cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12326177.v1
title: De novo assembly of transcriptome dataset from leaves of Dryobalanops aromatica (Syn. Dryobalanops sumatrensis) seedlings grown in two contrasting potted media

description: The RNA transcriptome data of <i>D. aromatica’</i>s seedlings derived from young leaves extracted from three seedlings of one year old planted in dry mineral soil media and peat media were generated by Illumina HiSeq 4000 platform in NovogenAIT, Singapore. Our data, as the first transcriptome dataset for <i>D. aromatica,</i> is of great importance for understanding the molecular mechanism and the involving genes of <i>D. aromatica</i> responses to contrasting growing potted media condition and could be useful to generate molecular markers.<br><br>
DOI: 10.6084/m9.figshare.12326177.v2
title: De novo assembly of transcriptome dataset from leaves of Dryobalanops aromatica (Syn. Dryobalanops sumatrensis) seedlings grown in two contrasting potted media

description: The RNA transcriptome data of <i>D. aromatica’</i>s seedlings derived from young leaves extracted from three seedlings of one year old planted in dry mineral soil media and peat media were generated by Illumina HiSeq 4000 platform in NovogenAIT, Singapore. Our data, as the first transcriptome dataset for <i>D. aromatica,</i> is of great importance for understanding the molecular mechanism and the involving genes of <i>D. aromatica</i> responses to contrasting growing potted media condition and could be useful to generate molecular markers.<br><br>
DOI: 10.6084/m9.figshare.12326129.v1
title: Table 1

description: Table 1. Elemental and isotopic compositions of rock samples from the Mussoorie section, northern Indian Craton.
DOI: 10.6084/m9.figshare.12326123
title: Targeting EpCAM by a Bispecific Trifunctional Antibody Exerts Profound Cytotoxic Efficacy in Germ Cell Tumor Cell Lines

description: Outcome in high-risk patients with refractory or relapsed germ cell tumours (GCT) remains poor. Novel strategies enhancing therapeutic efficacy whilst limiting therapeutic burden are warranted, yet immunotherapy approaches geared towards activating endogenous antitumor responses have not been successful thus far. Redirection of cytotoxic effector cells by bispecific antibodies represents a promising approach in this setting. We demonstrate that the Epithelial Cell Adhesion Molecule (EpCAM) is broadly expressed in GCT cell lines of different histologic origin including seminoma, choriocarcinoma (CHC), and embryonal carcinoma (EC). In these GCT lines of variable EpCAM surface expression, targeting T cells by the prototypic bispecific EpCAM/CD3-antibody (bAb) Catumaxomab together with natural killer (NK) cell engagement via the Fc domain promotes profound cytotoxicity across a broad range of antibody dilutions. In contrast, tumor cell lysis mediated by either immune cell subset alone is influenced by surface density of the target antigen. In the CHC line JAR, NK cell-dependent cytotoxicity dominates, which may be attributed to differential surface expression of immunomodulatory proteins such as MHC-I, CD24, and Fas receptors on CHC and EC. In view of redirecting T cell therapymediated by bispecific antibodies, such differences inGCT immunophenotype potentially favoring immune escape are worth further investigation.
DOI: 10.6084/m9.figshare.12326177.v3
title: De novo assembly of transcriptome dataset from leaves of Dryobalanops aromatica (Syn. Dryobalanops sumatrensis) seedlings grown in two contrasting potted media

description: The RNA transcriptome data of <i>D. aromatica’</i>s seedlings derived from young leaves extracted from three seedlings of one year old planted in dry mineral soil media and peat media were generated by Illumina HiSeq 4000 platform in NovogenAIT, Singapore. Our data, as the first transcriptome dataset for <i>D. aromatica,</i> is of great importance for understanding the molecular mechanism and the involving genes of <i>D. aromatica</i> responses to contrasting growing potted media condition and could be useful to generate molecular markers.<br><br>
DOI: 10.6084/m9.figshare.12326117
title: Results of microsatellite region finding in Dryobalanops aromatica contigs

description: Results of microsatellite region finding in Dryobalanops aromatica contigs
DOI: 10.6084/m9.figshare.12326141.v1
title: Table B1

description: Table B1. Hg isotopic compositions of procedural and analytical standards and duplicates
DOI: 10.6084/m9.figshare.12326123.v2
title: Targeting EpCAM by a Bispecific Trifunctional Antibody Exerts Profound Cytotoxic Efficacy in Germ Cell Tumor Cell Lines

