cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12174129
title: Posterior samples

description: Samples from the posterior distribution of tensor probability model parameters. Generated using Gibbs sampling algorithm. Model parameters include the cancer cell line and gene representations distilled from the Cancer Dependency Map data.<br>File contained here is a .zip file, which has .csv files for each group of model parameters. Numbers following parameter names indicate the Gibbs iteration.<br>Note that these samples are *unaligned* and should be aligned with a Procrustes procedure before taking posterior summaries.
DOI: 10.6084/m9.figshare.12174225.v1
title: Kory et al example

description: Data corresponding to the Kory et al. example
DOI: 10.6084/m9.figshare.12174129.v1
title: Posterior samples

description: Samples from the posterior distribution of tensor probability model parameters. Generated using Gibbs sampling algorithm. Model parameters include the cancer cell line and gene representations distilled from the Cancer Dependency Map data.<br>File contained here is a .zip file, which has .csv files for each group of model parameters. Numbers following parameter names indicate the Gibbs iteration.<br>Note that these samples are *unaligned* and should be aligned with a Procrustes procedure before taking posterior summaries.
DOI: 10.6084/m9.figshare.12174033
title: Benchmarking Splits

description: Benchmarking splits used to evaluate the LinkPhinder and other protein phosphorylation prediction models. The XY numbers in the benchmark folder names reflect the train-test data ratio (e.g. 'benchmark9010' means the training and testing data are 90% and 10%, respectively, of the benchmark dataset). The nZ number then means the number of negatives per each positive (e.g. 'benchmark7030n10' means a 70/30 train/test split with ten negatives per each positive). PhosphoSitePlus (https://doi.org/10.1093/nar/gku1267) was used as the benchmark dataset in most cases, with the exception of folders tagged with 'cutillas20' (this is based on the kinase-substrate interaction dataset published in https://doi.org/10.1038/s41587-019-0391-9). The columns in the training and testing split files correspond to [TODO: fill in the details here].
DOI: 10.6084/m9.figshare.12174033.v1
title: Benchmarking Splits

description: Benchmarking splits used to evaluate the LinkPhinder and other protein phosphorylation prediction models
DOI: 10.6084/m9.figshare.12173994
title: Circulating MDSC data set 042220

description: excel spreadsheet of facs data and cytokines
DOI: 10.6084/m9.figshare.12174033.v3
title: Benchmarking Splits

description: Benchmarking splits used to evaluate the LinkPhinder and other protein phosphorylation prediction models. The XY numbers in the benchmark folder names reflect the train-test data ratio (e.g. 'benchmark9010' means the training and testing data are 90% and 10%, respectively, of the benchmark dataset). The nZ number then means the number of negatives per each positive (e.g. 'benchmark7030n10' means a 70/30 train/test split with ten negatives per each positive). PhosphoSitePlus (https://doi.org/10.1093/nar/gku1267) was used as the benchmark dataset in most cases, with the exception of folders tagged with 'cutillas20' (this is based on the kinase-substrate interaction dataset published in https://doi.org/10.1038/s41587-019-0391-9). The columns in the training and testing split files correspond to [TODO: fill in the details here].
DOI: 10.6084/m9.figshare.12174033.v2
title: Benchmarking Splits

description: Benchmarking splits used to evaluate the LinkPhinder and other protein phosphorylation prediction models. The XY numbers in the benchmark folder names reflect the train-test data ratio (e.g. 'benchmark9010' means the training and testing data are 90% and 10%, respectively, of the benchmark dataset). The nZ number then means the number of negatives per each positive (e.g. 'benchmark7030n10' means a 70/30 train/test split with ten negatives per each positive). PhosphoSitePlus (https://doi.org/10.1093/nar/gku1267) was used as the benchmark dataset in most cases, with the exception of folders tagged with 'cutillas20' (this is based on the kinase-substrate interaction dataset published in https://doi.org/10.1038/s41587-019-0391-9). The columns in the training and testing split files correspond to [TODO: fill in the details here].
DOI: 10.6084/m9.figshare.12173967
title: Factors influencing side air curtain deployment in rollover motor vehicle accidents

