cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7694456.v1
title: New paroxyclaenid mammals from the early Eocene of the Paris Basin (France) shed light on the origin and evolution of these endemic European cimolestans

description: We present new species of an enigmatic family of mammals, which is endemic to Europe, the Paroxyclaenidae: <i>Merialus bruneti</i> sp. nov., <i>Fratrodon tresvauxi</i> gen. et sp. nov., <i>Paraspaniella gunnelli</i> gen. et sp. nov., and <i>Sororodon tresvauxae</i> gen. et sp. nov. The fossils described come from six localities of the Ypresian of the Paris Basin (France): Pourcy (MP7), Mutigny, Avenay, Condé-en-Brie (MP8 + 9), Grauves and Prémontré (MP10). They allow the description of three new genera and four new species belonging to the subfamilies Merialinae and Paroxyclaeninae. Two of these new species represent the earliest occurrence of each subfamily. Fossils from Mutigny, Avenay and Condé-en-Brie indicate that merialines were more abundant than paroxyclaenines during the Ypresian. Surprisingly, merialines disappeared from the fossil record at the end of the Ypresian – the youngest records are close to MP10 – while the paroxyclaenines were present in Europe until the end of the middle Eocene. Based on comparison with the data presently available for European mammals during the Ypresian, we suggest the existence of two periods of faunal turnover that must be more extensively studied in the future in order to be fully characterized: the ‘Intra-Ypresian Mammal Turnover’ and the ‘Ypresian–Lutetian Mammal Turnover’. Finally, because the oldest paroxyclaenids appear morphologically closer to cimolestids such as <i>Procerberus</i> than to pantolestans, it is suggested that similarities between paroxyclaenids and pantolestans could be due to convergence. http://zoobank.org/urn:lsid:zoobank.org:pub:8A3B21A0-6945-4CE4-975C-402736E92C51
DOI: 10.7284/118846
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AT32 using a Hawaii UHDAS instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7694444
title: Mechanical properties and performances of contemporary drug-eluting stent: focus on the metallic backbone

description: <b>Introduction</b>: Drug-eluting stents (DES) are still the standard of care in percutaneous coronary intervention (PCI) since the fall of bioresorbable scaffolds with respect to safety. The unbeatable advantage of a metallic stent when compared with a scaffold is a stronger mechanical property and more sustainable vascular support. Recent development of contemporary metallic stent has focused on the reduction of strut thickness. However, there will always be a trade-off between improvement in deliverability, flexibility, and radial strength. <b>Areas covered</b>: This review aims to discuss the designs of metallic stent platform and mechanical properties as well as mechanical performance of contemporary DES from bench studies and clinical trials. <b>Expert opinion</b>: Mechanical properties of stents affect short- and long-term clinical outcomes. Ultrathin-strut DES have become popular and clinical trials have shown impressive results. Thinner struts may improve device flexibility and deliverability but the radial strength and longitudinal integrity might have been compromised as well. Ultrathin-strut cobalt chromium or platinum chromium DES will become standard of care in PCI practice in the near future. Information on the stent design, stent material and mechanical properties of the stent are essential for a rational selection of the appropriate stent in selected lesions and patients.
DOI: 10.6084/m9.figshare.7694432
title: Supplementary Material for: Prediction Models for Early Childhood Obesity: Applicability and Existing Issues

description: Statistical models have been developed for the prediction or diagnosis of a wide range of outcomes. However, to our knowledge, only 7 published studies have reported models to specifically predict overweight and/or obesity in early childhood. These models were developed using known risk factors and vary greatly in terms of their discrimination and predictive capacities. There are currently no established guidelines on what constitutes an acceptable level of risk (i.e., risk threshold) for childhood obesity prediction models, but these should be set following consideration of the consequences of false-positive and false-negative predictions, as well as any relevant clinical guidelines. To date, no studies have examined the impact of using early childhood obesity prediction models as intervention tools. While these are potentially valuable to inform targeted interventions, the heterogeneity of the existing models and the lack of consensus on adequate thresholds limit their usefulness in practice.
DOI: 10.6084/m9.figshare.7694444.v1
title: Mechanical properties and performances of contemporary drug-eluting stent: focus on the metallic backbone

