cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12295838
title: Proteomic characterisation of drug metabolising enzymes and drug transporters in pig liver

description: Liver enzymes and transporters play an essential role in xenobiotic metabolism, distribution and elimination. Pre-clinical safety assessment relies on studies on animal models, including the (mini)pig. The pig shares many anatomical and physiological characteristics with humans, and there is currently a gap in information about porcine metabolism and disposition pathways and their similarities and differences from human ones.Three different sample preparation methods (filter-aided sample preparation (FASP), enhanced FASP (eFASP) and in-solution sample preparation) were used to prepare porcine liver tissue (two samples) for proteomic analysis. The analysis relied on rapid-separation liquid chromatography coupled to Orbitrap mass spectrometry in data-dependent acquisition mode. MASCOT was used for identification and relative label-free quantification was based on spectral counting.The three sample preparation methods provided complementary results, allowing characterisation of approximately 70 pharmacologically relevant proteins. The main quantified proteins included 16 cytochrome P450 (CYP) enzymes, 5 UGT enzymes, and 11 transporters. In addition, 20 Phase I and 14 Phase II enzymes were also characterised. Inter-operator differences were negligible and the pig liver pies for CYP, UGT and efflux transporter proteins were established. Human homologues of the quantified CYP, UGT and transporter proteins were identified. Liver enzymes and transporters play an essential role in xenobiotic metabolism, distribution and elimination. Pre-clinical safety assessment relies on studies on animal models, including the (mini)pig. The pig shares many anatomical and physiological characteristics with humans, and there is currently a gap in information about porcine metabolism and disposition pathways and their similarities and differences from human ones. Three different sample preparation methods (filter-aided sample preparation (FASP), enhanced FASP (eFASP) and in-solution sample preparation) were used to prepare porcine liver tissue (two samples) for proteomic analysis. The analysis relied on rapid-separation liquid chromatography coupled to Orbitrap mass spectrometry in data-dependent acquisition mode. MASCOT was used for identification and relative label-free quantification was based on spectral counting. The three sample preparation methods provided complementary results, allowing characterisation of approximately 70 pharmacologically relevant proteins. The main quantified proteins included 16 cytochrome P450 (CYP) enzymes, 5 UGT enzymes, and 11 transporters. In addition, 20 Phase I and 14 Phase II enzymes were also characterised. Inter-operator differences were negligible and the pig liver pies for CYP, UGT and efflux transporter proteins were established. Human homologues of the quantified CYP, UGT and transporter proteins were identified.
DOI: 10.6084/m9.figshare.12295838.v1
title: Proteomic characterisation of drug metabolising enzymes and drug transporters in pig liver

description: Liver enzymes and transporters play an essential role in xenobiotic metabolism, distribution and elimination. Pre-clinical safety assessment relies on studies on animal models, including the (mini)pig. The pig shares many anatomical and physiological characteristics with humans, and there is currently a gap in information about porcine metabolism and disposition pathways and their similarities and differences from human ones.Three different sample preparation methods (filter-aided sample preparation (FASP), enhanced FASP (eFASP) and in-solution sample preparation) were used to prepare porcine liver tissue (two samples) for proteomic analysis. The analysis relied on rapid-separation liquid chromatography coupled to Orbitrap mass spectrometry in data-dependent acquisition mode. MASCOT was used for identification and relative label-free quantification was based on spectral counting.The three sample preparation methods provided complementary results, allowing characterisation of approximately 70 pharmacologically relevant proteins. The main quantified proteins included 16 cytochrome P450 (CYP) enzymes, 5 UGT enzymes, and 11 transporters. In addition, 20 Phase I and 14 Phase II enzymes were also characterised. Inter-operator differences were negligible and the pig liver pies for CYP, UGT and efflux transporter proteins were established. Human homologues of the quantified CYP, UGT and transporter proteins were identified. Liver enzymes and transporters play an essential role in xenobiotic metabolism, distribution and elimination. Pre-clinical safety assessment relies on studies on animal models, including the (mini)pig. The pig shares many anatomical and physiological characteristics with humans, and there is currently a gap in information about porcine metabolism and disposition pathways and their similarities and differences from human ones. Three different sample preparation methods (filter-aided sample preparation (FASP), enhanced FASP (eFASP) and in-solution sample preparation) were used to prepare porcine liver tissue (two samples) for proteomic analysis. The analysis relied on rapid-separation liquid chromatography coupled to Orbitrap mass spectrometry in data-dependent acquisition mode. MASCOT was used for identification and relative label-free quantification was based on spectral counting. The three sample preparation methods provided complementary results, allowing characterisation of approximately 70 pharmacologically relevant proteins. The main quantified proteins included 16 cytochrome P450 (CYP) enzymes, 5 UGT enzymes, and 11 transporters. In addition, 20 Phase I and 14 Phase II enzymes were also characterised. Inter-operator differences were negligible and the pig liver pies for CYP, UGT and efflux transporter proteins were established. Human homologues of the quantified CYP, UGT and transporter proteins were identified.
DOI: 10.34740/kaggle/dsv/1596188
title: Musical Emotions Classification
DOI: 10.17608/k6.auckland.13106576.v1
title: Validation of the Regulatory Effects of T1D SNPs on Transcriptional Control of Gene Expression

