cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9401705.v1
title: The budgetary impact of genetic testing for hereditary breast cancer for the statutory health insurance

description: <b><i>Objectives:</i></b> Potential opportunities and challenges of predictive genetic risk classification of healthy persons are currently discussed. However, the budgetary impact of rising demand is uncertain. This project aims to evaluate budgetary consequences of predictive genetic risk classification for the statutory health insurance in Germany. <b><i>Methods:</i></b> A Markov model was developed in the form of a cohort simulation. It analyses a population of female relatives of hereditary breast cancer patients. Mutation carriers are offered intensified screening, women with a BRCA1 or BRCA2 mutation can decide for prophylactic mastectomy and/or ovarectomy. The model considers the following scenarios: A) steady demand for predictive genetic testing, B) rising demand. Most input parameters are based on data of the German Consortium for Hereditary Breast and Ovarian Cancer. The model contains 49 health states, starts in 2015 and runs for ten years. Prices were evaluated from the perspective of statutory health insurance. <b><i>Results:</i></b> Steady demand leads to an expenditure of €49.8 million during the ten year period. Rising demands lead to additional expenses of €125.5 million. The model reveals the genetic analysis to be the main cost driver while cost savings in treatment costs of breast and ovarian cancer are indicated. <b><i>Conclusions</i>:</b> The results contribute to close the knowledge gap concerning the budgetary consequences due to genetic risk classification. A rising demand leads to additional costs especially due to costs for genetic analysis. The model indicates budget shifts with cost savings due to breast and ovarian cancer treatment in the scenario of rising demands.
DOI: 10.6084/m9.figshare.9398408
title: supplementary miRNAtarget.docx

description: Data relate to the RNAtargeting
DOI: 10.6084/m9.figshare.9398408.v1
title: supplementary miRNAtarget.docx

description: Data relate to the RNAtargeting
DOI: 10.6084/m9.figshare.9393293
title: PRISM Repurposing 19Q4 Dataset

description: The PRISM Repurposing release contains small molecule viability datasets generated using the Broad Repurposing Library and the PRISM multiplexed cell-line viability assay.<br>The primary PRISM Repurposing dataset contains the results of pooled-cell line chemical-perturbation viability screens for 4,518 compounds screened against 578 or 562 cell lines. <br>The secondary PRISM Repurposing dataset contains the results of pooled-cell line chemical-perturbation viability screens for 1,448 compounds screened against 489 cell lines in an 8-step, 4-fold dilution, starting from 10uM. Technical redos for 147 previously screened oncology compounds have been added as of 11/22/2019. This data is identified using a `screen_id` of "MTS010". It is recommended to use MTS010 when available. MTS010 was not included in the analysis for Corsello et al. 2019, DOI:10.1101/730119.<br>Data processing steps are described in the README files. Further descriptions of methods are available at https://doi.org/10.1101/730119.<br>
DOI: 10.6084/m9.figshare.9393062
title: low resolution images dataset

description: low resolution images generated from 4 cameras.
DOI: 10.6084/m9.figshare.9393293.v1
title: PRISM Repurposing 19Q3 Primary Screen

description: The PRISM Repurposing release contains small molecule viability datasets generated using the Broad Repurposing Library and the PRISM multiplexed cell-line viability assay.The primary PRISM Repurposing dataset contains the results of pooled-cell line chemical-perturbation viability screens for 4,518 compounds screened against 578 cell lines.Data processing steps are described in the README file. Further descriptions of methods will be published in a future report.
DOI: 10.6084/m9.figshare.9387800
title: Simulated datasets used in the paper "Performance of Model-Based Network Meta-Analysis (MBNMA) of Time-Course Relationships: A Simulation Study"

description: Each zipped folder contains datasets from Study I and II in the paper. Each dataset is an R data file containing the results from each simulation, stored as a data frame named "sim.results". Each row represents a different analysis of a simulated dataset. An explanation of the interpretation of the different variables in the dataset are given in the included Word document.
DOI: 10.6084/m9.figshare.9387800.v1
title: Simulated datasets used in the paper "Performance of Model-Based Network Meta-Analysis (MBNMA) of Time-Course Relationships: A Simulation Study"

