cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/106029
title: TSG (Thermosalinograph) data collected during research cruise SAV-09-12 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7303859
title: Supplemental Figures and Tables Hajduskova et al.

description: Supplemental Figures for Hajduskova et al.<br>ID: GENETICS/2018/301674 <br>
DOI: 10.7284/106033
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise SAV-09-13 using a RDI WM-300 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7303811
title: Consultation Interaction Coding Scheme development data: Inter-rater reliability - transformed scores

description: This dataset presents transformed scores from the Consultation Interaction Coding Scheme applied to 22 sessions of cognitive behavioural therapy by four coders. The data were used to assess inter-rater reliability of newly trained coders.<br>
DOI: 10.6084/m9.figshare.7302515
title: CRISPR-Cas9 screening data for MUG-Chor1 and UM-Chor1 cell lines

description: Read-count data for genome-scale CRISPR-Cas9 screens performed in MUG-Chor1 and UM-Chor1 chordoma cell lines. Data for three biological replicates per cell line are provided. Each file corresponds to a sequencing technical replicate for the three biological samples. <br>The reference pDNA batch for these screens is batch 2. Read counts for batch 2 pDNA can be found in the raw_readcounts file in avana_public_18Q4 at https://doi.org/10.6084/m9.figshare.7270880.v1.<br>
DOI: 10.7284/106037
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-09-13 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7303811.v1
title: Consultation Interaction Coding Scheme development data: Inter-rater reliability - transformed scores

description: This dataset presents transformed scores from the Consultation Interaction Coding Scheme applied to 22 sessions of cognitive behavioural therapy by four coders. The data were used to assess inter-rater reliability of newly trained coders.<br>
DOI: 10.6084/m9.figshare.7302374
title: Urchin data - for repository.csv

description: Includes results of all behavioural tests performed on red sea urchins: unmanipulated wild, handled wild, and handled and captive returned to the wild.
DOI: 10.7284/106031
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-09-13 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302374.v1
title: Urchin data - for repository.csv

description: Includes results of all behavioural tests performed on red sea urchins: unmanipulated wild, handled wild, and handled and captive returned to the wild.
DOI: 10.7284/106032
title: Gyrocompass data collected during research cruise SAV-09-13 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106035
title: Meteorological Station data collected during research cruise SAV-09-13 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106034
title: Singlebeam Echosounder data collected during research cruise SAV-09-13 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302278
title: Figure 4

description: The inhibition of HIV-1 infection induced by TRIM5alpha does not require productive infection
DOI: 10.7284/106036
title: TSG (Thermosalinograph) data collected during research cruise SAV-09-13 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302278.v1
title: Figure 4

description: The inhibition of HIV-1 infection induced by TRIM5alpha does not require productive infection
DOI: 10.7284/106038
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-09-14 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302260
title: 50k SNPs data of sheep from Spain, Europe and North of Africa

description: Genotype data of Spanish, Italian, Swiss, Algerian and Egyptian sheep breeds obtained using Ovine SNP50 BeadChip Illumina (54241 SNPs)<br>
DOI: 10.7284/106050
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-09-15 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106045
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-09-15 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302260.v1
title: merge_all_breeds_sheep.map

description: Genotype data of Spanish sheep breeds obtained using Ovine SNP50 BeadChip Illumina (54241 SNPs)<br>
DOI: 10.6084/m9.figshare.7302260.v2
title: merge_all_breeds_sheep.map50k SNPs data of sheep from Spain, Europe and North of Africa

description: Genotype data of Spanish, Italian, Swiss, Algerian and Egyptian sheep breeds obtained using Ovine SNP50 BeadChip Illumina (54241 SNPs)<br>
DOI: 10.6084/m9.figshare.7302260.v3
title: 50k SNPs data of sheep from Spain, Europe and North of Africa

description: Genotype data of Spanish, Italian, Swiss, Algerian and Egyptian sheep breeds obtained using Ovine SNP50 BeadChip Illumina (54241 SNPs)<br>
DOI: 10.6084/m9.figshare.7302230
title: RANCM - A new ranking scheme for assigning confidence levels to metabolite assignments in NMR-based metabolomics studies