description: Datasets for this project<br>
DOI: 10.17608/k6.auckland.13106576.v2
title: Validation of the Regulatory Effects of T1D SNPs on Transcriptional Control of Gene Expression

description: Datasets for this project<br>
DOI: 10.25919/5f97b9beee950
title: Parkes observations for project PX500 semester 2020APRS_15

description: This proposal relates to time purchased by the Chinese Academy of Sciences for Parkes follow-up confirmation and timing of FAST discoveries. As the observing time has been purchased this proposal (and the related PX501) does not require TAC grading. The primary reason for submitting a proposal is to ensure an outreach statement and that the proposal is entered into OPAL for the data archive to access. The Chinese team have two time requests. The time scheduled for the first, relating to this proposal, will be allocated in blocks of 24 hours and the data will become available in the data archive with an 18 month embargo period. The second type of time will be scheduled in shorter blocks and the data archived with a 10 year embargo.
DOI: 10.6084/m9.figshare.13147625
title: Supplementary Material for: Daily Distance Traveled Is Associated with Greater Brain Size in Primates

description: Explanations for the brain size increments through primate and, particularly, human evolution are numerous. Commonly, these hypotheses rely on the influence that behavioral and ecological variables have on brain size in extant primates, such as diet quality, social group size, or home range (HR) area. However, HR area does not reflect the time spent moving. As such, it has not been properly addressed whether the effort involved in movement could have affected brain size evolution in primates. This study aimed to test the influence of daily movement on primates’ brain sizes, controlling for these other behavioral and ecological factors. We used a large comparative dataset of extant primate species and phylogenetic comparative methods. Our results show a significant correlation between daily movement and brain mass, which is not explained by the influence of diet, social group size, HR, or body mass. Hence, from an evolutionary timescale, a longer daily movement distance is not a constraining factor for the energetic investment in a larger brain. On the contrary, increased mobility could have contributed to brain mass incrementations through evolution.
DOI: 10.6084/m9.figshare.13147673
title: Supplementary Material for: The Effects of Chronic Dialysis on Physical Status, Quality of Life, and Arterial Stiffness: A Longitudinal Study in Prevalent Dialysis Patients

description: <b><i>Introduction:</i></b> It is widely known that dialysis patients have significantly impaired functional outcomes and arterial stiffness, but still few studies have investigated the effects of dialysis longitudinally by a multidimensional approach. We aimed to assess longitudinal patterns of physical activity (PA), physical functioning (PF), health-related quality of life (HrQoL), body composition (BC), and arterial stiffness in prevalent dialysis patients. <b><i>Materials and Methods:</i></b> Thirty-nine prevalent dialysis patients (23 conventional hemodialysis [CHD] and 16 peritoneal dialysis) with a mean vintage of 25.7 (±22.1) months were included in this observational prospective study with a 2-year follow-up, and at baseline 20 healthy controls were included. Measurements were performed every 6 months. HrQoL was assessed using the Short Form-36 (SF-36) questionnaire. PA was assessed using the SenseWear™ Pro3 accelerometer. PF was assessed by walking speed, the PF subscale of the SF-36, and handgrip strength (HGS). BC was assessed using the Body Composition Monitor® and arterial stiffness by measuring carotid-femoral pulse wave velocity (PWV). The longitudinal trend was assessed using linear mixed models, correcting for sex, age, and dialysis vintage. For PWV, the trend was additionally corrected for diabetes and systolic blood pressure. <b><i>Results:</i></b> After correction, no statistically significant changes over time were observed for the parameters of PA, PF, HrQoL, and BC. In the combined group and in the group of CHD patients only, a significant change was observed for PWV (overall trend: <i>p</i> = 0.007 and <i>p</i> = 0.008, respectively). A statistically significant difference at baseline was observed between dialysis patients and healthy controls in all parameters, except for HGS and PWV. <b><i>Discussion/Conclusion:</i></b> We observed no statistically significant changes in functional outcomes during a 2-year follow-up period, but a significant increase was observed for arterial stiffness. These results might suggest that after a certain period in time, a relatively stable course is present in functional outcomes, but an ongoing deterioration in arterial stiffness occurs, which might increase the risk of cardiovascular disease and all-cause mortality in these patients.
DOI: 10.6084/m9.figshare.13147673.v1
title: Supplementary Material for: The Effects of Chronic Dialysis on Physical Status, Quality of Life, and Arterial Stiffness: A Longitudinal Study in Prevalent Dialysis Patients