description: <b>Introduction</b>: Drug-eluting stents (DES) are still the standard of care in percutaneous coronary intervention (PCI) since the fall of bioresorbable scaffolds with respect to safety. The unbeatable advantage of a metallic stent when compared with a scaffold is a stronger mechanical property and more sustainable vascular support. Recent development of contemporary metallic stent has focused on the reduction of strut thickness. However, there will always be a trade-off between improvement in deliverability, flexibility, and radial strength. <b>Areas covered</b>: This review aims to discuss the designs of metallic stent platform and mechanical properties as well as mechanical performance of contemporary DES from bench studies and clinical trials. <b>Expert opinion</b>: Mechanical properties of stents affect short- and long-term clinical outcomes. Ultrathin-strut DES have become popular and clinical trials have shown impressive results. Thinner struts may improve device flexibility and deliverability but the radial strength and longitudinal integrity might have been compromised as well. Ultrathin-strut cobalt chromium or platinum chromium DES will become standard of care in PCI practice in the near future. Information on the stent design, stent material and mechanical properties of the stent are essential for a rational selection of the appropriate stent in selected lesions and patients.
DOI: 10.7284/118847
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AT32 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7694402
title: One year failure rates for de-novo ventriculo-peritoneal shunts in under 3-month-old children

description: <b>Introduction:</b> Ventriculo-peritoneal shunts (VPS) are still the mainstay treatment for hydrocephalus in children. It is generally accepted that VPS failure and infection rates are higher for neonates than for older children. We compared our 1-year failure and infection rates in under 3-month-old children compared with older children in our department. <b>Results:</b> We identified 58 children under 3 months of age who underwent VPS insertion between January 2007 and December 2016. They had a 29.3% (17) shunt failure rate over the first year. There were two confirmed shunt infections (3.4%). <b>Discussion:</b> The 1-year shunt failure rate at our institution for VPS insertion in children over 3 months is 26.1% and the infection rate is 4.3% (9). The literature suggests that the outcome for VPS in younger children is worse than for older children. Our work shows similar outcomes for all children compared to those under 3 months at time of VPS insertion alone. <b>Conclusion:</b> Children under 3-months-old undergoing VPS insertion should not automatically expect an increased 1-year failure or infection rate compared with older children. The reasons for this may be as a result of increased subspecialisation, the more widespread use of antibiotic-impregnated catheters and improved neonatal care.
DOI: 10.6084/m9.figshare.7694402.v1
title: One year failure rates for de-novo ventriculo-peritoneal shunts in under 3-month-old children

description: <b>Introduction:</b> Ventriculo-peritoneal shunts (VPS) are still the mainstay treatment for hydrocephalus in children. It is generally accepted that VPS failure and infection rates are higher for neonates than for older children. We compared our 1-year failure and infection rates in under 3-month-old children compared with older children in our department. <b>Results:</b> We identified 58 children under 3 months of age who underwent VPS insertion between January 2007 and December 2016. They had a 29.3% (17) shunt failure rate over the first year. There were two confirmed shunt infections (3.4%). <b>Discussion:</b> The 1-year shunt failure rate at our institution for VPS insertion in children over 3 months is 26.1% and the infection rate is 4.3% (9). The literature suggests that the outcome for VPS in younger children is worse than for older children. Our work shows similar outcomes for all children compared to those under 3 months at time of VPS insertion alone. <b>Conclusion:</b> Children under 3-months-old undergoing VPS insertion should not automatically expect an increased 1-year failure or infection rate compared with older children. The reasons for this may be as a result of increased subspecialisation, the more widespread use of antibiotic-impregnated catheters and improved neonatal care.
DOI: 10.7284/118845
title: Fluorometer data collected during research cruise AT32 using a WET Labs WETStar instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7694360
title: Workflows of C.uenoi genome analyses

description: Commands used for C.uenoi genome analyses
DOI: 10.6084/m9.figshare.7694267
title: Radiomics on peritumoral edema of glioblastoma patients