description: Single .zip file containing relevant data for manscript. NMR spectral data stored in Bruker file format, excel template for reporting confidence levels to metabolite assignments, example confidence levels.<br>Excel template has been modified to correctly reference RANCM schema as described in manuscript and has been denoted as such, as well as uploaded to a separate submission on FigShare for ease of access.<br><br>
DOI: 10.7284/106046
title: Gyrocompass data collected during research cruise SAV-09-15 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302227
title: The proto CpG island methylator phenotype of sessile serrated adenomas/polyps

description: Sessile serrated adenomas/polyps (SSA/Ps) are the putative precursors of the ~20% of colon cancers with the CpG island methylator phenotype (CIMP). To investigate the epigenetic phenotype of these precancers, we prospectively collected fresh-tissue samples of 17 SSA/Ps and 15 conventional adenomas (cADNs), each with a matched sample of normal mucosa. Their DNA was subjected to bisulfite next-generation sequencing to assess methylation levels at ~2.7 million CpGs located predominantly in gene regulatory regions and spanning 80.5Mb; RNA was sequenced to define the samples’ transcriptomes. Compared with normal mucosa, SSA/Ps and cADNs exhibited markedly remodeled methylomes. In cADNs, <i>hypo</i>methylated regions were far more numerous (18,417 vs 4288 in SSA/Ps) and rarely affected CpG islands/shores. SSA/Ps seemed to have escaped this wave of demethylation. Cytosine <i>hyper</i>methylation in SSA/Ps was more pervasive (hypermethylated regions: 22,147 vs 15,965 in cADNs; hypermethylated genes: 4938 vs 3443 in cADNs) and more extensive (region for region), and it occurred mainly within CpG islands and shores. Given its resemblance to the CIMP typical of SSA/Ps' putative descendant colon cancers, we refer to the SSA/P methylation phenotype as <i>proto-CIMP</i>. Verification studies of six hypermethylated regions in an independent series of precancers demonstrated DNA methylation markers’ high potential for predicting the diagnosis of SSA/Ps and cADNs. Surprisingly, proto-CIMP in SSA/Ps was associated with upregulated gene expression; downregulation was more common in cADNs. In conclusion, the epigenetic landscape of SSA/Ps differs markedly from that of cADNs. These differences are a potentially rich source of novel tissue-based and noninvasive biomarkers.
DOI: 10.6084/m9.figshare.7302227.v1
title: The proto CpG island methylator phenotype of sessile serrated adenomas/polyps

description: Sessile serrated adenomas/polyps (SSA/Ps) are the putative precursors of the ~20% of colon cancers with the CpG island methylator phenotype (CIMP). To investigate the epigenetic phenotype of these precancers, we prospectively collected fresh-tissue samples of 17 SSA/Ps and 15 conventional adenomas (cADNs), each with a matched sample of normal mucosa. Their DNA was subjected to bisulfite next-generation sequencing to assess methylation levels at ~2.7 million CpGs located predominantly in gene regulatory regions and spanning 80.5Mb; RNA was sequenced to define the samples’ transcriptomes. Compared with normal mucosa, SSA/Ps and cADNs exhibited markedly remodeled methylomes. In cADNs, <i>hypo</i>methylated regions were far more numerous (18,417 vs 4288 in SSA/Ps) and rarely affected CpG islands/shores. SSA/Ps seemed to have escaped this wave of demethylation. Cytosine <i>hyper</i>methylation in SSA/Ps was more pervasive (hypermethylated regions: 22,147 vs 15,965 in cADNs; hypermethylated genes: 4938 vs 3443 in cADNs) and more extensive (region for region), and it occurred mainly within CpG islands and shores. Given its resemblance to the CIMP typical of SSA/Ps' putative descendant colon cancers, we refer to the SSA/P methylation phenotype as <i>proto-CIMP</i>. Verification studies of six hypermethylated regions in an independent series of precancers demonstrated DNA methylation markers’ high potential for predicting the diagnosis of SSA/Ps and cADNs. Surprisingly, proto-CIMP in SSA/Ps was associated with upregulated gene expression; downregulation was more common in cADNs. In conclusion, the epigenetic landscape of SSA/Ps differs markedly from that of cADNs. These differences are a potentially rich source of novel tissue-based and noninvasive biomarkers.
DOI: 10.6084/m9.figshare.7302230.v2
title: RANCM - A new ranking scheme for assigning confidence levels to metabolite assignments in NMR-based metabolomics studies