description: <b><i>Introduction:</i></b> It is widely known that dialysis patients have significantly impaired functional outcomes and arterial stiffness, but still few studies have investigated the effects of dialysis longitudinally by a multidimensional approach. We aimed to assess longitudinal patterns of physical activity (PA), physical functioning (PF), health-related quality of life (HrQoL), body composition (BC), and arterial stiffness in prevalent dialysis patients. <b><i>Materials and Methods:</i></b> Thirty-nine prevalent dialysis patients (23 conventional hemodialysis [CHD] and 16 peritoneal dialysis) with a mean vintage of 25.7 (±22.1) months were included in this observational prospective study with a 2-year follow-up, and at baseline 20 healthy controls were included. Measurements were performed every 6 months. HrQoL was assessed using the Short Form-36 (SF-36) questionnaire. PA was assessed using the SenseWear™ Pro3 accelerometer. PF was assessed by walking speed, the PF subscale of the SF-36, and handgrip strength (HGS). BC was assessed using the Body Composition Monitor® and arterial stiffness by measuring carotid-femoral pulse wave velocity (PWV). The longitudinal trend was assessed using linear mixed models, correcting for sex, age, and dialysis vintage. For PWV, the trend was additionally corrected for diabetes and systolic blood pressure. <b><i>Results:</i></b> After correction, no statistically significant changes over time were observed for the parameters of PA, PF, HrQoL, and BC. In the combined group and in the group of CHD patients only, a significant change was observed for PWV (overall trend: <i>p</i> = 0.007 and <i>p</i> = 0.008, respectively). A statistically significant difference at baseline was observed between dialysis patients and healthy controls in all parameters, except for HGS and PWV. <b><i>Discussion/Conclusion:</i></b> We observed no statistically significant changes in functional outcomes during a 2-year follow-up period, but a significant increase was observed for arterial stiffness. These results might suggest that after a certain period in time, a relatively stable course is present in functional outcomes, but an ongoing deterioration in arterial stiffness occurs, which might increase the risk of cardiovascular disease and all-cause mortality in these patients.
DOI: 10.25919/5c36d4442c9ac
title: Lockyer Valley numerical groundwater flow simulation model

description: A numerical groundwater flow simulation model for the Lockyer Valley alluvial aquifer. The model was developed using the MODFLOW-NWT software package, in conjunction with parameter estimation software PEST and its utility software. The calibrated model simulates the aquifer responses to a set of groundwater stresses including groundwater extraction, irrigation recharge, and flood recharge.
DOI: 10.5281/zenodo.3924781
title: East Coast Low Database Southeast Australia

description: This east coast low (ECL) database 1970-2019 adjacent to the south east coast of Australia updates the database from 1970-2006 (Speer et al. 2009). This new database is restricted to April-September and records the initial date that a ECL forms in the area, its latitude/longitude position, central pressure on initial development and lowest pressure (strongest intensity), as shown on the Australian Bureau of Meteorology archived MSLP charts. In addition, if the ECL experiences a 24 h pressure drop greater than or equal to 10 hPa at 00 UTC, the date immediately at the end of the pressure drop is recorded. The data were grouped in 7 synoptic categories, as in Speer et al. (2009), followed by a division of those 7 that formed either in an easterly or westerly wind regime. Speer, MS., Wiles, P., Pepler, A. 2009. <em>Low pressure systems off the New South Wales coast and associated hazardous weather: establishment of a database.</em> <strong>Aust. Met. Mag., 58</strong>, 29-39. Speer, M.S., Leslie, L.M., Hartigan, J., MacNamara, S. <em>Trends in east coast low pressure systems affecting the southeast of Australia. </em><strong>J. South. Hemisphere Earth Sys. Sci. </strong><em>(in review)</em>
DOI: 10.6084/m9.figshare.12738224.v5
title: Musical preference in an online music community

