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PHQ-9 and GAD-7 Coded Dataset
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Radiogrammetric parameters of the femur were assessed in an adult sample (N=98) from the Coimbra Identified Skeletal Collection (Portugal). Anteroposterior radiographs of the midshaft area of the left femur of each individual were taken using a mammogram film with an exposure time of mAseg 80-50,exposure of Kv 30-35 and focal distance of 1.0 m. Maximum length of the femur, as defined by Martin and Saller (1957), was determined. Measurements of diaphysis total width (DTW) and medullary width (MW) were taken following a standardized guide. Radiogrammetry was used to establish cortical index (FEMCI) in the femoral mid-shaft. Diaphysis total width (DTW) and femoral cortical index (FEMCI) are significantly higher in males, while medullary width (MW) is not statistically different between sexes. The evaluation of femoral cortical bone reveals sex-specific trajectories of endosteal bone loss and periosteal apposition, stemming from sexual differences in the rate and pattern of bone loss, and in bone size. In females, endocortical bone loss rises with age, particularly in peri- and postmenopausal years, decelerating later in life. Concomitantly, accretion of bone in the subperiosteal surface persists throughout adulthood — partially offsetting bone fragility in women. Strength in the femoral mid-diaphysis appears to be preserved throughout most of the life course in both sexes.
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Distinguishing between bull Y- and X-bearing sperm populations is advantageous for techniques with sexed bull semen. The aim of this study was to produce a single-chain fragment variable (scFv) antibody against plasma membrane epitopes on bull Y-bearing sperm to distinguish between Y- and X- sperm. Variable heavy (VH) and variable light (VL) region genes generated from a hybridoma cell secreting a specific Y-bearing sperm monoclonal antibody (mAb-1F9) were cloned and expressed. The expected sizes of the DNA bands were ~350 bp for the VH gene and ~318 bp for the VL gene. The VH and VL genes were generated and used to construct an scFv gene (~650 bp) and express the corresponding soluble scFv antibody. Compared with the parent mAb-1F9, the scFv antibodies presented a high affinity for Y-bearing sperm and low cross-reactivity with X-bearing sperm. An immunofluorescence analysis confirmed that the scFv antibodies and mAb-1F9 recognize epitopes on the Y-bearing sperm surface. The fluorescence signal was strong on the plasma membrane of Y-bearing sperm but very weak for X-bearing sperm. This study helps the application and production of engineered scFv antibodies specific to Y-bearing sperm to distinguish between Y- and X-bearing sperm populations for techniques involving sexed bull semen
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1H-NMR spectroscopy data from 24-hr urine samples from Diets 1 and 4, Dietary Metabotype Score (DMS), blood glucose measurement and urinary calorific value. Data contains quantified values for identified metabolites (in mmol/ml) of 24-hr urine samples for 19 volunteers for the two reference diets in Excel format. For each sample, the DMS, area-under-the-curve (AUC) glucose and calorific value (in J/g) are also given. This data accompanies Garcia-Perez et al. (2020) "Dietary metabotype modelling predicts individual responses to dietary interventions: A feasibility study" Nature Food (submitted, ref.: NATFOOD-19060125C)
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The Excel File and Mat File contain the raw and transformed data that we used in our paper 'Financial Wealth, Investment and Sentiment in a Bayesian DSGE Model'.
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  • Software/Code
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Data and code files for manuscript submitted to the Journal of Theoretical Biology.
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Different human linker histone (H1) variants are expected to have distinct binding modes to the nucleosome. The position and orientation of a number of different H1 globular domains on the nucleosome were investigated through molecular docking using MGLTools and HADDOCK. The nucleosome core and linker DNA in the GH5-chromatosome structure (PDB: 4QLC) were used as a docking template. GH5 (in PDB: 4QLC) was re-docked to this template to test the docking algorithm. Docked and re-docked GH5 compared well. The docking algorithm was further tested by docking the NMR solution structure of the globular domain of chicken H1 (GH1, PDB: 1GHC) to the nucleosome template. The position of docked GH1 on the nucleosome agreed with literature. 
