cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6989483.v1
title: Supplementary Material for: The Clinical Significance of Body Weight Loss in Idiopathic Pulmonary Fibrosis Patients

description: <b><i>Background:</i></b> The significance of the nutritional status in idiopathic pulmonary fibrosis (IPF) is largely unknown. Temporal body weight (BW) change, a dynamic index of nutrition status, can detect the malnutrition more accurately than the conventional single-point body mass index evaluation. <b><i>Objective:</i></b> To investigate how the temporal BW change influences the clinical courses of IPF. <b><i>Methods:</i></b> This multicenter study enrolled IPF patients from four referral hospitals of interstitial lung diseases in Japan (the Japanese cohort, the derivation cohort) and the Royal Brompton Hospital (the UK cohort, the validation cohort). The annual rate of BW change from the initial presentation was evaluated. A &gt; 5% decrease of BW was defined as a significant BW loss. <b><i>Results:</i></b> Twenty-seven out of 124 patients in the Japanese cohort and 13 out of 86 patients in the UK cohort showed significant BW loss. Patients with BW loss showed significantly worse survival in both cohorts. Multivariate analyses revealed that BW loss was an independent factor for decreased survival (Japanese cohort: <i>p</i> = 0.047, UK cohort: <i>p</i> = 0.013). A 6.1% loss of BW was chosen as the optimal cutoff value to predict the 2-year mortality from the initial presentation. The stratified analysis revealed that a 6.1% or greater BW loss could predict worse survival specifically in cases without a greater than 10% decline in forced vital capacity (FVC). <b><i>Conclusions:</i></b> BW loss is independently associated with the survival of IPF patients, particularly when a decline in the FVC was not observed. Further studies are needed to understand the mechanisms underlying BW loss in IPF.
DOI: 10.18462/iir.rankine.2020.1166
title: Thermodynamic analysis of low GWP HFO and HCFO Refrigerants in HTHP with large temperature glides on the heat sink.
DOI: 10.6084/m9.figshare.6989444
title: MRI Images, Subject (b) MC and no MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989453
title: MRI Images, Subject (b) no MC and MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989435
title: MRI Images, Subject (b) MC and MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989444.v1
title: MRI Images, Subject (b) MC and no MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989432
title: Data for: Predator size-structure and species identity determine cascading effects in a coastal ecosystem

description: This data accompanies a paper to be published in Ecology and Evolution "Predator size-structure and species identity determine cascading effects in a coastal ecosystem" by John N Griffin (Swansea University, Wales, UK) and Brian R Silliman (Duke University). <br>Data were collected on 72 experimental field plots during and after a 4-month manipulation of predatory crabs in a salt marsh in Georgia USA in summer 2010. <br>The main factors manipulated were crab species identity and size structure. Additionally, the 'predator free' control allows the effects of predator presence/absence to be inferred.<br>The dataset is contained in 3 sheets, with an additional sheet containing metadata. The first sheet ("Treatments") contains the raw response variables and derived response variables for all treatment replicates. The second sheet ("Control") contains the raw response variables for the control (predator free) replicates. The third sheet contains data on the survival of predator crabs based on surveys conducted bi-weekly throughout the experiment. <br><br><br>
DOI: 10.6084/m9.figshare.6989435.v1
title: MRI Images, Subject (b) MC and MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989429
title: MRI Images, Subject (a) no MC and no MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989429.v1
title: MRI Images, Subject (a) no MC and no MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989432.v1
title: Predator size-structure and species identity determine cascading effects in a coastal ecosystem

description: This data accompanies a paper to be published in Ecology and Evolution "Predator size-structure and species identity determine cascading effects in a coastal ecosystem" by John N Griffin (Swansea University, Wales, UK) and Brian R Silliman (Duke University). <br>Data were collected on 72 experimental field plots during and after a 4-month manipulation of predatory crabs in a salt marsh in Georgia USA in summer 2010. <br>The main factors manipulated were crab species identity and size structure. Additionally, the 'predator free' control allows the effects of predator presence/absence to be inferred.<br>The dataset is contained in 3 sheets, with an additional sheet containing metadata. The first sheet ("Treatments") contains the raw response variables and derived response variables for all treatment replicates. The second sheet ("Control") contains the raw response variables for the control (predator free) replicates. The third sheet contains data on the survival of predator crabs based on surveys conducted bi-weekly throughout the experiment. <br><br><br>
DOI: 10.6084/m9.figshare.6989423
title: MRI images, Subject (a) MC no MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989426
title: MRI Images, Subject (a) no MC and MotionMRI Images