description: Outcome in high-risk patients with refractory or relapsed germ cell tumours (GCT) remains poor. Novel strategies enhancing therapeutic efficacy whilst limiting therapeutic burden are warranted, yet immunotherapy approaches geared towards activating endogenous antitumor responses have not been successful thus far. Redirection of cytotoxic effector cells by bispecific antibodies represents a promising approach in this setting. We demonstrate that the Epithelial Cell Adhesion Molecule (EpCAM) is broadly expressed in GCT cell lines of different histologic origin including seminoma, choriocarcinoma (CHC), and embryonal carcinoma (EC). In these GCT lines of variable EpCAM surface expression, targeting T cells by the prototypic bispecific EpCAM/CD3-antibody (bAb) Catumaxomab together with natural killer (NK) cell engagement via the Fc domain promotes profound cytotoxicity across a broad range of antibody dilutions. In contrast, tumor cell lysis mediated by either immune cell subset alone is influenced by surface density of the target antigen. In the CHC line JAR, NK cell-dependent cytotoxicity dominates, which may be attributed to differential surface expression of immunomodulatory proteins such as MHC-I, CD24, and Fas receptors on CHC and EC. In view of redirecting T cell therapymediated by bispecific antibodies, such differences inGCT immunophenotype potentially favoring immune escape are worth further investigation.
DOI: 10.6084/m9.figshare.12326177.v4
title: De novo assembly of transcriptome dataset from leaves of Dryobalanops aromatica (Syn. Dryobalanops sumatrensis) seedlings grown in two contrasting potted media

description: The RNA transcriptome data of <i>D. aromatica’</i>s seedlings derived from young leaves extracted from three seedlings of one year old planted in dry mineral soil media and peat media were generated by Illumina HiSeq 4000 platform in NovogenAIT, Singapore. Our data, as the first transcriptome dataset for <i>D. aromatica,</i> is of great importance for understanding the molecular mechanism and the involving genes of <i>D. aromatica</i> responses to contrasting growing potted media condition and could be useful to generate molecular markers.<br><br>
DOI: 10.6084/m9.figshare.12326117.v2
title: Results of microsatellite region finding in Dryobalanops aromatica contigs

description: Results of microsatellite region finding in Dryobalanops aromatica contigs
DOI: 10.6084/m9.figshare.12326069
title: Figure 6. C-F / Quantification

description: Quantification of PROX1 in immunostaining of slices of rat hearts.
DOI: 10.6084/m9.figshare.12326117.v1
title: Results of microsatellite region finding in Dryobalanops aromatica contigs

description: Results of microsatellite region finding in Dryobalanops aromatica contigs
DOI: 10.6084/m9.figshare.12326123.v1
title: Targeting EpCAM by a Bispecific Trifunctional Antibody Exerts Profound Cytotoxic E?cacy in Germ Cell Tumor Cell Lines

description: Outcome in high-risk patients with refractory or relapsed germ cell tumours (GCT) remains poor. Novel strategies enhancing therapeutic efficacy whilst limiting therapeutic burden are warranted, yet immunotherapy approaches geared towards activating endogenous antitumor responses have not been successful thus far. Redirection of cytotoxic effector cells by bispecific antibodies represents a promising approach in this setting. We demonstrate that the Epithelial Cell Adhesion Molecule (EpCAM) is broadly expressed in GCT cell lines of different histologic origin including seminoma, choriocarcinoma (CHC), and embryonal carcinoma (EC). In these GCT lines of variable EpCAM surface expression, targeting T cells by the prototypic bispecific EpCAM/CD3-antibody (bAb) Catumaxomab together with natural killer (NK) cell engagement via the Fc domain promotes profound cytotoxicity across a broad range of antibody dilutions. In contrast, tumor cell lysis mediated by either immune cell subset alone is influenced by surface density of the target antigen. In the CHC line JAR, NK cell-dependent cytotoxicity dominates, which may be attributed to differential surface expression of immunomodulatory proteins such as MHC-I, CD24, and Fas receptors on CHC and EC. In view of redirecting T cell therapymediated by bispecific antibodies, such differences inGCT immunophenotype potentially favoring immune escape are worth further investigation.
DOI: 10.6084/m9.figshare.12326069.v1
title: Figure 6. C-F / Quantification

description: Quantification of PROX1 in immunostaining of slices of rat hearts.
DOI: 10.6084/m9.figshare.12325910
title: Example sound ([a:] of speaker 1) from the Dresden Vocal Tract Dataset