description: <b>Objective:</b> Recent changes in FMVSS have led to the utilization of side air curtains to provide occupant retention during rollover events. However, the safety advantage provided by the air curtains relies on the vehicle system’s ability to detect the rollover event and deploy the curtains. The purpose of this study is to identify crash and vehicle characteristics in motor vehicle rollovers that influence side air curtain deployment and occupant outcomes. The current study aims to improve the understanding of rollover events and inspire more robust air curtain deployment strategies. <b>Methods:</b> Study data were extracted from rollover cases documented in the NASS-CDS data set from 2011 to 2015. Vehicle model years of 2011 or later with side air curtains installed were examined. The presence of a rollover sensor in each vehicle was determined from vehicle content data available on the Insurance Institute for Highway Safety’s crash rating website. The resulting data set contained 14,003 weighted cases of rollover accidents in which the side air curtain did not deploy (40 raw count) and 23,178 cases of deployment (80 raw count). <b>Results:</b> Several crash event and vehicle characteristics were similar for the nondeployed and deployed groups, including number of quarter turns, primary location of damage, initiating event for the rollover, and vehicle model year. However, the nondeployed group included significantly more passenger vehicle body types (vs. SUV or truck) and had a significantly lower rate of rollover sensor presence. Presence of a rollover sensor increased the odds air curtain deployment by a factor of 36.5 (95% confidence interval [CI], 5.06–265). Cases in which both side air curtains deployed resulted in a higher frequency of injured occupants (Maximum Abbreviated Injury Scale [MAIS] ≥ 3). However, rollover events resulting in these injuries were also associated with higher rates of impact with another object or vehicle and damage to the roof of the vehicle, suggesting a higher energy event. <b>Conclusions:</b> Nondeployment of the side curtain airbags in rollovers occurred more frequently in vehicles without dedicated rollover sensors, which were most frequently passenger vehicles.
DOI: 10.6084/m9.figshare.12173994.v1
title: Circulating MDSC data set 042220

description: excel spreadsheet of facs data and cytokines
DOI: 10.6084/m9.figshare.12173967.v1
title: Factors influencing side air curtain deployment in rollover motor vehicle accidents

description: <b>Objective:</b> Recent changes in FMVSS have led to the utilization of side air curtains to provide occupant retention during rollover events. However, the safety advantage provided by the air curtains relies on the vehicle system’s ability to detect the rollover event and deploy the curtains. The purpose of this study is to identify crash and vehicle characteristics in motor vehicle rollovers that influence side air curtain deployment and occupant outcomes. The current study aims to improve the understanding of rollover events and inspire more robust air curtain deployment strategies. <b>Methods:</b> Study data were extracted from rollover cases documented in the NASS-CDS data set from 2011 to 2015. Vehicle model years of 2011 or later with side air curtains installed were examined. The presence of a rollover sensor in each vehicle was determined from vehicle content data available on the Insurance Institute for Highway Safety’s crash rating website. The resulting data set contained 14,003 weighted cases of rollover accidents in which the side air curtain did not deploy (40 raw count) and 23,178 cases of deployment (80 raw count). <b>Results:</b> Several crash event and vehicle characteristics were similar for the nondeployed and deployed groups, including number of quarter turns, primary location of damage, initiating event for the rollover, and vehicle model year. However, the nondeployed group included significantly more passenger vehicle body types (vs. SUV or truck) and had a significantly lower rate of rollover sensor presence. Presence of a rollover sensor increased the odds air curtain deployment by a factor of 36.5 (95% confidence interval [CI], 5.06–265). Cases in which both side air curtains deployed resulted in a higher frequency of injured occupants (Maximum Abbreviated Injury Scale [MAIS] ≥ 3). However, rollover events resulting in these injuries were also associated with higher rates of impact with another object or vehicle and damage to the roof of the vehicle, suggesting a higher energy event. <b>Conclusions:</b> Nondeployment of the side curtain airbags in rollovers occurred more frequently in vehicles without dedicated rollover sensors, which were most frequently passenger vehicles.
DOI: 10.6084/m9.figshare.12173856
title: All stem fluxes of regular samplings and flooding event organized by sampling date

description: This excel file contains all ch4 and n2o measurements and flux calculations measured and used in the wake of the flood flux project of the BFW (Federal Research Institute for Forests, Austria) and organized by sampling date.
DOI: 10.6084/m9.figshare.12173856.v1
title: All stem fluxes of regular samplings and flooding event organized by sampling date