The N-terminal - and globular domain H1x hybrid (NGH1x) was studied using solution NMR in both low (20 mM sodium phosphate, pH 7.0) and high (20 mM sodium phosphate, 1 M sodium perchlorate, pH 7.0) ionic strength conditions (de Wit, H., Vallet, A., Brutscher, B. et al. Biomol NMR Assign (2019) 13: 249. https://doi.org/10.1007/s12104-019-09886-x). These low and high ionic strength structures were docked to the nucleosome template. 
Homology (MODELLER) and ab initio modeling (CS-ROSETTA) were employed to model structures for other human H1 globular domains: GH1.0, GH1.4, GH1oo, and GH1t. The modeled structures were also docked to the nucleosome template.
 All the docking procedures listed above produced 100 models of different energies. In each case, the lowest energy docked model was chosen. The structures of all the H1 globular domains that were docked to the template are given as PDB files (1GHC_lowest_energy.pdb; 2LSO_lowest_energy.pdb; GH5_re-docked_position.pdb; NGH1x_high_salt_NTD.pdb; NGH1x_low_salt_NTD.pdb; modeled_GH1_0_lowest_energy.pdb; modeled_GH1_4_lowest_energy.pdb; modeled_GH1oo_lowest_energy.pdb; modelled_GH1t_lowest_energy.pdb) in the data file. The nucleosome template structure is also given in PDB file format (4QLC_nucleosome_without_GH5.pdb). Finally, the docked models are also given (GH5-chromatosome.pdb; 1GHC-chromatosome.pdb; 2LSO-chromatosome.pdb; GH1_0-chromatosome.pdb; GH1_4-chromatosome.pdb; GH1oo-chromatosome.pdb; GH1t-chromatosome.pdb; NGH1x_no_salt-chromatosome.pdb; NGH1x_salt-chromatosome.pdb). The files are compatible with most molecular graphics software. The file Dockings_modelling_test_and_results.pdf provides the modeling and docking results in figures and tables. A short description of each figure and table is given within the PDF file.
Data Types:
  • Sequencing Data
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  • Document
Even though partisan cues are widely recognized as a primary force shaping voter behavior in a referendum, their effect on a decision whether to attend or abstain from voting has not yet been carefully studied. Our analysis of the pre-referendum survey data gathered before the 2015 citizen-initiated referendum in Slovakia leads to two important conclusions: First, parties’ recommendations whether to attend or abstain from voting influence voters’ behavior in a similar fashion as their suggestions for which side to vote for. Moreover, in certain institutional settings, the partisan cues related to mobilization have an even stronger impact on voters than endorsements for who or what to vote for. Second, the provided party recommendations must be unambiguous and clear. Lower clarity cues are reflected in voters’ behavior to a lesser extent. Note: Data is originally collected by the FOCUS Agency (in Slovakia) on demand of the Daily SME. All the essential information could be found in the .xlsx file.
Data Types:
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Supplementary materials for publication JAAD-D-19-02716 (Lim et al. Novel Mutations Identified by Whole Exome Sequencing in Acral Melanoma. J Am Acad Dermatol. 2020) Supplementary Appendix 1: Detailed methods Supplementary Appendix 2: Clinical details of 31 acral melanoma patients including 7 nail apparatus melanoma patients Supplementary Appendix 3: Single nucleotide variations and small indels identified through WES Supplementary Appendix 4: Several genes whose mutations were repeatedly detected in this study and previously reported in the literature in association with melanoma Supplementary Appendix 5: Previous studies on the association of CSMD3 and EHMT1 with malignancies
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This data set contains the following data files: - `biomat-conductivity.csv`: Measured hydraulic conductivities of the soil and biomat - `biomat-growth.csv`: Time for sensor positions (within upper 5 cm) to reach a 2.5% increase in VWC for each site and treatment - `biomat-parameters.csv`: Parameters for biomat growth models - `effluent-data.csv`: Effluent pollutant concentrations - `hydrus-parameters.csv`: Parameters used in HYDRUS modeling - `met-data.csv`: Meteorological data - `sensor-control.csv`: VWC observations for control sensors installed outside the soil treatment unit - `sensor-meta.csv`: Meta data for sensor locations - `site-meta.csv`: Meta data for the research sites - `vwc-predrought.csv`: VWC changes before the onset of the summer 2018 drought - `vwc-postdrought.csv`: VWC changes during the summer 2018 drought A detailed description of the content of each data file is given in the codebook provided with this dataset.
Data Types:
  • Tabular Data
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  • Text