description: Custom 3D FLASH sequence that can apply prospective MC based on the motion estimates.The 3D FLASH sequence has the following parameters: FOV 256 mm × 256 mm × 56 mm with 1 mm × 1 mm × 2 mm voxels (phase/read/slice directions respectively), bandwidth of 1000 Hz/pixel, TR of 15 ms, TE of 2.68 ms, and flip angle 35 degrees.
DOI: 10.6084/m9.figshare.6989417
title: Python scripts for adding depth stamp to OpenROV videos

description: Python scripts used to generate the depth-stamped videos from ROV video recordings and telemetry logs. mergevideos.py merges the multiple ROV recordings into a single file, depthstamp.py adds depth data from the telemetry logs, splitvideos.py splits into dives, avitomp4 converts back into mp4 format<br>
DOI: 10.6084/m9.figshare.6989339
title: Tracking data, Patient (a)

description: Motion tracking data from patient (a).Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989333
title: Tracking data, Subject (b) no MC no Motion

description: Motion tracking data from subject (b) with no MC and no motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989336
title: Tracking data, Patient (b)

description: Motion tracking data from patient (b).Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989339.v1
title: Tracking data, Patient (a)

description: Motion tracking data from patient (a).Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989333.v1
title: Tracking data, Subject (b) no MC no Motion

description: Motion tracking data from subject (b) with no MC and no motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989336.v1
title: Tracking data, Patient (b)

description: Motion tracking data from patient (b).Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989327
title: Tracking data, Subject (b) no MC Motion

description: Motion tracking data from subject (b) with no MC and motion.Aij is the i,j element of the transformation matrix
DOI: 10.25392/leicester.data.6989321
title: Research Elevenses: University of Leicester Library

description: Research elevenses is a collection of short webinars on key research topics specifically of interest for the University of Leicester research community. Webinars are conducted by members of the Library Research Services team and are available for viewing by anyone with an interest in Open Scholarship. These sessions took place in Summer 2018.
DOI: 10.6084/m9.figshare.6989324
title: Tracking data, Subject (b) MC and no Motion

description: Motion tracking data from subject (b) with MC and no motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989327.v1
title: Tracking data, Subject (b) no MC Motion

description: Motion tracking data from subject (b) with no MC and motion.Aij is the i,j element of the transformation matrix
DOI: 10.25392/leicester.data.6989321.v2
title: Research Elevenses: University of Leicester Library

description: Research elevenses is a collection of short webinars on key research topics specifically of interest for the University of Leicester research community. Webinars are conducted by members of the Library Research Services team and are available for viewing by anyone with an interest in Open Scholarship. These sessions took place in Summer 2018.
DOI: 10.6084/m9.figshare.6989324.v1
title: Tracking data, Subject (b) MC and no Motion

description: Motion tracking data from subject (b) with MC and no motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989309
title: Tracking data, Subject (a) no MC and no Motion

description: Motion tracking data from subject (a) with no MC and no motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989315
title: Tracking data, Subject (b) MC and Motion

description: Motion tracking data from subject (b) with MC and motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989309.v1
title: Tracking data, Subject (a) no MC and no Motion

description: Motion tracking data from subject (a) with no MC and no motion.Aij is the i,j element of the transformation matrix
DOI: 10.7284/101341
title: Multibeam Echosounder data collected during research cruise KM0405 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana
DOI: 10.18462/iir.rankine.2020.1167
title: Air cycle feasibility using a novel, single rotor compander for refrigeration and heating.
DOI: 10.6084/m9.figshare.6989255
title: Poster_EmojiGrid_EuroSense_Final.pptx

description: Validation of newly developed pictorial tool, EmojiGrid
DOI: 10.6084/m9.figshare.6989243
title: Tracking data, Subject (a) No MC Motion

description: Motion tracking data from subject (a) with no MC and motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989243.v1
title: Tracking data, Subject (a) No MC Motion

description: Motion tracking data from subject (a) with no MC and motion.Aij is the i,j element of the transformation matrix
DOI: 10.7284/101344
title: Multibeam Echosounder data collected during research cruise KM0407 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana
DOI: 10.6084/m9.figshare.6989183
title: Tracking data, Subject (a) MC No Motion

description: Motion tracking data from subject (a) with MC and No motion.Aij is the i,j element of the transformation matrix
DOI: 10.6084/m9.figshare.6989126
title: Supplementary Material for: Estimating Survival Probabilities of Advanced Gastric Cancer Patients in the Second-Line Setting: The Gastric Life Nomogram