description: This excel file contains all ch4 and n2o measurements and flux calculations measured and used in the wake of the flood flux project of the BFW (Federal Research Institute for Forests, Austria) and organized by sampling date.
DOI: 10.6084/m9.figshare.12173742
title: Supplementary Material for: Endostatin Is an Independent Risk Factor of Graft Loss after Kidney Transplant

description: <b><i>Background:</i></b> Endostatin is a 20-kDa C-terminal fragment of collagen XVIII, known for its ability to inhibit the proliferation of capillary endothelial cells. Previous studies suggested that circulating endostatin independently predicts incident chronic kidney disease. However, the impact of endostatin on graft loss level in kidney transplant recipients (KTRs) remains unknown. <b><i>Methods:</i></b> We conducted a prospective observational cohort study in 574 maintenance KTRs. Patients were followed for kidney graft loss and all-cause mortality during a median follow-up of 48 months. Serum-, and urine-samples and clinical data were collected at baseline. Serum Endostatin concentration was analyzed by an ELISA. <b><i>Results:</i></b> Among 574 patients, 37 patients had graft loss and 62 patients died. For graft loss, the optimal cut-off value based on receiver operating characteristics analysis (area under the curve 0.79, 95% CI 0.71–0.86, <i>p</i> &lt; 0.001) of endostatin was 147.3 pmol/L. Kaplan-Meier curves revealed that higher serum endostatin concentrations positively correlated with graft loss (<i>p</i> &lt; 0.001). Multivariable Cox regression analyses showed that baseline endostatin concentrations were significantly associated with graft loss after adjusting for graft loss risk factors (adjusted hazard ratio [HR] 8.34; 95% CI 2.19–31.72; <i>p</i> = 0.002). The adjusted HRs for classical graft loss risk factors such as baseline estimated glomerular filtration rate and urinary protein excretion were lower (1.91 and 5.44, respectively). In contrast to graft loss, baseline endostatin concentrations were not associated with all-cause mortality. <b><i>Conclusion:</i></b> Increased serum endostatin at baseline is independently associated with the risk of graft loss in KTRs.
DOI: 10.6084/m9.figshare.12173736
title: Supplementary Material for: Recombinant Cellular Repressor of E1A-Stimulated Genes Protects against Renal Fibrosis in Dahl Salt-Sensitive Rats

description: <b><i>Background:</i></b> Human cellular repressor of E1A-stimulated genes (CREG) is a secreted glycoprotein that attenuates angiotensin II-induced hypertension, alleviates myocardial fibrosis, and improves heart function. However, the role of CREG in high-salt (HS) diet-induced hypertensive nephropathy is unclear. <b><i>Methods:</i></b> To determine the effects and molecular mechanisms of CREG in HS diet-induced hypertensive nephropathy, we established a hypertensive nephropathy animal model in Dahl salt-sensitive (SS) rats fed a HS diet (8% NaCl, <i>n</i> = 20) for 8 weeks. At week 4 of HS loading, these rats were administered recombinant CREG (reCREG; 35 µg/kg·day, <i>n</i> = 5) and saline (<i>n</i> = 5) via subcutaneously implanted pumps and were also administered the vasodilator hydralazine (20 mg/kg·day, <i>n</i> = 5) in drinking water. We used hematoxylin and eosin staining, Masson’s trichrome staining, immunohistochemical labeling, western blotting, RT-PCR, and Tunel staining to determine the signaling pathways of CREG in HS diet-induced hypertensive nephropathy. <b><i>Results:</i></b> After 8 weeks of HS intake, the Dahl SS rats developed renal dysfunction and severe renal fibrosis associated with reductions of 78 and 67% in CREG expression, respectively, at both mRNA and protein levels in the kidney. Administration of reCREG improved renal function and relieved renal fibrosis. Administration of CREG also inhibited monocyte infiltration and reduced apoptosis in the kidney cells. CREG overexpression upregulated forkhead box P1 expression and inhibited the transforming growth factor-β1 signaling pathway. <b><i>Conclusion:</i></b> Our study shows that CREG protected the kidney against HS-diet-induced renal damage and provides new insights into the mechanisms underlying kidney injury.
DOI: 10.6084/m9.figshare.12173742.v1
title: Supplementary Material for: Endostatin Is an Independent Risk Factor of Graft Loss after Kidney Transplant