description: This archive contains all files for the tense [a:] of speaker 1.
DOI: 10.6084/m9.figshare.12325904
title: Supplementary Material for: Concomitant Use of Gabapentinoids with Opioids Is Associated with Increased Mortality and Morbidity among Dialysis Patients

description: <b><i>Background:</i></b> The opioid epidemic is a public health emergency and appropriate medication prescription for pain remains challenging. Physicians have increasingly prescribed gabapentinoids for pain despite limited evidence supporting their use. We determined the prevalence of concomitant gabapentinoid and opioid prescriptions and evaluated their associations with outcomes among dialysis patients. <b><i>Methods:</i></b> We used the United States Renal Data System to identify patients treated with dialysis with Part A, B, and D coverage for all of 2010. Patients were grouped into 4 categories of drugs exposure status in 2010: (1) no prescriptions of either an opioid or gabapentinoid, (2) ≥1 prescription of an opioid and no prescriptions of gabapentinoids, (3) no prescriptions of an opioid and ≥1 prescription of gabapenbtinoids, (4) ≥1 prescription of both an opioid and gabapentinoid. Outcomes included 2-year all-cause death, dialysis discontinuation, and hospitalizations assessed in 2011 and 2012. <b><i>Results:</i></b> The study population included 153,758 dialysis patients. Concomitant prescription of an opioid and gabapentin (15%) was more common than concomitant prescription of an opioid and pregabalin (4%). In adjusted analyses, concomitant prescription of an opioid and gabapentin compared to no prescription of either was associated with increased risk of death (hazard ratio [HR] 1.16, 95% CI 1.12–1.19), dialysis discontinuation (HR 1.14, 95% CI 1.03–1.27), and hospitalization (HR 1.33, 95% CI 1.31–1.36). Concomitant prescription of an opioid and pregabalin compared to no prescription of either was associated with increased mortality (HR 1.22, 95% CI 1.16–1.28) and hospitalization (HR 1.37, 95% CI 1.33–1.41), but not dialysis discontinuation (HR 1.13, 95% CI 0.95–1.35). Prescription of opioids and gabepentinoids compared to only being prescribed opioids was associated with higher risk of hospitalizations, but not mortality, or dialysis discontinuation. <b><i>Conclusions:</i></b> Concomitant prescription of opioids and gabapentinoids among US dialysis patients is common, and both drugs have independent effects on outcomes. Future research should prospectively investigate the potential harms of such drugs and identify safer alternatives for treatment of pain in end-stage renal disease patients.
DOI: 10.6084/m9.figshare.12325910.v1
title: Example sound ([a:] of speaker 1) from the Dresden Vocal Tract Dataset

description: This archive contains all files for the tense [a:] of speaker 1.
DOI: 10.6084/m9.figshare.12325883
title: Supplementary Material for: A Common Metric for Self-Reported Severity of Personality Disorder

description: <b><i>Introduction:</i></b> Dimensional models of personality disorders (PD) in the DSM-5 and ICD-11 share a focus on impairments in self and interpersonal functioning to represent the general features and severity of PD. This new perspective has led to the development of numerous measures for assessing individual differences in PD severity. While this improves choices for researchers and practitioners, it also poses the challenge of an increasing lack of standardization. <b><i>Objective:</i></b> The aim of this study is to establish a common metric across 6 widely used self-report measures of PD severity using item response theory models. <b><i>Methods:</i></b> 849 participants completed a survey including the Inventory of Personality Organization – 16-item version (IPO-16), the Level of Personality Functioning Scale – Brief Form 2.0, the Level of Personality Functioning Scale – Self-Report, the Operationalized Psychodynamic Diagnosis – Structure Questionnaire Short Form, the Personality Inventory for DSM-5 – Brief Form Plus and the Standardized Assessment of Severity of Personality Disorder (SASPD). We fitted exploratory multidimensional graded response models and used bifactor rotation to extract a general factor across measures. Factor scores were linked to representative T scores using data from a representative survey of 2,502 participants who completed the IPO-16. <b><i>Results:</i></b> When using bifactor rotation in a 7-factor model, all items loaded positively on the general factor, and the general factor explained 65.5% of the common variance. With the exception of the SASPD, all measures provided highly discriminating items (factor loadings &gt;0.70) for measuring the general factor and reached an acceptable reliability (&gt;0.80) across a wide range of the latent continuum. We constructed a crosswalk table linking total scores of the 6 measures to each other and to representative T scores. <b><i>Conclusions:</i></b> Our results suggest that 6 different self-report measures of the severity of PD capture a strong common factor and can therefore be scaled along a single latent continuum. Our results may facilitate instrument-independent assessment of severity of PD and increase comparability across studies.
DOI: 10.6084/m9.figshare.12325883.v2
title: Supplementary Material for: A Common Metric for Self-Reported Severity of Personality Disorder