description: Collection of 114 patients diagnosed with glioblastoma. Patient IDs starting with 'S' are patients retrieved from the author's institution; IDs starting with 'T' were retrieved from the Cancer Imaging Archive. Resection indicates type of surgical resection where 1 is gross total resection and 2 is all other resections including subtotal and partial resection. MGMT 1 indicates positive MGMT methylation. Time and status indicate overall survival time and death (1) or alive (0), respectively. Columns starting with 'original_' indicate radiomic features extracted. <br>
DOI: 10.6084/m9.figshare.7694327
title: Supplementary Material for: A Familial Case of a Whole Germline <b><i>CDC73</i></b> Deletion Discordant for Primary Hyperparathyroidism

description: <b><i>Introduction:</i></b> Primary hyperparathyroidism (PHPT) occurs as part of familial syndromes, including <i>CDC73</i>-related disorders caused by germline pathogenic variants of<i></i> the<i> CDC73</i> gene, particularly in early adulthood. Herein, we report a familial case of a whole germline <i>CDC73</i> deletion discordant for PHPT. <b><i>Case Description:</i></b> A 15-year-old boy was admitted to our hospital because of persistent nausea and vomiting. Laboratory tests showed hypercalcemia (13.6 mg/dL), hypophosphatemia (2.4 mg/dL), and elevated intact PTH level (149 pg/mL). Imaging studies showed an enlarged single parathyroid gland. Thus, the diagnosis of PHPT was made. Microarray analysis of peripheral blood DNA showed a 3.4-Mb heterozygous deletion of 1q31 encompassing 11 genes, including <i>CDC73</i>. Total thyroidectomy/parathyroidectomy was performed; histology was compatible with parathyroid adenoma without any evidence of malignancy. DNA sequencing of the removed adenoma confirmed a hemizygous nonsense variant in the <i>CDC73</i> gene in a mosaic manner, which was potentially involved in parathyroid tumorigenesis as the “second hit.” Importantly, the same deletion was identified in his 52-year-old father who had an unremarkable medical history. <b><i>Conclusions:</i></b> These data clearly demonstrate the Knudson two-hit theory from a molecular viewpoint. Phenotypic variability and incomplete penetrance of <i>CDC73</i>-related disorders, even if caused by a gross deletion, should be noted in a clinical setting.
DOI: 10.6084/m9.figshare.7694354
title: Conformational studies of bipyrimidine-based mesogens by combination of DFT calculations and temperature-dependent infrared studies

description: Combination of DFT calculations and solid-state temperature-dependent infrared spectroscopy has confirmed that the central core of recently developed bipyrimidine-based mesogens is not flat, i.e. do not adopt a disc shape, inside the columnar liquid-crystalline phase. For this purpose, the intensities and the frequency shifts of the most sensitive C–N and C–C bands of the central bipyrimidine core have been studied as a function of the temperature and of the dihedral angle. The results support the reported packing model in which the molecules are interdigitated alternatively along their long axis and their short axis to form columns inside the mesophase.
DOI: 10.6084/m9.figshare.7694360.v1
title: Workflows of C.uenoi genome analyses

description: Commands used for C.uenoi genome analyses
DOI: 10.7284/118844
title: GNSS (Global Navigation Satellite System) data collected during research cruise AT32 using a C&C C-Nav 2050G instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7694261
title: Effect of ploughing and pesticide application on oribatid mite communities

description: The impact of conventional pesticide treatment and deep ploughing on oribatid mite communities was investigated in an abandoned arable land. The experimental plots were divided in “pesticide and ploughed” (PPL), “ploughed” (PL) and a“ meadow” as control (Ctr). Soil samples were taken monthly during the vegetation period (March-August) and once in three months (October and January) in a period without vegetation. Seventy-seven species of oribatid mites were determined. Species numbers were highest in Ctr (55 species), lower in PPL (53) and lowest in PL (41). Oribatid communities were dominated by sexually reproducing Brachypylina. Some of the generally frequent parthenogenetic species (e.g. <i>Acrotritia ardua</i> and <i>Oppiella nova</i>) were rare at the Ctr sites while stress-tolerant species (both, sexual and asexual, e.g. <i>Protoribates capucinus, Punctoribates punctum, Ramusella clavipectinata, Tectocepheus velatus</i>) were dominant. Pesticide application did not show any effect on oribatid mite community beyond the ploughing, whereas some species like <i>P. capucinus, P. punctum, R. clavipectinata</i> and <i>T. velatus</i> reached high abundances at PPL sites. Community structure of oribatid mites did not change significantly compared with Ctr sites, suggesting that the study area is inhabited by stress tolerant oribatid communities shaped by past agricultural disturbance.
DOI: 10.6084/m9.figshare.7694327.v1
title: Supplementary Material for: A Familial Case of a Whole Germline <b><i>CDC73</i></b> Deletion Discordant for Primary Hyperparathyroidism

