cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.1288493
title: PsPM-LI: SCR, ECG, PSR and respiration measurements in a delay fear conditioning task with auditory CS and electrical US.

description: This dataset includes pupil size response (PSR), skin conductance response(SCR), electrocardiogram (ECG) and respiration measurements for each of 20 healthy unmedicated participants (8 males and 12 females aged 22.8+/-3.3 years) participating in a classical (Pavlovian) discriminant delay fear conditioning task. (One additional participant in the initial sample in Korn et al. (2017) - but who did not finish the experiment and was not included into the analysis - is not contained in this dataset.) The acquisition data is separated into two sessions which were recorded consecutively with a break of approximately 5 min. CS consist of two sine tones with constant frequency (220 Hz or 440 Hz, 50-ms onset and offset ramp) and last for 6.5 s. US is a 0.5 s train of electric square pulses delivered with a constant current stimulator (Digitimer DS7A, Digitimer, Welwyn Garden City, UK) on participants' dominant forearm through a pin-cathode/ring-anode configuration. SOA betwen the CS and US is 6 s. The ITI is randomly determined on each trial to be 7, 9, or 11 s.
description: See the readme file for more detail. Pre-processed data are contained in data_pp.zip and described in readme_pp.txt. Data are stored as .mat files for use with MATLAB (The MathWorks Inc., Natick, USA) in a format readable by the PsPM toolbox (pspm.sourceforge.net). All matlab files are saved in MATLAB 9.3 (R2017b) format. This research was supported by Wellcome Trust grant 091593/Z/10/Z, and Swiss National Science Foundation grant 320030_149586/1. Data pre-processing was supported by the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (Grant agreement No. ERC-2018 CoG-816564 ActionContraThreat).
DOI: 10.6084/m9.figshare.21774926
title: Reads_part_one

description: Part one of PacBio HiFi Reads
DOI: 10.6084/m9.figshare.21774926.v3
title: Reads_part_one

description: Part one of PacBio HiFi Reads
DOI: 10.6084/m9.figshare.21774926.v2
title: Reads_part_one

description: Part one of PacBio HiFi Reads
DOI: 10.6073/pasta/ce25957018854d459fecdc45b5a2d0dd
title: Net nitrogen mineralization and nitrification across Long Term Ecological Research (LTER) Sites

description: This project organizes data files and code associated with a study evaluating the effect of soil C concentration in the relationship between net N mineralization and net nitrification across terrestrial Long Term Ecological Research (LTER) sites in North America. Data were aggregated from publically-available LTER databases. Replicated-averaged data and code to replicate figures and analyses in Gill et al. 2022. Soil carbon availability decouples net nitrogen mineralization and net nitrification across United States Long Term Ecological Research Site. Biogeochemistry.
DOI: 10.5281/zenodo.7078895
title: Data From: B1 Field inhomogeneity correction for qDESS T2 mapping: application to rapid bilateral knee imaging

description: T2 mapping is a powerful tool for studying osteoarthritis (OA) changes and bilateral imaging may be useful in investigating the role of between-knee asymmetry in OA onset and progression. The quantitative double-echo in steady-state (qDESS) can provide fast simultaneous bilateral knee T2 and high-resolution morphometry for cartilage and meniscus. The qDESS uses an analytical signal model to compute T2 relaxometry maps, which require knowledge of the flip angle (FA). In the presence of B1 inhomogeneities, inconsistencies between the nominal and actual FA can affect the accuracy of T2 measurements. We propose a pixel-wise B1 correction method for qDESS 2 mapping exploiting an auxiliary B1 map to compute the actual FA used in the model. The technique was validated in a phantom and in vivo with simultaneous bilateral knee imaging. T2 measurements of femoral cartilage (FC) of both knees of a healthy participant were repeated longitudinally to investigate the association between T2 variation and B1. The results showed that applying the B1 correction could mitigate T2 variations that were driven by B1 inhomogeneities. Specifically, T2 left-right symmetry increased following the B1 correction. Without the B1 correction, T2 values showed a significant (p&lt;0.05) moderate Pearson’s correlation with B1 across time points (0.68 &lt;r&lt;0.70 and 0.74&lt;r&lt;0.79, for the left and right knee, respectively). The correlations and slopes decreased using the B1 correction (0.01&lt;r&lt;0.02 and 0.48&lt;r&lt;0.55, for left and right knee, respectively) and were not statistically significant (p &gt; 0.05). In conclusion, the study showed that B1 correction could mitigate variations driven by the sensitivity of the qDESS T2 mapping method to B1, therefore increasing the sensitivity to detect real biological changes. The proposed method may improve the robustness of bilateral qDESS T2 mapping, allowing for an accurate and more efficient evaluation of OA pathways and pathophysiology through longitudinal and cross-sectional studies. <strong>This repository contains the raw data for reproducing the results reported in the paper. The data are provided in NIFTI format.</strong>
description: You may reach out to the corresponding author for questions/issues regarding the data provided in the repository.
DOI: 10.5281/zenodo.7078894
title: Data From: B1 Field inhomogeneity correction for qDESS T2 mapping: application to rapid bilateral knee imaging