description: <b><i>Introduction:</i></b> Dimensional models of personality disorders (PD) in the DSM-5 and ICD-11 share a focus on impairments in self and interpersonal functioning to represent the general features and severity of PD. This new perspective has led to the development of numerous measures for assessing individual differences in PD severity. While this improves choices for researchers and practitioners, it also poses the challenge of an increasing lack of standardization. <b><i>Objective:</i></b> The aim of this study is to establish a common metric across 6 widely used self-report measures of PD severity using item response theory models. <b><i>Methods:</i></b> 849 participants completed a survey including the Inventory of Personality Organization – 16-item version (IPO-16), the Level of Personality Functioning Scale – Brief Form 2.0, the Level of Personality Functioning Scale – Self-Report, the Operationalized Psychodynamic Diagnosis – Structure Questionnaire Short Form, the Personality Inventory for DSM-5 – Brief Form Plus and the Standardized Assessment of Severity of Personality Disorder (SASPD). We fitted exploratory multidimensional graded response models and used bifactor rotation to extract a general factor across measures. Factor scores were linked to representative T scores using data from a representative survey of 2,502 participants who completed the IPO-16. <b><i>Results:</i></b> When using bifactor rotation in a 7-factor model, all items loaded positively on the general factor, and the general factor explained 65.5% of the common variance. With the exception of the SASPD, all measures provided highly discriminating items (factor loadings &gt;0.70) for measuring the general factor and reached an acceptable reliability (&gt;0.80) across a wide range of the latent continuum. We constructed a crosswalk table linking total scores of the 6 measures to each other and to representative T scores. <b><i>Conclusions:</i></b> Our results suggest that 6 different self-report measures of the severity of PD capture a strong common factor and can therefore be scaled along a single latent continuum. Our results may facilitate instrument-independent assessment of severity of PD and increase comparability across studies.
DOI: 10.6084/m9.figshare.12325883.v1
title: Supplementary Material for: A Common Metric for Self-Reported Severity of Personality Disorder

description: <b><i>Introduction:</i></b> Dimensional models of personality disorders (PD) in the DSM-5 and ICD-11 share a focus on impairments in self and interpersonal functioning to represent the general features and severity of PD. This new perspective has led to the development of numerous measures for assessing individual differences in PD severity. While this improves choices for researchers and practitioners, it also poses the challenge of an increasing lack of standardization. <b><i>Objective:</i></b> The aim of this study is to establish a common metric across 6 widely used self-report measures of PD severity using item response theory models. <b><i>Methods:</i></b> 849 participants completed a survey including the Inventory of Personality Organization – 16-item version (IPO-16), the Level of Personality Functioning Scale – Brief Form 2.0, the Level of Personality Functioning Scale – Self-Report, the Operationalized Psychodynamic Diagnosis – Structure Questionnaire Short Form, the Personality Inventory for DSM-5 – Brief Form Plus and the Standardized Assessment of Severity of Personality Disorder (SASPD). We fitted exploratory multidimensional graded response models and used bifactor rotation to extract a general factor across measures. Factor scores were linked to representative T scores using data from a representative survey of 2,502 participants who completed the IPO-16. <b><i>Results:</i></b> When using bifactor rotation in a 7-factor model, all items loaded positively on the general factor, and the general factor explained 65.5% of the common variance. With the exception of the SASPD, all measures provided highly discriminating items (factor loadings &gt;0.70) for measuring the general factor and reached an acceptable reliability (&gt;0.80) across a wide range of the latent continuum. We constructed a crosswalk table linking total scores of the 6 measures to each other and to representative T scores. <b><i>Conclusions:</i></b> Our results suggest that 6 different self-report measures of the severity of PD capture a strong common factor and can therefore be scaled along a single latent continuum. Our results may facilitate instrument-independent assessment of severity of PD and increase comparability across studies.
DOI: 10.6084/m9.figshare.12325835
title: A bio-mimicking climbing robot to explore the performance landscapes of locomotion in lizards