description: <b><i>Introduction:</i></b> Primary hyperparathyroidism (PHPT) occurs as part of familial syndromes, including <i>CDC73</i>-related disorders caused by germline pathogenic variants of<i></i> the<i> CDC73</i> gene, particularly in early adulthood. Herein, we report a familial case of a whole germline <i>CDC73</i> deletion discordant for PHPT. <b><i>Case Description:</i></b> A 15-year-old boy was admitted to our hospital because of persistent nausea and vomiting. Laboratory tests showed hypercalcemia (13.6 mg/dL), hypophosphatemia (2.4 mg/dL), and elevated intact PTH level (149 pg/mL). Imaging studies showed an enlarged single parathyroid gland. Thus, the diagnosis of PHPT was made. Microarray analysis of peripheral blood DNA showed a 3.4-Mb heterozygous deletion of 1q31 encompassing 11 genes, including <i>CDC73</i>. Total thyroidectomy/parathyroidectomy was performed; histology was compatible with parathyroid adenoma without any evidence of malignancy. DNA sequencing of the removed adenoma confirmed a hemizygous nonsense variant in the <i>CDC73</i> gene in a mosaic manner, which was potentially involved in parathyroid tumorigenesis as the “second hit.” Importantly, the same deletion was identified in his 52-year-old father who had an unremarkable medical history. <b><i>Conclusions:</i></b> These data clearly demonstrate the Knudson two-hit theory from a molecular viewpoint. Phenotypic variability and incomplete penetrance of <i>CDC73</i>-related disorders, even if caused by a gross deletion, should be noted in a clinical setting.
DOI: 10.6084/m9.figshare.7694249
title: Supplementary Material for: Fabry Disease Prevalence in Renal Replacement Therapy in Turkey

description: <b><i>Background:</i></b> Fabry disease (FD) is an X-linked lysosomal storage disorder resulting from lack of alpha-galactosidase A (AGALA) activity in lysosomes. <b><i>Objective:</i></b> In this multicenter study, we aimed to evaluate the prevalence of FD in renal transplant (Tx) recipients in Turkey. We also screened dialysis patients as a control group. <b><i>Methods:</i></b> All Tx and dialysis patients were screened regardless of the presence of a primary disease. We measured the AGALA activity in all male patients as initial analysis. Mutation analysis was performed in male patients with decreased AGALA activity and in female patients as the initial diagnostic assay. <b><i>Results:</i></b> We screened 5,657 patients. A total of 17 mutations were identified. No significant difference was observed between the groups regarding the prevalence of patients with mutation. We found FD even in patients with presumed primary kidney diseases. Seventy-one relatives were analyzed and mutation was detected in 43 of them. We detected a patient with a new, unknown mutation (p.Cys223) in the <i>GLA</i> gene. <b><i>Conclusions:</i></b> There are important implications of the screening. First, detection of the undiagnosed patients leads to starting appropriate therapies for these patients. Second, the transmission of the disease to future generations may be prevented by prenatal screening after appropriate genetic counseling. In conclusion, we suggest screening of kidney Tx candidates for FD, regardless of etiologies of chronic kidney disease.
DOI: 10.6084/m9.figshare.7694261.v1
title: Effect of ploughing and pesticide application on oribatid mite communities