description: Each zipped folder contains datasets from Study I and II in the paper. Each dataset is an R data file containing the results from each simulation, stored as a data frame named "sim.results". Each row represents a different analysis of a simulated dataset. An explanation of the interpretation of the different variables in the dataset are given in the included Word document.
DOI: 10.6084/m9.figshare.9386189
title: Geochronological and geochemical constraints on the subduction modified lithospheric origin of the early Cretaceous volcanics, in the western North Huaiyang Belt of Dabie Orogen, China

description: Appendix I: <i>In-situ</i> major element compositions (wt. %) of plagioclase from the Chenpeng and Jingangtai volcanic sequences. Appendix II: <i>In-situ</i> major element compositions (wt. %) of clinopyroxenes from the Chenpeng and Jingangtai volcanic sequences
DOI: 10.6084/m9.figshare.9386117
title: Active_Learning_of_Novel_Words_dataset

description: Here you can find the data related to <b>Rapid cortical plasticity induced by active learning of novel words in human adults </b>paper manuscript.<br>
DOI: 10.6084/m9.figshare.9386189.v1
title: Geochronological and geochemical constraints on the subduction modified lithospheric origin of the early Cretaceous volcanics, in the western North Huaiyang Belt of Dabie Orogen, China

description: Appendix I: <i>In-situ</i> major element compositions (wt. %) of plagioclase from the Chenpeng and Jingangtai volcanic sequences. Appendix II: <i>In-situ</i> major element compositions (wt. %) of clinopyroxenes from the Chenpeng and Jingangtai volcanic sequences
DOI: 10.6084/m9.figshare.9385616
title: Raw FCS files for "Testing the role of SOX15 in human primordial germ cell fate"

description: Raw .fcs files from flow cytometry experiments (SOX15-AID, SOX17-AID, SOX15-DD)<br>
DOI: 10.6084/m9.figshare.9386012
title: Appendix C: Supplementary information for Kuloyo Thesis, Chapter 4

description: Summary of Metgenome-Assembled Genomes (MAGs) and expression of functional genes associated with methane oxidation and nitrate reduction in methane-fed mesocom experiments
DOI: 10.6084/m9.figshare.9386117.v1
title: Active_Learning_of_Novel_Words_dataset

description: Here you can find the data related to <b>Rapid cortical plasticity induced by active learning of novel words in human adults </b>paper manuscript.<br>
DOI: 10.6084/m9.figshare.9386012.v1
title: Appendix C: Supplementary information for Kuloyo Thesis, Chapter 4

description: Summary of Metgenome-Assembled Genomes (MAGs) and expression of functional genes associated with methane oxidation and nitrate reduction in methane-fed mesocom experiments
DOI: 10.6084/m9.figshare.9385616.v2
title: Raw FCS files for "Testing the role of SOX15 in human primordial germ cell fate"

description: Raw .fcs files from flow cytometry experiments (SOX15-AID, SOX17-AID, SOX15-DD)<br>
DOI: 10.6084/m9.figshare.9385616.v1
title: Raw FCS files

description: Raw .fcs files from flow cytometry experiments (SOX15-AID, SOX17-AID, SOX15-DD)<br>
DOI: 10.6084/m9.figshare.9386117.v2
title: Active_Learning_of_Novel_Words_dataset

description: Here you can find the data related to <b>Rapid cortical plasticity induced by active learning of novel words in human adults </b>paper manuscript.<br>
DOI: 10.6084/m9.figshare.9384869
title: Persistent anemia and hypoalbuminemia in rheumatoid arthritis patients with low serum triiodothyronine level

description: <b>Objectives:</b> To determine the clinical characteristics of rheumatoid arthritis (RA) patients with low serum triiodothyronine (T3) levels. <b>Methods:</b> We evaluated serum free T3 (fT3), free T4, and thyroid-stimulating hormone (TSH) levels in 338 RA patients. After excluding patients taking anti-thyroid drugs or having anti-thyroid antibodies, we compared the clinical characteristics of the RA patients with low fT3 to those with normal/high fT3, before and after RA treatment. <b>Results:</b> Six percent of RA patients had low fT3 levels. Patients with low fT3 were older and had higher disease activity scores (DAS28), higher Steinbrocker stage, higher health assessment questionnaire scores, lower body mass index, and lower hemoglobin and albumin levels compared with normal/high-fT3 patients. After RA treatment, fT3 levels normalized in half of the low-fT3 patients and remained low in the other half. Although DAS28 scores were similarly improved in both subgroups of the low-fT3 patients, anemia and hypoalbuminemia did not normalize in the persistently low-fT3 subgroup. <b>Conclusion:</b> Low serum fT3 levels represent the profound wasting seen in RA patients that is characterized by anemia and hypoalbuminemia and that cannot be evaluated by DAS28 scores alone.
DOI: 10.6084/m9.figshare.9384869.v1
title: Persistent anemia and hypoalbuminemia in rheumatoid arthritis patients with low serum triiodothyronine level