description: <b>Here we reconstruct the full performance landscape of climbing locomotion using a 10 DOF robot based upon the lizard bauplan, including an actuated spine, shoulders, and feet, the latter which interlock with the surface via claws. This design allows us to independently vary speed, range of motion, wrist angles, and movement kinematics, while simultaneously collecting data on climbed distance, stability and efficiency, building. </b>
DOI: 10.6084/m9.figshare.12325835.v1
title: A bio-mimicking climbing robot to explore the performance landscapes of locomotion in lizards

description: <b>Here we reconstruct the full performance landscape of climbing locomotion using a 10 DOF robot based upon the lizard bauplan, including an actuated spine, shoulders, and feet, the latter which interlock with the surface via claws. This design allows us to independently vary speed, range of motion, wrist angles, and movement kinematics, while simultaneously collecting data on climbed distance, stability and efficiency, building. </b>
DOI: 10.6084/m9.figshare.12325799
title: genome and transcriptome

description: hit_est_all_uni = transcriptome annotation result using swissprothit_est_all_nr = transcriptome annotation result using NCBI nr database est_all.fasta.transdecoder.cds = final transcriptome assembly portia.9-scaffolds.zip = genome assembly
DOI: 10.6084/m9.figshare.12325814
title: Tribolium castaneum rearing and toxicity data

description: Toxicity of Tribolium castaneum adults to fungi. Toxicity of Tribolium castaneum eggs and larvae. Rearing success (egg to adult) with only cotton seed and particular fungal species as diet.
DOI: 10.6084/m9.figshare.12325814.v1
title: Tribolium castaneum rearing and toxicity data

description: Toxicity of Tribolium castaneum adults to fungi. Toxicity of Tribolium castaneum eggs and larvae. Rearing success (egg to adult) with only cotton seed and particular fungal species as diet.
DOI: 10.6084/m9.figshare.12325799.v1
title: genome and transcriptome

description: hit_est_all_uni = transcriptome annotation result using swissprothit_est_all_nr = transcriptome annotation result using NCBI nr database est_all.fasta.transdecoder.cds = final transcriptome assembly portia.9-scaffolds.zip = genome assembly
DOI: 10.6084/m9.figshare.12325205
title: Single hormonal receptor MBC

description: Single HR positive patients could have a better prognosis in stage I-III MBC, but not in stage IV MBC.
DOI: 10.6084/m9.figshare.12325205.v1
title: Single hormonal receptor MBC

description: Single HR positive patients could have a better prognosis in stage I-III MBC, but not in stage IV MBC.
DOI: 10.6084/m9.figshare.12324785
title: Additional file 3 of Protection from DNA re-methylation by transcription factors in primordial germ cells and pre-implantation embryos can explain trans-generational epigenetic inheritance

description: Additional file 3. Genes associated with the binding of reprogramming TFs. Left column: genes with FPKM &gt; 10 in E11.5 PGCs within 10 kb of an E9.5-Hi, E14.5m-trace site. Right column: genes with FPKM &gt; 10 in E16.5m PGCs within 10 kb of an E9.5-trace, E14.5m-Hi site.
DOI: 10.6084/m9.figshare.12324788
title: Additional file 5 of What approaches exist to evaluate the effectiveness of UK-relevant natural flood management measures? A systematic map protocol

description: Additional file 5. Systematic map coding descriptions. This file provides details of how screened articles will be coded with a set of standardised codes relating to the systematic map questions.
DOI: 10.6084/m9.figshare.12324782
title: Additional file 4 of What approaches exist to evaluate the effectiveness of UK-relevant natural flood management measures? A systematic map protocol

description: Additional file 4. ROSES for systematic map protocol. This file follows the ROSES flow diagram and outlines the review documentation.
DOI: 10.6084/m9.figshare.12324785.v1
title: Additional file 3 of Protection from DNA re-methylation by transcription factors in primordial germ cells and pre-implantation embryos can explain trans-generational epigenetic inheritance

description: Additional file 3. Genes associated with the binding of reprogramming TFs. Left column: genes with FPKM &gt; 10 in E11.5 PGCs within 10 kb of an E9.5-Hi, E14.5m-trace site. Right column: genes with FPKM &gt; 10 in E16.5m PGCs within 10 kb of an E9.5-trace, E14.5m-Hi site.
DOI: 10.6084/m9.figshare.12324779
title: Additional file 2 of Protection from DNA re-methylation by transcription factors in primordial germ cells and pre-implantation embryos can explain trans-generational epigenetic inheritance

description: Additional file 2: Table S1. TFs whose motifs are enriched at E14.5m PGC DNAse-Hi sites that are expressed in E16.5m PGCs based on RNA-seq.