description: <b><i>Objective:</i></b> We built and externally validated a nomogram for predicting the overall survival (OS) probability of advanced gastric cancer patients receiving second-line treatment. <b><i>Methods:</i></b> The nomogram was developed on a set of 320 Italian patients and validated on two independent sets (295 Italian and 172 Korean patients). Putative prognostic variables were selected using a random forest model and included in the multivariable Cox model. The nomogram’s performance was evaluated by calibration plot and C index. <b><i>Results:</i></b> ECOG performance status, neutrophils to lymphocytes ratio, and peritoneal involvement were selected and included into the multivariable model. The C index was 0.72 (95% CI 0.68–0.75) in the development set, 0.69 (95% CI 0.65–0.73) in the Italian validation set, but only 0.57 (95% CI 0.52–0.62) in the Korean set. While Italian calibrations were quite good, the Korean one was poor. Regarding 6-month OS predictions, calibration was best in both Caucasian cohorts and worst the in Asian one. <b><i>Conclusions:</i></b> Our nomogram may be a useful tool to predict 3- or 6-month OS in Caucasian gastric cancer patients eligible for second-line therapy. Based on three easy-to-collect variables, the Gastric Life nomogram may help clinicians improve patient selection for second-line treatments and assist in clinical trial enrollment.
DOI: 10.6084/m9.figshare.6989126.v1
title: Supplementary Material for: Estimating Survival Probabilities of Advanced Gastric Cancer Patients in the Second-Line Setting: The Gastric Life Nomogram

description: <b><i>Objective:</i></b> We built and externally validated a nomogram for predicting the overall survival (OS) probability of advanced gastric cancer patients receiving second-line treatment. <b><i>Methods:</i></b> The nomogram was developed on a set of 320 Italian patients and validated on two independent sets (295 Italian and 172 Korean patients). Putative prognostic variables were selected using a random forest model and included in the multivariable Cox model. The nomogram’s performance was evaluated by calibration plot and C index. <b><i>Results:</i></b> ECOG performance status, neutrophils to lymphocytes ratio, and peritoneal involvement were selected and included into the multivariable model. The C index was 0.72 (95% CI 0.68–0.75) in the development set, 0.69 (95% CI 0.65–0.73) in the Italian validation set, but only 0.57 (95% CI 0.52–0.62) in the Korean set. While Italian calibrations were quite good, the Korean one was poor. Regarding 6-month OS predictions, calibration was best in both Caucasian cohorts and worst the in Asian one. <b><i>Conclusions:</i></b> Our nomogram may be a useful tool to predict 3- or 6-month OS in Caucasian gastric cancer patients eligible for second-line therapy. Based on three easy-to-collect variables, the Gastric Life nomogram may help clinicians improve patient selection for second-line treatments and assist in clinical trial enrollment.
DOI: 10.6084/m9.figshare.6989063
title: data

description: Behavioral, in vitro and in silico data of the project
DOI: 10.6084/m9.figshare.6989063.v1
title: data

description: Behavioral, in vitro and in silico data of the project
DOI: 10.6084/m9.figshare.6989024
title: fMRI results

description: Relevent fMRI images for: <br>B. McCoy, S. Jahfari, G. Engels, T. Knapen, J. Theeuwes (2018). Dopaminergic medication reduces striatal sensitivity to negative outcomes in Parkinson's disease.
DOI: 10.6084/m9.figshare.6989024.v1
title: fMRI results

description: Relevent fMRI images for: <br>B. McCoy, S. Jahfari, G. Engels, T. Knapen, J. Theeuwes (2018). Dopaminergic medication reduces striatal sensitivity to negative outcomes in Parkinson's disease.
DOI: 10.6084/m9.figshare.6989063.v2
title: data

description: Behavioral, in vitro and in silico data of the project
DOI: 10.7284/101354
title: Multibeam Echosounder data collected during research cruise KM0417 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana
DOI: 10.6084/m9.figshare.6989006
title: Supplementary Material for: Heterogeneity of Epigenetic and Epithelial Mesenchymal Transition Marks in Hepatocellular Carcinoma with Keratin 19 Proficiency