description: <b>Objectives:</b> To determine the clinical characteristics of rheumatoid arthritis (RA) patients with low serum triiodothyronine (T3) levels. <b>Methods:</b> We evaluated serum free T3 (fT3), free T4, and thyroid-stimulating hormone (TSH) levels in 338 RA patients. After excluding patients taking anti-thyroid drugs or having anti-thyroid antibodies, we compared the clinical characteristics of the RA patients with low fT3 to those with normal/high fT3, before and after RA treatment. <b>Results:</b> Six percent of RA patients had low fT3 levels. Patients with low fT3 were older and had higher disease activity scores (DAS28), higher Steinbrocker stage, higher health assessment questionnaire scores, lower body mass index, and lower hemoglobin and albumin levels compared with normal/high-fT3 patients. After RA treatment, fT3 levels normalized in half of the low-fT3 patients and remained low in the other half. Although DAS28 scores were similarly improved in both subgroups of the low-fT3 patients, anemia and hypoalbuminemia did not normalize in the persistently low-fT3 subgroup. <b>Conclusion:</b> Low serum fT3 levels represent the profound wasting seen in RA patients that is characterized by anemia and hypoalbuminemia and that cannot be evaluated by DAS28 scores alone.
DOI: 10.6084/m9.figshare.9383600
title: A critical review of laboratory performance indicators

description: Healthcare budgets worldwide are under constant pressure to reduce costs while improving efficiency and quality. This phenomenon is also visible in clinical laboratories. Efficiency gains can be achieved by reducing the error rate and by improving the laboratory’s layout and logistics. Performance indicators (PIs) play a crucial role in this process as they allow for performance assessment. This review aids in the process for selecting laboratory PIs—which is not trivial—by providing an overview of frequently used PIs in the literature that can also be used in clinical laboratories. We conducted a systematic review of the laboratory medicine literature on PIs. As the testing process in clinical laboratories can be viewed as a production process, we also reviewed the production processes literature on PIs. The reviewed literature relates to the design, optimization or performance assessment of such processes. The most frequently cited PIs relate to pre-analytical errors, timeliness, resource utilization, cost, and the amount of congestion. Their citation frequency in the literature is used as a proxy for their importance. PIs are discussed in terms of their definition, measurability and impact. The use of suitable PIs is crucial in production processes, including clinical laboratories. By also reviewing the production processes literature, additional relevant PIs for clinical laboratories were found. The PIs in the laboratory medicine literature mostly relate to laboratory errors, while the PIs in the production processes literature relate to the amount of congestion in the process.
DOI: 10.6084/m9.figshare.9383411
title: Phylogenetic reconstruction of the genus <i>Pseudaeginella</i> (Amphipoda: Caprellidae), with the description of a new species from Brazil

description: The genus <i>Pseudaeginella</i> is analysed herein by cladistic methods based on a morphological data matrix of 49 characters × 18 terminal taxa. Based on the results, we comment on the phylogenetic position of <i>Paradeutella</i> within <i>Pseudaeginella</i>, and we propose <i>Pseudaeginella multispinosa</i> comb. nov. and <i>Pseudaeginella tanzaniensis</i> comb. nov. <i>Pseudaeginella freirei</i> sp. nov. is described from the Abrolhos Bank, north-eastern Brazil. We provide an updated key to the <i>Pseudaeginella</i> species. http://www.zoobank.org/urn:lsid:zoobank.org:pub:F573E845-822E-41D6-8F58-FE54C5653A53
DOI: 10.6084/m9.figshare.9383405
title: A phylogeographic study of the stoneplant <i>Conophytum</i> (Aizoaceae; Ruschioideae; Ruschieae) in the Bushmanland Inselberg Region (South Africa) suggests anemochory