description: The impact of conventional pesticide treatment and deep ploughing on oribatid mite communities was investigated in an abandoned arable land. The experimental plots were divided in “pesticide and ploughed” (PPL), “ploughed” (PL) and a“ meadow” as control (Ctr). Soil samples were taken monthly during the vegetation period (March-August) and once in three months (October and January) in a period without vegetation. Seventy-seven species of oribatid mites were determined. Species numbers were highest in Ctr (55 species), lower in PPL (53) and lowest in PL (41). Oribatid communities were dominated by sexually reproducing Brachypylina. Some of the generally frequent parthenogenetic species (e.g. <i>Acrotritia ardua</i> and <i>Oppiella nova</i>) were rare at the Ctr sites while stress-tolerant species (both, sexual and asexual, e.g. <i>Protoribates capucinus, Punctoribates punctum, Ramusella clavipectinata, Tectocepheus velatus</i>) were dominant. Pesticide application did not show any effect on oribatid mite community beyond the ploughing, whereas some species like <i>P. capucinus, P. punctum, R. clavipectinata</i> and <i>T. velatus</i> reached high abundances at PPL sites. Community structure of oribatid mites did not change significantly compared with Ctr sites, suggesting that the study area is inhabited by stress tolerant oribatid communities shaped by past agricultural disturbance.
DOI: 10.6084/m9.figshare.7694267.v1
title: Radiomics on peritumoral edema of glioblastoma patients

description: Collection of 114 patients diagnosed with glioblastoma. Patient IDs starting with 'S' are patients retrieved from the author's institution; IDs starting with 'T' were retrieved from the Cancer Imaging Archive. Resection indicates type of surgical resection where 1 is gross total resection and 2 is all other resections including subtotal and partial resection. MGMT 1 indicates positive MGMT methylation. Time and status indicate overall survival time and death (1) or alive (0), respectively. Columns starting with 'original_' indicate radiomic features extracted. <br>
DOI: 10.7284/118849
title: Meteorological Station data collected during research cruise AT32 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7694249.v1
title: Supplementary Material for: Fabry Disease Prevalence in Renal Replacement Therapy in Turkey

description: <b><i>Background:</i></b> Fabry disease (FD) is an X-linked lysosomal storage disorder resulting from lack of alpha-galactosidase A (AGALA) activity in lysosomes. <b><i>Objective:</i></b> In this multicenter study, we aimed to evaluate the prevalence of FD in renal transplant (Tx) recipients in Turkey. We also screened dialysis patients as a control group. <b><i>Methods:</i></b> All Tx and dialysis patients were screened regardless of the presence of a primary disease. We measured the AGALA activity in all male patients as initial analysis. Mutation analysis was performed in male patients with decreased AGALA activity and in female patients as the initial diagnostic assay. <b><i>Results:</i></b> We screened 5,657 patients. A total of 17 mutations were identified. No significant difference was observed between the groups regarding the prevalence of patients with mutation. We found FD even in patients with presumed primary kidney diseases. Seventy-one relatives were analyzed and mutation was detected in 43 of them. We detected a patient with a new, unknown mutation (p.Cys223) in the <i>GLA</i> gene. <b><i>Conclusions:</i></b> There are important implications of the screening. First, detection of the undiagnosed patients leads to starting appropriate therapies for these patients. Second, the transmission of the disease to future generations may be prevented by prenatal screening after appropriate genetic counseling. In conclusion, we suggest screening of kidney Tx candidates for FD, regardless of etiologies of chronic kidney disease.
DOI: 10.6084/m9.figshare.7694225
title: Improved treatment of glioblastoma – changes in survival over two decades at a single regional Centre

description: <b>Background:</b> Glioblastoma (GBM) is an aggressive brain tumor with a short overall survival (OS) in general. The treatment of GBM has evolved over the last decades and is today multimodal including surgical resection followed by radiochemotherapy and adjuvant chemotherapy for patients in good performance status. The aim of this study was to evaluate the development of treatment and the outcome for GBM patients at a single regional center. <b>Patients and methods:</b> Survival was studied for 571 patients in our region diagnosed with GBM between 1995 and 2015. Samples from 244 patients out of those treated 2005–2015 have been included in a tissue/blood bank and a clinical database has been set up with basic patient characteristics and details on surgery and non-surgical treatment. <b>Results:</b> The median OS for all patients from 1995 to 2015 was 9.3 months. There was a stepwise improvement from 6.9 to 10.3 months for patients diagnosed 1995–1996 and 2010–2015, respectively (<i>p</i> p p <b>Discussion:</b> The results of this study are consistent with earlier results regarding survival and prognostic factors and confirm results from randomized controlled trials in a clinical setting. Despite the improvements made, the prognosis is still dismal and the need for further research on GBM treatment is great.