description: This web page contains the dataset and supplementary material for the paper “Musical preference in an online music community” by Jintong Zhang and Haibo Hu. About the dataset, please see Dataset_description.pdf for detailed data description.
DOI: 10.17608/k6.auckland.13106576
title: Validation of the Regulatory Effects of T1D SNPs on Transcriptional Control of Gene Expression

description: Datasets for this project<br>
DOI: 10.17608/k6.auckland.13106576.v3
title: Validation of the Regulatory Effects of T1D SNPs on Transcriptional Control of Gene Expression

description: Datasets for this project<br>
DOI: 10.6084/m9.figshare.13147619
title: Orientia tsutsugamushi variant calls by sequence capture

description: Data from <i>Orientia tsutsugamushi</i> strains sequenced using target enrichment capture. Variant calls in VCF format for 31 strains, and a multi-fasta file with SNPs from the variant calls applied to the UT76 reference genome. The raw reads are available at in the Sequence Read Archive under project PRJEB39975.<br>
DOI: 10.6084/m9.figshare.13147619.v1
title: Orientia tsutsugamushi variant calls by sequence capture

description: Data from <i>Orientia tsutsugamushi</i> strains sequenced using target enrichment capture. Variant calls in VCF format for 31 strains, and a multi-fasta file with SNPs from the variant calls applied to the UT76 reference genome. The raw reads are available at in the Sequence Read Archive under project PRJEB39975.<br>
DOI: 10.6084/m9.figshare.13147748.v1
title: ted.csv

description: My test data<br>
DOI: 10.6084/m9.figshare.13147748
title: ted.csv

description: My test data<br>
DOI: 10.17632/t4pwzvvxy6.1
title: Data for: Synthesis and crystal structure of rare-earth biuret complexes with linear pentaiodide ions: Infinite polyiodide chains in a cationic framework

description: cif
DOI: 10.6084/m9.figshare.13147772
title: my_sample_figshare_data.xlsx

description: just for funThe data is a set of randomly generated values in Excel
DOI: 10.6084/m9.figshare.13147772.v1
title: my_sample_figshare_data.xlsx

description: just for funThe data is a set of randomly generated values in Excel
DOI: 10.17632/xvgb9rg7b7.1
title: Hyperactive CDK2 Activity in Basal-like Breast Cancer Imposes a Genome Integrity Liability that can be Exploited by Targeting DNA Polymerase Epsilon

description: Data from "Hyperactive CDK2 Activity in Basal-like Breast Cancer Imposes a Genome Integrity Liability that can be Exploited by Targeting DNA Polymerase Epsilon"
DOI: 10.17632/y83wdpwfbh.1
title: DLP & AFA

description: Source Date of the analysis performed during Fission Yeast meiosis, wt settings example
DOI: 10.17632/xbzw29tjz4.1
title: Identification of the Dominant Recombination Process for Perovskite Solar Cells Based on Machine Learning

description: Code and data used in the publication "Identification of the Dominant Recombination Process for Perovskite Solar Cells Based on Machine Learning" The dataset saved in the .csv files "balanced_dataset.csv" consist of over 10<sup>6</sup> simulated perovskite solar cells with their performance (V<sub>OC</sub>,J<sub>SC</sub> and FF) at (0.1,0.18,032,0.56,1) sun illuminations as well as the ideality factor (n) . This dataset was built using drift-diffusion open-source code SIMsalabim. (https://github.com/kostergroup/SIMsalabim)
DOI: 10.17632/nxsxgvthzm.1
title: Assessment of outcomes of calciphylaxis

description: Supplemental tables
DOI: 10.17632/b94vwmvkz2.1
title: SMARCD2 neutrophil chemotaxis
DOI: 10.17632/nn9ryfpy7h.1
title: Uncropped western blots UBE2J1 RNF26 2020

description: Uncropped Western blots to accompany manuscript ''ER-embedded UBE2J1/RNF26 ubiquitylation complex in spatiotemporal control of the endolysosomal pathway’ (CELL-REPORTS-D-19-04413''
DOI: 10.17632/rdr7nbwbx9.1
title: PUCV Contexto 19. Gráfico 2. Grado de dependencia de las instituciones de la colaboración internacional 2015-2019