description: Single .zip file containing relevant data for manscript. NMR spectral data stored in Bruker file format, excel template for reporting confidence levels to metabolite assignments, example confidence levels.<br>Excel template has been modified to correctly reference RANCM schema as described in manuscript and has been denoted as such, as well as uploaded to a separate submission on FigShare for ease of access.<br><br>
DOI: 10.7284/106048
title: Meteorological Station data collected during research cruise SAV-09-15 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302230.v1
title: A new ranking scheme for assigning confidence levels to metabolite assignments in NMR-based metabolomics studies.zip

description: Single .zip file containing relevant data for manscript. NMR spectral data stored in Bruker file format, excel template for reporting confidence levels to metabolite assignments, example confidence levels.<br>
DOI: 10.6084/m9.figshare.7302224
title: Holwerda et al., (2018) PeerJ Supplemental File

description: Two datasets for the phylogenetic analysis of Holwerda et al., (2018) in PeerJ. The first is based on a datamatrix of Carballido et al., (2017), the second on a datamatrix by Tschopp et al., (2017). Added new codings are Cetiosauriscus, Cetiosaurus, and the Peterborough Oxford Clay material presented in this study.
DOI: 10.7284/106047
title: Singlebeam Echosounder data collected during research cruise SAV-09-15 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7302224.v1
title: Holwerda et al., (2018) PeerJ Supplemental File

description: Two datasets for the phylogenetic analysis of Holwerda et al., (2018) in PeerJ. The first is based on a datamatrix of Carballido et al., (2017), the second on a datamatrix by Tschopp et al., (2017). Added new codings are Cetiosauriscus, Cetiosaurus, and the Peterborough Oxford Clay material presented in this study.
DOI: 10.7284/106049
title: TSG (Thermosalinograph) data collected during research cruise SAV-09-15 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106056
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-09-16 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106051
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-09-16 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106052
title: Gyrocompass data collected during research cruise SAV-09-16 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106054
title: Meteorological Station data collected during research cruise SAV-09-16 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7301921
title: Maternal psychosocial stress and children’s ADHD diagnosis: a prospective birth cohort study

description: <b>Objective:</b> Examine the association of mothers’ psychosocial stressors before and during pregnancy with their children’s diagnosis of attention deficit hyperactivity disorder (ADHD). <b>Methods:</b> This study included 2140 mother–child pairs who had at least one postnatal pediatric visit at the Boston Medical Center between 2003 and 2015. Child ADHD was determined via <i>International Classification of Diseases, Ninth Revision</i> (ICD-9) codes documented in electronic medical records. Latent factors of maternal stress and social support and measures of the physical home environment and psychosocial adversities were constructed using exploratory factor analysis. The association between the latent factors and child ADHD diagnosis was examined using multiple logistic regression, controlling for known risk factors for ADHD. <b>Results:</b> Children were 1.45 (95% CI: 1.06, 1.99) and 3.03 (95% CI: 2.19, 4.20) times more likely to receive an ADHD diagnosis if their mother experienced a major stressful event during pregnancy or reported a high level of perceived stress, respectively. The number of family adversities increases the risk of ADHD diagnosis [second quartile: OR = 1.90; CI (1.31, 2.77); third quartile: OR = 1.96 CI (1.34, 2.88); fourth quartile: OR = 2.89 CI (2.01, 4.16)] compared to first quartile. <b>Conclusions:</b> In this prospective, predominantly urban, low-income, minority birth cohort, mothers’ psychosocial stress before and during pregnancy appears to be an independent risk factor for the development of ADHD in their children.
DOI: 10.6084/m9.figshare.7301921.v1
title: Maternal psychosocial stress and children’s ADHD diagnosis: a prospective birth cohort study