description: T2 mapping is a powerful tool for studying osteoarthritis (OA) changes and bilateral imaging may be useful in investigating the role of between-knee asymmetry in OA onset and progression. The quantitative double-echo in steady-state (qDESS) can provide fast simultaneous bilateral knee T2 and high-resolution morphometry for cartilage and meniscus. The qDESS uses an analytical signal model to compute T2 relaxometry maps, which require knowledge of the flip angle (FA). In the presence of B1 inhomogeneities, inconsistencies between the nominal and actual FA can affect the accuracy of T2 measurements. We propose a pixel-wise B1 correction method for qDESS 2 mapping exploiting an auxiliary B1 map to compute the actual FA used in the model. The technique was validated in a phantom and in vivo with simultaneous bilateral knee imaging. T2 measurements of femoral cartilage (FC) of both knees of a healthy participant were repeated longitudinally to investigate the association between T2 variation and B1. The results showed that applying the B1 correction could mitigate T2 variations that were driven by B1 inhomogeneities. Specifically, T2 left-right symmetry increased following the B1 correction. Without the B1 correction, T2 values showed a significant (p&lt;0.05) moderate Pearson’s correlation with B1 across time points (0.68 &lt;r&lt;0.70 and 0.74&lt;r&lt;0.79, for the left and right knee, respectively). The correlations and slopes decreased using the B1 correction (0.01&lt;r&lt;0.02 and 0.48&lt;r&lt;0.55, for left and right knee, respectively) and were not statistically significant (p &gt; 0.05). In conclusion, the study showed that B1 correction could mitigate variations driven by the sensitivity of the qDESS T2 mapping method to B1, therefore increasing the sensitivity to detect real biological changes. The proposed method may improve the robustness of bilateral qDESS T2 mapping, allowing for an accurate and more efficient evaluation of OA pathways and pathophysiology through longitudinal and cross-sectional studies. <strong>This repository contains the raw data for reproducing the results reported in the paper. The data are provided in NIFTI format.</strong>
description: You may reach out to the corresponding author for questions/issues regarding the data provided in the repository.
DOI: 10.5281/zenodo.7474730
title: Molecular modeling of self-assembling peptides MELD structures

description: Top 10 MELD structures for each system used in the "Molecular modeling of self-assembling peptides" paper.
description: Research was sponsored by the Army Research Office under Grant Number W911NF-22-1-0142
DOI: 10.5281/zenodo.7477879
title: Supporting biophysical data for "The ecosystem wilting point defines drought response and recovery of a Quercus-Carya forest"

description: The data in this product support analyses in the paper titled "The ecosystem wilting point defines drought response and recovery of a Quercus-Carya forest". The data in this submission include leaf area index (LAI_MOFLUX_2008_2009_2012.csv) and soil water retention curves (MOFLUX_SWRC_data.csv). <strong>Leaf area index</strong> Each data record in LAI_MOFLUX_2008_2009_2012.csv consists of transect level mean single-sided leaf area index (LAI) values for 5 transects measured during the growing seasons of years 2008, 2009, and 2012. Records are uniquely identified by Year and DOY (day of year). Data were collected using a plant canopy analyzer (model LAI-2000). Data columns are defined by headers. Missing data are represented by values of -9999. Table 1. Header definitions of LAI_MOFLUX_2008_2009_2012.csv data file. Column Header name Definition 1 Year Year of observation 2 DOY Day of year of observation 3 LAI_SE Mean LAI of southeast transect 4 LAI_S Mean LAI of south transect 5 LAI_SW Mean LAI of southwest transect 6 LAI_W Mean LAI of west transect 7 LAI_NW Mean LAI of northwest transect <strong>Soil water retention curves</strong> Soil water retention curves for two soil depth ranges (0-30 cm and &gt;30 cm) are reported in MOFLUX_SWRC_data.csv. Soil samples were collected near the MOFLUX tower. Samples were evaluated periodically for soil water potential using a dewpoint potentiometer (Decagon Devices, Model WP4C) and a pressure plate as they dried over time. There are 4 columns of data in MOFLUX_SWRC_data.csv. The first two columns contain data for the 0-30 cm depth range, and the second columns contain data for the &gt;30 cm depth range. Each curve is defined by volumetric water content (VWC, %) and soil water potential (SWP, MPa). Missing data are represented by values of -9999.
description: This material is based upon work supported by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research Program, Climate and Environmental Sciences Division through Oak Ridge National Laboratory's Terrestrial Ecosystem Science (TES) Science Focus Area (SFA). ORNL is managed by UT-Battelle, LLC, for the U.S. Department of Energy under contract DE-AC05-00OR22725.
DOI: 10.6084/m9.figshare.21777281.v1
title: Untitled ItemMeasuring Facial Mimicry Automated Facial Coding vs. EMG_Psychometric Data