description: <b><i>Background:</i></b> Endostatin is a 20-kDa C-terminal fragment of collagen XVIII, known for its ability to inhibit the proliferation of capillary endothelial cells. Previous studies suggested that circulating endostatin independently predicts incident chronic kidney disease. However, the impact of endostatin on graft loss level in kidney transplant recipients (KTRs) remains unknown. <b><i>Methods:</i></b> We conducted a prospective observational cohort study in 574 maintenance KTRs. Patients were followed for kidney graft loss and all-cause mortality during a median follow-up of 48 months. Serum-, and urine-samples and clinical data were collected at baseline. Serum Endostatin concentration was analyzed by an ELISA. <b><i>Results:</i></b> Among 574 patients, 37 patients had graft loss and 62 patients died. For graft loss, the optimal cut-off value based on receiver operating characteristics analysis (area under the curve 0.79, 95% CI 0.71–0.86, <i>p</i> &lt; 0.001) of endostatin was 147.3 pmol/L. Kaplan-Meier curves revealed that higher serum endostatin concentrations positively correlated with graft loss (<i>p</i> &lt; 0.001). Multivariable Cox regression analyses showed that baseline endostatin concentrations were significantly associated with graft loss after adjusting for graft loss risk factors (adjusted hazard ratio [HR] 8.34; 95% CI 2.19–31.72; <i>p</i> = 0.002). The adjusted HRs for classical graft loss risk factors such as baseline estimated glomerular filtration rate and urinary protein excretion were lower (1.91 and 5.44, respectively). In contrast to graft loss, baseline endostatin concentrations were not associated with all-cause mortality. <b><i>Conclusion:</i></b> Increased serum endostatin at baseline is independently associated with the risk of graft loss in KTRs.
DOI: 10.17028/rd.lboro.12173667
title: Scattering coefficients for a sphere in a visco-acoustic medium for arbitrary partial wave order

description: This dataset consists of a Maple2015 worksheet for the derivation of the acoustic scattering coefficients including compressional-shear mode conversion for general partial wave order n in the Rayleigh limit. The worksheet and a pdf version are included. The derivation supports a paper published online (30th May 2020) in the journal Wave Motion (https://doi.org/10.1016/j.wavemoti.2020.102589) by M. Mahbub Alam, Valerie J. Pinfield, Pierre Maréchal entitled "Scattering coefficients for a sphere in a visco-acoustic medium for arbitrary partial wave order".<br>
DOI: 10.6084/m9.figshare.12173637
title: Metadata record for: Systems Biology of Acidophile Biofilms for Effcient Metal Extraction

description: This dataset contains key characteristics about the data described in the Data Descriptor Systems Biology of Acidophile Biofilms for Effcient Metal Extraction. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.6084/m9.figshare.12173637.v1
title: Metadata record for: Systems Biology of Acidophile Biofilms for Effcient Metal Extraction

description: This dataset contains key characteristics about the data described in the Data Descriptor Systems Biology of Acidophile Biofilms for Effcient Metal Extraction. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.17028/rd.lboro.12173667.v2
title: Scattering coefficients for a sphere in a visco-acoustic medium for arbitrary partial wave order

description: This dataset consists of a Maple2015 worksheet for the derivation of the acoustic scattering coefficients including compressional-shear mode conversion for general partial wave order n in the Rayleigh limit. The worksheet and a pdf version are included. The derivation supports a paper published online (30th May 2020) in the journal Wave Motion (https://doi.org/10.1016/j.wavemoti.2020.102589) by M. Mahbub Alam, Valerie J. Pinfield, Pierre Maréchal entitled "Scattering coefficients for a sphere in a visco-acoustic medium for arbitrary partial wave order".<br>
DOI: 10.6084/m9.figshare.12173610
title: Digitized polygons of Marine Protected Areas

description: Shapefiles for geographic information systems with high-resolution digitized polygons of Marine Protected Areas.
DOI: 10.17028/rd.lboro.12173667.v1
title: Scattering coefficients for a sphere in a visco-acoustic medium for arbitrary partial wave order