description: The Bushmanland Inselberg Region (BIR) of South Africa provides an ideal system to study population interactions, as these inselbergs function as islands of Succulent Karoo surrounded by Nama Karoo vegetation. The population genetics of four <i>Conophytum</i> taxa endemic to the quartz-associated habitats of inselbergs in the BIR were investigated using amplified fragment length polymorphisms (AFLP), namely <i>C. marginatum</i> subsp. <i>haramoepense</i>, <i>C. marginatum</i> subsp. <i>marginatum</i>, <i>C. maughanii</i>, and <i>C. ratum</i>. <i>Conophytum marginatum</i> colonizes the quartz outcrops on the summits of the inselbergs, while <i>C. maughanii</i> and <i>C. ratum</i> occupy quartz patches at the summit and base of the inselbergs. A total of 24 populations were sampled to assess genetic differentiation between populations of each species, specifically between summit and base populations of <i>C. ratum</i>, eastern and western populations of <i>C. maughanii</i> and populations of the two subspecies of <i>C. marginatum</i>. Moderate levels of genetic differentiation were recovered between the summit and base populations of <i>C. ratum</i>, with an indication of some genetic connectivity between the populations. Slight differentiation between the eastern and western populations of <i>C. maughanii</i> was recovered, however, this was not reflected in the PCoA and STRUCTURE results. In <i>C. marginatum</i>, no significant genetic differentiation was recovered between populations of the subspecies. These results may reflect evidence of different dispersal mechanisms in the species, with the genetic connectivity between populations of <i>C. ratum</i> possibly indicating dispersal through hygrochastic capsules, while genetic connectivity between populations of <i>C. maughanii</i> and <i>C. marginatum</i> may, for the first time, suggest long-distance dispersal, i.e. anemochory. This study provides the first insights into population interactions across the BIR and highlights the importance of conservation in the region, particularly of the Gamsberg, in light of the recent mining activities.
DOI: 10.6084/m9.figshare.9383411.v1
title: Phylogenetic reconstruction of the genus <i>Pseudaeginella</i> (Amphipoda: Caprellidae), with the description of a new species from Brazil

description: The genus <i>Pseudaeginella</i> is analysed herein by cladistic methods based on a morphological data matrix of 49 characters × 18 terminal taxa. Based on the results, we comment on the phylogenetic position of <i>Paradeutella</i> within <i>Pseudaeginella</i>, and we propose <i>Pseudaeginella multispinosa</i> comb. nov. and <i>Pseudaeginella tanzaniensis</i> comb. nov. <i>Pseudaeginella freirei</i> sp. nov. is described from the Abrolhos Bank, north-eastern Brazil. We provide an updated key to the <i>Pseudaeginella</i> species. http://www.zoobank.org/urn:lsid:zoobank.org:pub:F573E845-822E-41D6-8F58-FE54C5653A53
DOI: 10.6084/m9.figshare.9383405.v1
title: A phylogeographic study of the stoneplant <i>Conophytum</i> (Aizoaceae; Ruschioideae; Ruschieae) in the Bushmanland Inselberg Region (South Africa) suggests anemochory

description: The Bushmanland Inselberg Region (BIR) of South Africa provides an ideal system to study population interactions, as these inselbergs function as islands of Succulent Karoo surrounded by Nama Karoo vegetation. The population genetics of four <i>Conophytum</i> taxa endemic to the quartz-associated habitats of inselbergs in the BIR were investigated using amplified fragment length polymorphisms (AFLP), namely <i>C. marginatum</i> subsp. <i>haramoepense</i>, <i>C. marginatum</i> subsp. <i>marginatum</i>, <i>C. maughanii</i>, and <i>C. ratum</i>. <i>Conophytum marginatum</i> colonizes the quartz outcrops on the summits of the inselbergs, while <i>C. maughanii</i> and <i>C. ratum</i> occupy quartz patches at the summit and base of the inselbergs. A total of 24 populations were sampled to assess genetic differentiation between populations of each species, specifically between summit and base populations of <i>C. ratum</i>, eastern and western populations of <i>C. maughanii</i> and populations of the two subspecies of <i>C. marginatum</i>. Moderate levels of genetic differentiation were recovered between the summit and base populations of <i>C. ratum</i>, with an indication of some genetic connectivity between the populations. Slight differentiation between the eastern and western populations of <i>C. maughanii</i> was recovered, however, this was not reflected in the PCoA and STRUCTURE results. In <i>C. marginatum</i>, no significant genetic differentiation was recovered between populations of the subspecies. These results may reflect evidence of different dispersal mechanisms in the species, with the genetic connectivity between populations of <i>C. ratum</i> possibly indicating dispersal through hygrochastic capsules, while genetic connectivity between populations of <i>C. maughanii</i> and <i>C. marginatum</i> may, for the first time, suggest long-distance dispersal, i.e. anemochory. This study provides the first insights into population interactions across the BIR and highlights the importance of conservation in the region, particularly of the Gamsberg, in light of the recent mining activities.
DOI: 10.6084/m9.figshare.9383402
title: New Bathynellidae (Crustacea) taxa and their relationships in the Fortescue catchment aquifers of the Pilbara region, Western Australia