description: Dependencia de las universidades chilenas de la colaboración internacional 2015-2019 Los indicadores de impacto y excelencia logrados por la PUCV no dependen de la colaboración internacional. La colaboración internacional es un rasgo de la ciencia actual, sin embargo, en la mayoría de las instituciones la proporción de la producción en Colaboración Internacional se contrapone con el nivel de liderazgo que las Universidades despliegan (Tabla 3 doi: 10.17632/k36dx32675.2). La colaboración internacional mide la proporción de la producción de una institución generada con la presencia de a lo menos un autor con filiación institucional diferente de Chile. El liderazgo es un atributo institucional que muestra la capacidad de las instituciones de publicar los resultados de los proyectos de investigación que formula, obtiene financiamiento y ejecuta. Una mayor proporción de producción liderada es indicativa del grado de autonomía de una universidad para investigar, definir la agenda de temas a estudiar, y de formar doctores con capacidad de investigar en forma autónoma. Una medida de ese grado de independencia o dependencia de las instituciones se determina midiendo el Gap entre Impacto Normalizado Total (Tabla 6 doi: 10.17632/zb8wvnwmcx.2) e Impacto Normalizado de la producción Liderada (Tabla 7 doi: 10.17632/zk8pfcm2x8.2). En el Gráfico 2 doi: 10.17632/rdr7nbwbx9.1, se muestra el impacto total y el liderado de las universidades en análisis. Las universidades que presentan un Gap de más de 30 puntos porcentuales entre ambos indicadores, se clasifican como instituciones dependientes de la colaboración internacional para el logro de sus resultados de impacto normalizado, las entre 20 y 29 se clasifican como instituciones semi-autónomas, y las con menos de 19 puntos de distancia se clasifican como instituciones autónomas. La PUCV se sitúa en la zona de instituciones autónomas con un gap de 13,1 puntos porcentuales, situándose como la segunda universidad más autónoma de conjunto en comparación.
DOI: 10.17632/vv5j5hxjwf.1
title: PUCV Contexto 20. Gráfico 3. IN-%E10 en 2019

description: Esfuerzo investigador relativo al Impacto Normalizado Liderado y Excelencia 10 Liderada en universidades de Chile 2019 La PUCV equilibra Impacto Normalizado Liderado y Excelencia 10 Liderada, logrando el mejor resultado en el conjunto de las universidades de comparación. Al filtrar la producción liderada se puede comparar en el año 2019 el Impacto Normalizado Liderado (Tabla 7 doi: 10.17632/zk8pfcm2x8.2), con la proporción de la producción que alcanza la Excelencia 10 Liderada (Tabla 9 doi: 10.17632/v4pbgvs6sm.2) en relación al tamaño de la producción institucional. En el Gráfico 3 doi: 10.17632/vv5j5hxjwf.1, se distribuyen en un plano cartesiano estas tres variables, situando como límites, el Impacto Normalizado Liderado obtenidos por el sector universidades en Chile (0,72), y la proporción de producción que alcanza la Excelencia 10 Liderada en el sector Universidades en el país (4,9). Como se puede apreciar la PUCV muestra la mejor relación INwL y E10wL en el conjunto de universidades analizadas, denotando el mejor balance en entre Impacto Normalizado y Excelencia. Estos dos indicadores cualitativos, denotativos que la calidad de los resultados de investigación generados por la PUCV, son mérito de sus propios investigadores, no el resultado afectado por los acuerdos de colaboración internacional (v.g. Proyecto Atlas del CERN).
DOI: 10.17632/gzn3twnp3n.1
title: PUCV Contexto 21. Gráfico 4. INwL-%E10wL en 2019

description: INwL-%E10wL en universidades de Chile en 2019 En la PUCV el crecimiento 2011-2019 en cantidad de producción es acompañado de crecimiento en Impacto Normalizado Liderado. Como se mostró al inicio de este apartado, las universidades nacionales crecen dinámicamente en producción, siendo difícil para los tres actores más grandes (UCH, PUC y UCO), acompañar la tasa de crecimiento 2015-2019 de 33 puntos porcentuales. En un escenario de crecimiento acelerado, en donde se suman nuevos investigadores y campos de investigación, mantener el nivel de Impacto Normalizado y particularmente el Impacto Normalizado Liderado es difícil. En el Gráfico 4 doi: 10.17632/gzn3twnp3n.1, se muestra como en 2011-2019 en promedios móviles con solapamiento, la PUCV es uno de los pocos actores que crece equilibradamente en Producción Liderada y en Impacto Normalizado Liderado.