description: <b><i>Objective:</i></b> Keratin 19 (K19) expression is a potential predictor of poor prognosis in patients with hepatocellular carcinoma (HCC). To clarify the feature of K19-proficient HCC, we traced epigenetic footprints in cultured cells and clinical materials. <b><i>Patients and Methods:</i></b> In vitro, <i>KRT19</i> promoter methylation was analyzed and 5-aza-2’-deoxycytidine with trichostatin A (TSA) treatment was performed. Among 564 surgically resected HCCs, the clinicopathological relevance of K19-proficent HCCs was performed in comparison with hepatocytic (HepPar-1 and arginase-1), epithelial-mesenchymal transition (E-cadherin and vimentin), biliary differentiation-associated (K7 and NOTCH-1) markers, and epigenetic markers (<i>KRT19</i> promoter/long interspersed nucleotide element-1 [<i>LINE-1</i>] methylation status). <b><i>Results:</i></b> <i>KRT19</i> promoter methylation was clearly associated with K19 deficiency and 5-aza-2’-deoxycytidine with TSA treatment-stimulated K19 re-expression, implicating DNA methylation as a potential epigenetic process for K19 expression. After excluding HCCs with recurrence, TNM stage as IIIB or greater, preoperative therapy, transplantation, and combined hepatocellular cholangiocarcinoma, we assessed 125 of 564 HCC cases. In this cohort, K19 expression was found in 29 HCCs (23.2%) and corresponded with poor survival following surgery (<i>p</i> = 0.025) and extrahepatic recurrence-free survival (<i>p</i> = 0.017). Compared with K19-deficient HCCs, lower <i>KRT19</i> promoter methylation level was observed in K19-proficient HCCs (<i>p</i> &lt; 0.0001). Conversely, HCC with genome-wide <i>LINE-1</i> hypermethylation was frequently observed in K19-proficient HCCs (<i>p</i> = 0.0079). Additionally, K19 proficiency was associated with K7 proficiency (<i>p</i> = 0.043), and reduced E-cadherin and HepPar-1 expression (<i>p</i> = 0.043 and <i>p</i> &lt; 0.0001, respectively). <b><i>Conclusions:</i></b> K19-proficient HCC exhibited poor prognosis owing to extrahepatic recurrence, with molecular signatures differing from those in conventional cancer stem cells, providing novel insights of the heterogeneity underlying tumor development.
DOI: 10.6084/m9.figshare.6988997.v1
title: RadISpeC program code (.m files and GUI for Matlab IDE)

description: Radiation: Interface for Matlab Spectroscopy Calculations (RadISpeC) is a program that use HITRAN/HITEMP data to generate Line-by-Line (LBL) spectra at a wanted spectral resolution and environment. These data can be used with Discrete Transfer Methods (DTM), Ray Tracing (RT) etc. solvers to estimate high precision radiation in heated flow problems. It was created as a part of the article "Experimental and theoretical evaluation of spectral radiative transfer in high-pressure flames" by Westly et. al. from 2019 (under review by Journal atm). This article also show how well the program is at simulating heated gas flows for CO2, H2O and CO compared to experimental results. The program contain all setups that was used for the article to use free of charge, as long as the program and article is cited. All functions have descriptions that explain how to use them and contain call methods. If a more detailed description of theory is wanted, check the RadISpeC documentation PDF inside the RadISpeC folder. This PDF also contain the same information as the function descriptions. The program work fully with the Matlab IDE for 2017b. If the user want to use the created GUI, the Matlab version has to be 2017b or newer. This lies in the function UIFigure that is used, which after an update from 2017a to 2017b made it uncompatible with older Matlab versions. It is possible to request an ".exe" with a standalone version of the program that use the GUI by contacting Anders Ivarsson from DTU MEK <br>
DOI: 10.6084/m9.figshare.6988994
title: Dental homologies and evolutionary transformations in Caviomorpha (Hystricognathi, Rodentia): new data from the Paleogene of Peruvian Amazonia

description: Dental homologies and evolutionary transformations within caviomorph rodents have long been disputed. Here, we participate in these debates in providing new insights from the dental morphology of Paleogene caviomorphs from Peruvian Amazonia (Contamana and Shapaja). Their analyses and comparisons with many hystricognaths allow (1) to generalize some hypotheses previously proposed about occlusal morphology of caviomorph cheek teeth, and (2) to propose new ones. In caviomorphs, the third crest of upper teeth would correspond either to a mesoloph or to a mesolophule or to a combination of both. The transformation from a pentalophodont pattern to a tetralophodont pattern would be explained by the disappearance of the metaloph. Likewise, the transformation from a tetralophodont pattern to a trilophodont pattern is observed by the loss of the third crest. A direct transformation from a pentalophodont pattern to a trilophodont pattern is also observed. Concerning lower teeth, discrepancies of homologies are centered on the mesial cristids, which can be notably distinguished depending on their compositions and connections with other structures. The ancestral patterns of caviomorph lower molars and dp4s were likely tetralophodont and pentalophodont, respectively. However, schemes with five and four (even three) transverse cristids cannot be ruled out for the two loci, respectively.