description: In the past 20 years, the number of subterranean taxa discovered in Australia, especially in the Pilbara bioregion, has considerably increased due to incidental environmental surveys often associated with mining development. Bathynellidae are an important component of stygofauna and they occur in most Australian aquifers, but their collection and identification are difficult due to their habitat, and small and fragile bodies with conservative morphology. The study of <i>Pilbaranella ethelensis</i> in the upper Fortescue catchment contributed to a better understanding of the group at local scale, but knowledge at larger catchment scale is still limited. Abundant material collected by different environmental consultant companies on behalf of mining companies allowed an accurate analysis of the populations of Central Hamersley Range bathynellids. A new genus and one new species from the lower Fortescue catchment, <i>Fortescuenella serenitatis</i> gen. et sp. nov., is described using an approach that integrates morphological and molecular data. Three additional lineages are defined through morphology and DNA sequencing, using Automatic Barcode Gap Discovery and Poisson Tree Processes species delimitation methods. Based on previous knowledge on bathynellids and other stygofauna we expected to find multiple taxa, geographically restricted, possibly related to each other and to <i>Pilbaranella</i> genus described upstream of the Fortescue catchment. The phylogenetic reconstruction of the relationships among known lineages of the family in the Pilbara highlights a pattern of distribution characterized by a complex evolutionary history that does not reflect contemporary surface water catchments, suggesting a diversification that preceded the aridification processes started in the north of Western Australia during the Miocene. This study also clarifies the status of the 'cosmopolitan' <i>Bathynella</i> by excluding the Australian bathynellids from this genus. http://www.zoobank.org/urn:lsid:zoobank.org:act:E30796F4-1026-4278-BC13-45091DCB44CC
DOI: 10.6084/m9.figshare.9382475
title: Microglia FLIM imaging

description: The data is to support our paper for label free microglia characterization
DOI: 10.6084/m9.figshare.9383402.v1
title: New Bathynellidae (Crustacea) taxa and their relationships in the Fortescue catchment aquifers of the Pilbara region, Western Australia

description: In the past 20 years, the number of subterranean taxa discovered in Australia, especially in the Pilbara bioregion, has considerably increased due to incidental environmental surveys often associated with mining development. Bathynellidae are an important component of stygofauna and they occur in most Australian aquifers, but their collection and identification are difficult due to their habitat, and small and fragile bodies with conservative morphology. The study of <i>Pilbaranella ethelensis</i> in the upper Fortescue catchment contributed to a better understanding of the group at local scale, but knowledge at larger catchment scale is still limited. Abundant material collected by different environmental consultant companies on behalf of mining companies allowed an accurate analysis of the populations of Central Hamersley Range bathynellids. A new genus and one new species from the lower Fortescue catchment, <i>Fortescuenella serenitatis</i> gen. et sp. nov., is described using an approach that integrates morphological and molecular data. Three additional lineages are defined through morphology and DNA sequencing, using Automatic Barcode Gap Discovery and Poisson Tree Processes species delimitation methods. Based on previous knowledge on bathynellids and other stygofauna we expected to find multiple taxa, geographically restricted, possibly related to each other and to <i>Pilbaranella</i> genus described upstream of the Fortescue catchment. The phylogenetic reconstruction of the relationships among known lineages of the family in the Pilbara highlights a pattern of distribution characterized by a complex evolutionary history that does not reflect contemporary surface water catchments, suggesting a diversification that preceded the aridification processes started in the north of Western Australia during the Miocene. This study also clarifies the status of the 'cosmopolitan' <i>Bathynella</i> by excluding the Australian bathynellids from this genus. http://www.zoobank.org/urn:lsid:zoobank.org:act:E30796F4-1026-4278-BC13-45091DCB44CC
DOI: 10.6084/m9.figshare.9382475.v1
title: Microglia FLIM imaging

description: The data is to support our paper for label free microglia characterization