description: <b>Objective:</b> Examine the association of mothers’ psychosocial stressors before and during pregnancy with their children’s diagnosis of attention deficit hyperactivity disorder (ADHD). <b>Methods:</b> This study included 2140 mother–child pairs who had at least one postnatal pediatric visit at the Boston Medical Center between 2003 and 2015. Child ADHD was determined via <i>International Classification of Diseases, Ninth Revision</i> (ICD-9) codes documented in electronic medical records. Latent factors of maternal stress and social support and measures of the physical home environment and psychosocial adversities were constructed using exploratory factor analysis. The association between the latent factors and child ADHD diagnosis was examined using multiple logistic regression, controlling for known risk factors for ADHD. <b>Results:</b> Children were 1.45 (95% CI: 1.06, 1.99) and 3.03 (95% CI: 2.19, 4.20) times more likely to receive an ADHD diagnosis if their mother experienced a major stressful event during pregnancy or reported a high level of perceived stress, respectively. The number of family adversities increases the risk of ADHD diagnosis [second quartile: OR = 1.90; CI (1.31, 2.77); third quartile: OR = 1.96 CI (1.34, 2.88); fourth quartile: OR = 2.89 CI (2.01, 4.16)] compared to first quartile. <b>Conclusions:</b> In this prospective, predominantly urban, low-income, minority birth cohort, mothers’ psychosocial stress before and during pregnancy appears to be an independent risk factor for the development of ADHD in their children.
DOI: 10.7284/106053
title: Singlebeam Echosounder data collected during research cruise SAV-09-16 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106055
title: TSG (Thermosalinograph) data collected during research cruise SAV-09-16 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106059
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise SAV-09-17 using a RDI WM-300 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106063
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-09-17 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.25380/iastate.7301897
title: Studenica church: Images of the digital model

description: This dataset contains renderings of the digital mesh model as well as images of the point cloud model collected from the scan.<br>A major world heritage site on the UNESCO list, the Studenica church in Serbia unites Romanesque and Byzantine ideas of sacred space. The research aims to test the transfer of architectural knowledge and whether the dome that scoops the light in shafts – which remains technically a demanding task in modern construction – points to the applied medieval knowledge of geometry, physics and optics. This research features the Studenica church as a model for advanced studies of medieval architecture that often lacks textual sources about its creation or training of its architects.
DOI: 10.25380/iastate.7301897.v1
title: Studenica church: Images of the digital model

description: This dataset contains renderings of the digital mesh model as well as images of the point cloud model collected from the scan.<br>A major world heritage site on the UNESCO list, the Studenica church in Serbia unites Romanesque and Byzantine ideas of sacred space. The research aims to test the transfer of architectural knowledge and whether the dome that scoops the light in shafts – which remains technically a demanding task in modern construction – points to the applied medieval knowledge of geometry, physics and optics. This research features the Studenica church as a model for advanced studies of medieval architecture that often lacks textual sources about its creation or training of its architects.
DOI: 10.7284/106057
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-09-17 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.25380/iastate.7301888
title: Studenica church: panoramic views of exterior and interior

description: This dataset contains panorama photos showing the existing Studenica Church.<br>A major world heritage site on the UNESCO list, the Studenica church in Serbia unites Romanesque and Byzantine ideas of sacred space. The research aims to test the transfer of architectural knowledge and whether the dome that scoops the light in shafts – which remains technically a demanding task in modern construction – points to the applied medieval knowledge of geometry, physics and optics. This research features the Studenica church as a model for advanced studies of medieval architecture that often lacks textual sources about its creation or training of its architects.
DOI: 10.25380/iastate.7301888.v1
title: Studenica church: panoramic views of exterior and interior

description: This dataset contains panorama photos showing the existing Studenica Church.<br>A major world heritage site on the UNESCO list, the Studenica church in Serbia unites Romanesque and Byzantine ideas of sacred space. The research aims to test the transfer of architectural knowledge and whether the dome that scoops the light in shafts – which remains technically a demanding task in modern construction – points to the applied medieval knowledge of geometry, physics and optics. This research features the Studenica church as a model for advanced studies of medieval architecture that often lacks textual sources about its creation or training of its architects.
DOI: 10.7284/106058
title: Gyrocompass data collected during research cruise SAV-09-17 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106061
title: Meteorological Station data collected during research cruise SAV-09-17 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.25380/iastate.7301873
title: Studenica church: Videos of the digital model

description: This dataset contains videos of the digital mesh model and the point cloud model of the Studenica Church scans.<br>A major world heritage site on the UNESCO list, the Studenica church in Serbia unites Romanesque and Byzantine ideas of sacred space. The research aims to test the transfer of architectural knowledge and whether the dome that scoops the light in shafts – which remains technically a demanding task in modern construction – points to the applied medieval knowledge of geometry, physics and optics. This research features the Studenica church as a model for advanced studies of medieval architecture that often lacks textual sources about its creation or training of its architects.
DOI: 10.7284/106060
title: Singlebeam Echosounder data collected during research cruise SAV-09-17 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition