cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.10271645
title: Supplementary Material for: Rhythmic Release of Corticosterone Induces Circadian Clock Gene Expression in the Cerebellum

description: Neurons of the cerebellar cortex contain a circadian oscillator, with circadian expression of clock genes being controlled by the master clock of the suprachiasmatic nucleus (SCN). However, the signaling pathway connecting the SCN to the cerebellum is unknown. Glucocorticoids exhibit a prominent SCN-dependent circadian rhythm, and high levels of the glucocorticoid receptor have been reported in the cerebellar cortex; we therefore hypothesized that glucocorticoids may control the rhythmic expression of clock genes in the cerebellar cortex. We here applied a novel methodology by combining the electrolytic lesion of the SCN with implantation of a micropump programmed to release corticosterone in a circadian manner mimicking the endogenous hormone profile. By use of this approach, we were able to restore the corticosterone rhythm in SCN-lesioned male rats. Clock gene expression in the cerebellum was abolished in rats with a lesioned SCN, but exogenous corticosterone restored the daily rhythm in clock gene expression in the cerebellar cortex, as revealed by quantitative real-time PCR and radiochemical in situ hybridization for the detection of the core clock genes <i>Per1</i>, <i>Per2,</i> and <i>Arntl</i>. On the contrary, exogenous hormone did not restore circadian rhythms in body temperature and running activity. RNAscope in situ hybridization further revealed that the glucocorticoid receptor colocalizes with clock gene products in cells of the cerebellar cortex, suggesting that corticosterone exerts its actions by binding directly to receptors in neurons of the cerebellum. However, rhythmic clock gene expression in the cerebellum was also detectable in adrenalectomized rats, indicating that additional control mechanisms exist. These data show that the cerebellar circadian oscillator is influenced by SCN-dependent rhythmic release of corticosterone.
DOI: 10.6084/m9.figshare.10271552
title: exp 1 (swedish data) 'emotional faces and biological motion study'

description: raw data obtained from sweden for experiment 1. The demographic spreadsheet is included. To understand the individual data sets, see the files 'DATA_DESCRIPTIVE_swedish.csv' and particularly 'DATA_DESCRIPTIVE_Ps.csv'
DOI: 10.6084/m9.figshare.10271561
title: Strengths and Weaknesses of Technical Debt Tools: replication package

description: dataset for the paper "Strengths and Weaknesses of Technical Debt Tools"
DOI: 10.6084/m9.figshare.10271645.v1
title: Supplementary Material for: Rhythmic Release of Corticosterone Induces Circadian Clock Gene Expression in the Cerebellum

description: Neurons of the cerebellar cortex contain a circadian oscillator, with circadian expression of clock genes being controlled by the master clock of the suprachiasmatic nucleus (SCN). However, the signaling pathway connecting the SCN to the cerebellum is unknown. Glucocorticoids exhibit a prominent SCN-dependent circadian rhythm, and high levels of the glucocorticoid receptor have been reported in the cerebellar cortex; we therefore hypothesized that glucocorticoids may control the rhythmic expression of clock genes in the cerebellar cortex. We here applied a novel methodology by combining the electrolytic lesion of the SCN with implantation of a micropump programmed to release corticosterone in a circadian manner mimicking the endogenous hormone profile. By use of this approach, we were able to restore the corticosterone rhythm in SCN-lesioned male rats. Clock gene expression in the cerebellum was abolished in rats with a lesioned SCN, but exogenous corticosterone restored the daily rhythm in clock gene expression in the cerebellar cortex, as revealed by quantitative real-time PCR and radiochemical in situ hybridization for the detection of the core clock genes <i>Per1</i>, <i>Per2,</i> and <i>Arntl</i>. On the contrary, exogenous hormone did not restore circadian rhythms in body temperature and running activity. RNAscope in situ hybridization further revealed that the glucocorticoid receptor colocalizes with clock gene products in cells of the cerebellar cortex, suggesting that corticosterone exerts its actions by binding directly to receptors in neurons of the cerebellum. However, rhythmic clock gene expression in the cerebellum was also detectable in adrenalectomized rats, indicating that additional control mechanisms exist. These data show that the cerebellar circadian oscillator is influenced by SCN-dependent rhythmic release of corticosterone.
DOI: 10.6084/m9.figshare.10271543
title: exp 1 (polish data) 'emotional faces and biological motion study'

description: raw data obtained from poland for experiment 1. The demographic spreadsheet is included.
DOI: 10.6084/m9.figshare.10271549
title: exp 2 (japan data) 'emotional faces and biological motion study'

description: raw data obtained from japan for experiment 2. The demographic spreadsheet is included.
DOI: 10.6084/m9.figshare.10271561.v1
title: Strengths and Weaknesses of Technical Debt Tools: replication package

description: dataset for the paper "Strengths and Weaknesses of Technical Debt Tools"
DOI: 10.6084/m9.figshare.10271534
title: Detection and quantification of <i>Melissococcus plutonius</i> in honey bee workers exposed to European foulbrood in Czechia through conventional PCR, qPCR, and barcode sequencing

description: <i>Melissococcus plutonius</i> is the causative agent of European foulbrood (EFB), an important bacterial disease of honey bee larvae, and various methods have been developed for the detection of this disease. Adult bees are not affected but spread <i>M. plutonius</i> among beehives and serve as a diagnostic tool to detect EFB. <i>Melissococcus plutonius</i> detection based on conventional polymerase chain reaction (PCR) (16S DNA), qPCR (sodA), and barcode sequencing of the 16S RNA V4 region in worker bees from colonies with and without clinical symptoms were compared. We validated these detection tools in terms of the presence/absence of clinical signs of the disease. The comparison of the PCR- and qPCR-based methods showed their usability for confirmation of the disease in both colonies with and without clinical symptoms. Our results revealed that qPCR was more suitable for the confirmation of clinical EFB than conventional PCR and that conventional PCR was better for general screening, including the screening of asymptomatic colonies, than qPCR. Redundancy analyses (tbRDAs) of the microbiome composition showed that the detection limit-based qPCR of <i>M. plutonius</i> revealed a greater variability in the microbiome profiles of worker bees compared with that explained by clinical signs of the disease and PCR detection as factors. The presence of “secondary invaders” (<i>Paenibacillus alvei</i> and <i>Enterococcus</i>) was positively correlated with an increase in the profile of <i>M. plutonius</i> in the worker bee microbiome, whereas <i>Apibacter adventoris</i> and <i>Bartonella apis</i> were negatively correlated. Both types of correlations were found among Lactobacilli.
DOI: 10.6084/m9.figshare.10271537
title: exp 1 (japan data) 'emotional faces and biological motion study'

description: raw data obtained from japan for experiment 1. The demographic spreadsheet is included.
DOI: 10.6084/m9.figshare.10271552.v2
title: exp 1 (swedish data) 'emotional faces and biological motion study'

description: raw data obtained from sweden for experiment 1. The demographic spreadsheet is included. To understand the individual data sets, see the files 'DATA_DESCRIPTIVE_swedish.csv' and particularly 'DATA_DESCRIPTIVE_Ps.csv'
DOI: 10.6084/m9.figshare.10271543.v2
title: exp 1 (polish data) 'emotional faces and biological motion study'

description: raw data obtained from poland for experiment 1. The demographic spreadsheet is included.
DOI: 10.6084/m9.figshare.10271549.v2
title: exp 2 (japan data) 'emotional faces and biological motion study'

description: raw data obtained from japan for experiment 2. The demographic spreadsheet is included.
DOI: 10.6084/m9.figshare.10271552.v1
title: exp 1 (swedish data)

description: raw data obtained from sweden for experiment 1. The demographic spreadsheet is included. To understand the individual data sets, see the files 'DATA_DESCRIPTIVE_swedish.csv' and particularly 'DATA_DESCRIPTIVE_Ps.csv'
DOI: 10.6084/m9.figshare.10271534.v1
title: Detection and quantification of <i>Melissococcus plutonius</i> in honey bee workers exposed to European foulbrood in Czechia through conventional PCR, qPCR, and barcode sequencing

description: <i>Melissococcus plutonius</i> is the causative agent of European foulbrood (EFB), an important bacterial disease of honey bee larvae, and various methods have been developed for the detection of this disease. Adult bees are not affected but spread <i>M. plutonius</i> among beehives and serve as a diagnostic tool to detect EFB. <i>Melissococcus plutonius</i> detection based on conventional polymerase chain reaction (PCR) (16S DNA), qPCR (sodA), and barcode sequencing of the 16S RNA V4 region in worker bees from colonies with and without clinical symptoms were compared. We validated these detection tools in terms of the presence/absence of clinical signs of the disease. The comparison of the PCR- and qPCR-based methods showed their usability for confirmation of the disease in both colonies with and without clinical symptoms. Our results revealed that qPCR was more suitable for the confirmation of clinical EFB than conventional PCR and that conventional PCR was better for general screening, including the screening of asymptomatic colonies, than qPCR. Redundancy analyses (tbRDAs) of the microbiome composition showed that the detection limit-based qPCR of <i>M. plutonius</i> revealed a greater variability in the microbiome profiles of worker bees compared with that explained by clinical signs of the disease and PCR detection as factors. The presence of “secondary invaders” (<i>Paenibacillus alvei</i> and <i>Enterococcus</i>) was positively correlated with an increase in the profile of <i>M. plutonius</i> in the worker bee microbiome, whereas <i>Apibacter adventoris</i> and <i>Bartonella apis</i> were negatively correlated. Both types of correlations were found among Lactobacilli.
DOI: 10.6084/m9.figshare.10271531
title: Supplementary Material for: Neck Melanoma: Clinical, Dermoscopic and Confocal Features

description: <b><i>Background:</i></b> The head and neck are considered one single anatomical unit. No data on clinical, dermoscopic and confocal aspects of neck melanoma are currently available. <b><i>Objectives:</i></b> To identify clinical, dermoscopic and confocal diagnostic features of neck melanomas. <b><i>Methods:</i></b> Consecutive malignant (cases) and benign (controls) melanocytic skin lesions located on the neck, excised as suspected of being melanoma from March 2011 to February 2018, were retrospectively retrieved. Dermoscopic criteria of the 7-point checklist, integrated by other melanoma features (such as grey colour and irregular hyperpigmented areas) were assessed. Reflectance confocal microscopy (RCM) images were examined when available. <b><i>Results:</i></b> 282 lesions located to the head and neck area were biopsied to rule out melanoma. Thirty-one out of 282 (11%) lesions were located on the neck: 21 melanomas and 10 naevi. Melanoma patients were older than patients with naevi (mean age: 60.4 vs. 37.9 years, <i>p</i> &lt; 0.001). Neck melanomas were more frequently located on sun-damaged skin compared to naevi (76.2 vs. 30%, <i>p</i> = 0.02). Dermoscopically, neck melanomas were characterized by irregular dots/globules, grey colour and regression (76.2, 81 and 46.7% of cases) and showed criteria of lentigo maligna melanoma (LMM) in 52.4% of cases. Regression, grey colour, irregular hyperpigmented areas and criteria of LMM typified melanomas on sun-damaged skin, whereas tumours located on non-sun-damaged areas were often characterized by irregular pigmentation (blotches). RCM, implemented to dermoscopy, correctly diagnosed 10/12 melanomas and 3/5 naevi. <b><i>Conclusion:</i></b> Neck melanoma has peculiar clinical and dermoscopic aspects that could help clinicians to distinguish it from naevi and to diagnose melanoma earlier.
DOI: 10.6084/m9.figshare.10271543.v1
title: exp 1 (polish data)

description: raw data obtained from poland for experiment 1. The demographic spreadsheet is included.
DOI: 10.7284/145119
title: Radiometer data collected during research cruise AR60-02 using a Biospherical QSR-2150 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5281/zenodo.7500929
title: Replication Package for "A Catch-22--the Test-Retest  Method of Reliability Estimation"

description: Replication package for the paper "A Catch-22--the Test-Retest Method of Reliability Estimation".
Files included in the replication package and purpose of each file:
[1]Datafiles containing variables used in the analysis: question  content, stability and reliability estimates (in SPSS and Stata format):01_GSS_gammaV26_April2022_extract.sav01_GSS_gammaV26_April2022_extract.dta01_GSS_gammaV26_April2022_long_extract.dta
[2]SPSS Syntax file for replicating Tables 2,3 and Appendix Table: 02_SPSS_syntax_Catch22.sps
[3]Stata .do file containing the code for the regression models (Table 4):03_Stata_code_Catch22.do
[4]List of GSS variables, wordings, and responses for variables included in the analysis (Excel file)04_GSS variable wordings.xlsx 
description: Research was supported by several grants to Duane F. Alwin from the National Science Foundation: (1) "The Reliability of Survey Data" (SES-971043), 1997-2000; (2) "Archiving Information on the Quality of Survey Measurement" (SES-1259445), 2013-2016; and (3) "The Reliability of Survey Data: The Effects of Question Content, Context and Form"(SES-1850852), 2019-2022.
DOI: 10.5281/zenodo.7500930
title: Replication Package for "A Catch-22--the Test-Retest  Method of Reliability Estimation"

description: Replication package for the paper "A Catch-22--the Test-Retest Method of Reliability Estimation".
Files included in the replication package and purpose of each file:
[1]Datafiles containing variables used in the analysis: question  content, stability and reliability estimates (in SPSS and Stata format):01_GSS_gammaV26_April2022_extract.sav01_GSS_gammaV26_April2022_extract.dta01_GSS_gammaV26_April2022_long_extract.dta
[2]SPSS Syntax file for replicating Tables 2,3 and Appendix Table: 02_SPSS_syntax_Catch22.sps
[3]Stata .do file containing the code for the regression models (Table 4):03_Stata_code_Catch22.do
[4]List of GSS variables, wordings, and responses for variables included in the analysis (Excel file)04_GSS variable wordings.xlsx 
description: Research was supported by several grants to Duane F. Alwin from the National Science Foundation: (1) "The Reliability of Survey Data" (SES-971043), 1997-2000; (2) "Archiving Information on the Quality of Survey Measurement" (SES-1259445), 2013-2016; and (3) "The Reliability of Survey Data: The Effects of Question Content, Context and Form"(SES-1850852), 2019-2022.
DOI: 10.7284/145116
title: Singlebeam Echosounder data collected during research cruise AR60-02 using a Knudsen 3260 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/145135
title: Speedlog data collected during research cruise AR60-02 using a Furuno DS-60 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/145136
title: SSV (Sound Speed Velocimeter) data collected during research cruise AR60-02 using a Valeport Thru-Hull SVS instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/145126
title: Water Temperature data collected during research cruise AR60-02 using a SeaBird SBE-48 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/145137
title: Transmissometer data collected during research cruise AR60-02 using a SeaBird C-Star instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/145114
title: TSG (Thermosalinograph) data collected during research cruise AR60-02 using a SeaBird SBE-45 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152978
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE22-25 using a Trimble ABX-Two instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152938
title: Gyrocompass data collected during research cruise PE22-25 using a Sperry NAVIGAT X MK 1 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152939
title: Meteorological Station data collected during research cruise PE22-25 using a RMYoung 92000 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152940
title: Meteorological Station data collected during research cruise PE22-25 using a RMYoung 92000 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152937
title: Transmissometer data collected during research cruise PE22-25 using a WETLabs C-Star instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152936
title: TSG (Thermosalinograph) data collected during research cruise PE22-25 using a SeaBird SBE-21 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152949
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PE22-27 using a SeaBird SBE-911+ instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/152963
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PE22-29 using a SeaBird SBE-911+ instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5066/p9vrgj1j
title: Landsat 9 Collection 2 cloud truth mask validation set

description: The U.S. Geological Survey (USGS) Earth Resources Observation and Science (EROS) Center in Sioux Falls, SD developed a cloud validation dataset from 48 unique Landsat 9 Collection 2 images. These images were selected at random from the Landsat 9 archive from various locations around the world.��While these validation images were subjectively designed by a single analyst, they provide useful information for quantifying the accuracy of clouds flagged by various cloud masking algorithms. Each mask is provided in GeoTIFF format, and includes all bands from the original Landsat 9 Collection 2 Level-1 data product (COG GeoTIFF), and its associated Level-1 metadata (MTL.txt file).
DOI: 10.5066/p90lzvir
title: Data from Assessing the added value of antecedent streamflow alteration in modelling stream condition

description: The dataset contains long-term and short-term summaries of streamflow alteration and measures of biological condition (fish multi-metric index). Streamflow alteration metrics include the magnitude, duration, frequency, and seasonality of high and low flow streamflow. Biological condition was estimated from the National Rivers and Streams Assessment and National Water Quality Assessment fish sampling programs. Using fish samples, a fish multi-metric index was calculated and categorized into altered versus non-altered fish communities.
DOI: 10.5281/zenodo.7802210
title: Dataset for "Segmentation of Lipid Droplets in Histological Images"

description: Datasets for the publication "Segmentation of Lipid Droplets in Histological Images" (Medical Imaging with Deep Learning (MIDL 2023), short paper track. 2023. https://openreview.net/forum?id=nTnAm_El0RC)
DOI: 10.5281/zenodo.7802211
title: Dataset for "Segmentation of Lipid Droplets in Histological Images"

description: Datasets for the publication "Segmentation of Lipid Droplets in Histological Images" (Medical Imaging with Deep Learning (MIDL 2023), short paper track. 2023. https://openreview.net/forum?id=nTnAm_El0RC)
DOI: 10.6084/m9.figshare.24560773
title: Dataset on the tested and simulated response of thick cold-formed circular hollow sections under cyclic loading

description: "Dataset on the tested and simulated response of thick cold-formed circular hollow sections under cyclic loading"Adam Jan Sadowski, Wei Jun Wong, Sai Chung Simon Li, Christian Málaga-Chuquitaype and Dimitris PachakisUniaxial material tensile testing was performed following standardised procedures (e.g. ASTM A370-14) with an Instron 250kN 8802 dynamic machine, supplemented by extensometers, uniaxial strain gauges and geometry measurements by digital Vernier callipers. The raw data was processed to correct for the load eccentricity caused by the double-curvature of the dog-bone specimens.Cyclic three-point bending tests were performed in a custom-built rig with a displacement-controlled loading protocol introduced by an Instron hydraulic actuator, together with uniaxial strain gauges, string potentiometers and a two-pair (four-camera) digital image correction (DIC) system. The DIC data gathered continuous surface deformation fields in the vicinity of the midspan plastic hinge, subsequently processed with the DaVis v8.4 software and custom-written Matlab code to approximate the local curvature of the neutral axis at this location.Finite element simulations were performed using the ABAQUS commercial software to reproduce the cyclic three-point bending tests which assumed perfect cylindrical geometries but used a kinematic strain hardening model calibrated as far as was possible on the uniaxial ‘half-cycle’ material tensile test data. Test vs. simulation comparisons appear acceptable and may be used for model validation and benchmarking purposes. Matlab code was developed to facilitate this comparison.The original research was funded by a Research Award from the UK Institution of Structural Engineers (IStructE), with additional financial support from COWI UK Ltd.The Authors are grateful for the kind help provided by Mr Leslie Clark, Mr Stefan Algar and Mr Andy Pullen of the Structures Laboratory of Imperial College London.
DOI: 10.7284/137087
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise PS1921 using a Hawaii UHDAS instrument system onboard the platform RV Point Sur

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137088
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PS1921 using a SeaBird SBE-911+ instrument system onboard the platform RV Point Sur

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137090
title: GNSS (Global Navigation Satellite System) data collected during research cruise PS1921 using a Trimble ABX-Two instrument system onboard the platform RV Point Sur

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137094
title: GNSS (Global Navigation Satellite System) data collected during research cruise PS1921 using a Trimble BX982 instrument system onboard the platform RV Point Sur

description: Original (unprocessed) data collected during a Field_expedition