description: Psychometric data
DOI: 10.5517/ccdc.csd.cc2b9hy3
title: CCDC 2154095: Experimental Crystal Structure Determination

description: Related Article: Junghyea Moon, Nayoung Ko, Seoeun Jang, Prithwish Ghosh, Hyung Sik Kim, Neeraj Kumar Mishra, In Su Kim|2022|Org.Lett.|24|8115|doi:10.1021/acs.orglett.2c03085
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.6979698
title: Metabolomics Library Toxicology Centre (BE)

description: NIST format metabolite library (.msp) with multidimensional information (retention time values, MS/MS spectra and collision cross section (CCS) values) for endogenous metabolites. NP (Non-polar metabolites)/NEG (Electrospray Negative Mode)/POS (Electrospray Positive Mode)
description: Article: https://doi.org/10.1007/s11306-022-01965-w
DOI: 10.5517/ccdc.csd.cc2bjvyp
title: CCDC 2161163: Experimental Crystal Structure Determination

description: Related Article: Yoshimi Ichimaru, Koichi Kato, Rina Nakatani, Kirara Sugiura, Hideki Mizutani, Emiko Kinoshita-Kikuta, Tohru Koike, Wanchun Jin, Masanori Imai, Hiromasa Kurosaki|2023|Inorg.Chem.Commun.|147|110221|doi:10.1016/j.inoche.2022.110221
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.6979697
title: Metabolomics Library Toxicology Centre (BE)

description: NIST format metabolite library (.msp) with multidimensional information (retention time values, MS/MS spectra and collision cross section (CCS) values) for endogenous metabolites. NP (Non-polar metabolites)/NEG (Electrospray Negative Mode)/POS (Electrospray Positive Mode)
description: Article: https://doi.org/10.1007/s11306-022-01965-w
DOI: 10.5517/ccdc.csd.cc2bkc5g
title: CCDC 2161635: Experimental Crystal Structure Determination

description: Related Article: Min Cai, Jiao Ma, Qimin Wu, Aijun Lin, Hequan Yao|2022|Org.Lett.|24|8791|doi:10.1021/acs.orglett.2c03529
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2blk2l
title: CCDC 2162779: Experimental Crystal Structure Determination

description: Related Article: Juyeong Kim, Jae Kyun Lee, Bongjin Moon, Ansoo Lee|2022|Org.Lett.|24|8870|doi:10.1021/acs.orglett.2c03669
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.7024595
title: Examining the representation of landscape and its emotional value in German-Swiss fiction around 1900

description: This repository provides access to the main datasets used in Grisot, G & Herrmann, J. B. (2023) <em>Examining the representation of landscape and its emotional value in German-Swiss fiction around 1900.</em> The data set includes the following item: (1) <em>all_entities_new.Rdata</em>: comprehensive list of labelled spatial entities; (2) <em>corpus_summary_table.xlsx</em>: a summary of the corpus content; (3) <em>corpus_clean_partitioned.zip</em>: the entire corpus after removing stopwords; (4) <em>sentiment_lexicons.RData</em>: the sentiment lexicons for German used in our analyses; (5) tables with details of various analyses (<em>proportions_spatial_entities.xlsx, proportions_spatial_entities_by_country.xlsx, Spatial_entities_in_Corpus_by_category.xlsx</em>); (6) <em>Sentiment_lexicons_info.xlsx</em>: information about the content of the sentment lexicons. The study for which this data were collected explored the representation and affective encoding of fictional space in a corpus of 125 Swiss literary prose texts of the 19th and early 20th Century written in German, offering thus a contribution to both spatial and affective literary studies. Motivated by questions about the iconic dichotomy between urban and rural in literary works – and in Swiss literature in particular – we used computational methods to examine the types of space encoded in German-Swiss literature as well as the affective encoding associated with these space types. Taking into account the complexity of cultural perceptions and representations of space across history, we explore questions about affective encoding of rural, urban, and natural fictional spaces, as well as about their role in the construction of ‘Swiss’ national literature.
description: This project was funded by The Swiss National Science Foundation (SNSF)
DOI: 10.5281/zenodo.7024594
title: Examining the representation of landscape and its emotional value in German-Swiss fiction around 1900

