dqqhph
title: ykc20151125_03.txt.gz

description: :unav