description: This dataset consists of a Maple2015 worksheet for the derivation of the acoustic scattering coefficients including compressional-shear mode conversion for general partial wave order n in the Rayleigh limit. The worksheet and a pdf version are included. The derivation supports a paper submitted to the journal Wave Motion, April 2020 by by M. Mahbub Alam, Valerie J. Pinfield, Pierre Maréchal entitled "Scattering coefficients for a sphere in a visco-acoustic medium for arbitrary partial wave order".<br>
DOI: 10.6084/m9.figshare.12173589
title: COVID-19-Incidence-data-for-six-high-burdening-countries.csv

description: Nonlinear incidence and transmission data of COVID-19 in six high burdening countries such as Australia, Canada, Italy, Spain, UK and USA.
DOI: 10.6084/m9.figshare.12173592
title: Metadata record for: Traumatic life experiences and religiosity in eight countries

description: This dataset contains key characteristics about the data described in the Data Descriptor Traumatic life experiences and religiosity in eight countries. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.12173610.v1
title: Digitized polygons of Marine Protected Areas.

description: Shapefiles for geographic information systems with high-resolution digitized polygons of Marine Protected Areas.
DOI: 10.6084/m9.figshare.12173589.v1
title: COVID-19-Incidence-data-for-six-high-burdening-countries.csv

description: Nonlinear incidence and transmission data of COVID-19 in six high burdening countries such as Australia, Canada, Italy, Spain, UK and USA.
DOI: 10.6084/m9.figshare.12173592.v1
title: Metadata record for: Traumatic life experiences and religiosity in eight countries

description: This dataset contains key characteristics about the data described in the Data Descriptor Traumatic life experiences and religiosity in eight countries. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.12173556
title: Raphanus_NC_018551-it2_noIUPAC.fasta

description: Carmine radishMitochondrain genome<br>
DOI: 10.6084/m9.figshare.12173556.v1
title: Raphanus_NC_018551-it2_noIUPAC.fasta

description: Carmine radishMitochondrain genome<br>
DOI: 10.6084/m9.figshare.12173499
title: The mid-Cretaceous †<i>Lepiceratus</i> Gen. nov. and the Evolution of the Relict Beetle Family Lepiceridae (Insecta: Coleoptera: Myxophaga)

description: A newly discovered adult beetle †<i>Lepiceratus ankylosaurus</i> gen. & sp. nov. (mid-Cretaceous Myanmar amber) is the first extinct member of the suborder Myxophaga to reveal fine morphological structures, studied by synchrotron microtomography. A comprehensive phylogenetic analysis places it as a stem group in the extant relict family Lepiceridae. The fossil (along with previously known taxa) demonstrates that lepicerids with seven and five antennomeres co-existed during mid-Cretaceous, and only forms with extremely reduced, pentamerous antennae survived till present. The hitherto known fossil record of the enigmatic myxophagan beetles and phylogenetic reconstructions demonstrate that the reduction of antennomeres (i.e. antennal anarthrogenesis) from the ancestral 11 to seven took place as early as the Triassic, when the ancestral lineage of Myxophaga split into the ‘lepicerid lineage’ and an ancestor of all remaining families. Furthermore, the anarthrogenesis in the ‘<i>Lepicerus</i> lineage’ had been completed by the mid-Cretaceous. As all remaining morphological structures that define extant <i>Lepicerus</i> had differentiated by then, the extreme reduction of antennae to merely five antennomeres was the last major morphological transformation in their evolution. Morphological adaptations to protect body appendages (presumably against predators) also remained unchanged since the mid-Cretaceous, indicating a similar environmental pressures during this nearly 100 Ma-long period of lepicerid evolution. https://zoobank.org:pub:28DCD51D-90EA-4516-810E-3B898DE5A729
DOI: 10.6084/m9.figshare.12173511
title: Metadata record for: CeutaOPEN, individual-based field observations of breeding snowy plovers Charadrius nivosus

description: This dataset contains key characteristics about the data described in the Data Descriptor CeutaOPEN, individual-based field observations of breeding snowy plovers Charadrius nivosus. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.12173511.v1
title: Metadata record for: CeutaOPEN, individual-based field observations of breeding snowy plovers Charadrius nivosus

description: This dataset contains key characteristics about the data described in the Data Descriptor CeutaOPEN, individual-based field observations of breeding snowy plovers Charadrius nivosus. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format