description: This repository provides access to the main datasets used in Grisot, G & Herrmann, J. B. (2023) <em>Examining the representation of landscape and its emotional value in German-Swiss fiction around 1900.</em> The data set includes the following item: (1) <em>all_entities_new.Rdata</em>: comprehensive list of labelled spatial entities; (2) <em>corpus_summary_table.xlsx</em>: a summary of the corpus content; (3) <em>corpus_clean_partitioned.zip</em>: the entire corpus after removing stopwords; (4) <em>sentiment_lexicons.RData</em>: the sentiment lexicons for German used in our analyses; (5) tables with details of various analyses (<em>proportions_spatial_entities.xlsx, proportions_spatial_entities_by_country.xlsx, Spatial_entities_in_Corpus_by_category.xlsx</em>); (6) <em>Sentiment_lexicons_info.xlsx</em>: information about the content of the sentment lexicons. The study for which this data were collected explored the representation and affective encoding of fictional space in a corpus of 125 Swiss literary prose texts of the 19th and early 20th Century written in German, offering thus a contribution to both spatial and affective literary studies. Motivated by questions about the iconic dichotomy between urban and rural in literary works – and in Swiss literature in particular – we used computational methods to examine the types of space encoded in German-Swiss literature as well as the affective encoding associated with these space types. Taking into account the complexity of cultural perceptions and representations of space across history, we explore questions about affective encoding of rural, urban, and natural fictional spaces, as well as about their role in the construction of ‘Swiss’ national literature.
description: This project was funded by The Swiss National Science Foundation (SNSF)
DOI: 10.6084/m9.figshare.21777281
title: S1_Measuring Facial Mimicry Automated Facial Coding vs. EMG_Psychometric Data

description: Psychometric data
DOI: 10.6084/m9.figshare.21777281.v2
title: Measuring Facial Mimicry Automated Facial Coding vs. EMG_Psychometric Data

description: Psychometric data
DOI: 10.6084/m9.figshare.21777275
title: S2_Measuring Facial Mimicry Automated Facial Coding vs. EMG_EMG Data

description: EMG data
DOI: 10.6084/m9.figshare.21777200
title: S3_Measuring Facial Mimicry Automated Facial Coding vs. EMG_Affdex Data

description: Raw Affdex data for each participant.
DOI: 10.6084/m9.figshare.21777200.v1
title: Measuring Facial Mimicry Automated Facial Coding vs. EMG_Affdex Data

description: Raw Affdex data for each participant.
DOI: 10.5281/zenodo.7478004
title: acanthurus_tractus_decontaminated_gx.fasta.gz

description: .
DOI: 10.5281/zenodo.7478003
title: acanthurus_tractus_decontaminated_gx.fasta.gz

description: .
DOI: 10.35077/ace-sap
title: Neuron Morphology data in .swc format from Patch-seq experiments in human neocortex, Cell ID 902511379

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: DATASET METADATA: title:'Neuron Morphology data in .swc format from Patch-seq experiments in human neocortex, Cell ID 902511379', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'902511379', Species:'human', NCBITaxonomy:'NCBI:txid9606', SampleLocalID:'902511379', Locations:'TemL' INSTRUMENT METADATA: MicroscopeType:'NA', MicroscopeManufacturerAndModel:'NA' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114'
DOI: 10.35077/ace-sat
title: Neuron Morphology data in .swc format from Patch-seq experiments in human neocortex, Cell ID 902498859

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: DATASET METADATA: title:'Neuron Morphology data in .swc format from Patch-seq experiments in human neocortex, Cell ID 902498859', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'902498859', Species:'human', NCBITaxonomy:'NCBI:txid9606', SampleLocalID:'902498859', Locations:'TemL' INSTRUMENT METADATA: MicroscopeType:'NA', MicroscopeManufacturerAndModel:'NA' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114'
DOI: 10.35077/ace-saw
title: Neuron Morphology data in .swc format from Patch-seq experiments in human neocortex, Cell ID 902487067

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: DATASET METADATA: title:'Neuron Morphology data in .swc format from Patch-seq experiments in human neocortex, Cell ID 902487067', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'902487067', Species:'human', NCBITaxonomy:'NCBI:txid9606', SampleLocalID:'902487067', Locations:'TemL' INSTRUMENT METADATA: MicroscopeType:'NA', MicroscopeManufacturerAndModel:'NA' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114'