cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9746162.v1
title: The impact of neutrophil-lymphocyte ratio on risk reclassification of patients with advanced renal cell cancer to guide risk-directed therapy

description: <b>Background:</b> An elevated neutrophil-lymphocyte ratio (NLR) is associated with poor prognosis in advanced renal cell carcinoma (RCC). We examined whether the addition of NLR improves the risk reclassification of advanced RCC using current prognostic tools from the Memorial Sloan Kettering Cancer Center (MSKCC) and International Metastatic Renal Cell Carcinoma Database Consortium (IMDC). <b>Methods:</b> Using randomised data from the COMPARZ trial of first-line pazopanib vs. sunitinib in advanced RCC, we constructed multivariable models containing MSKCC and IMDC predictor variables with and without NLR. We evaluated model discrimination using the concordance index (C-index). We computed net reclassification improvement to quantify patient reclassification into low/intermediate/poor risk groups with the addition of NLR. <b>Results:</b> Of 1102 patients, NLR ≥ 5 (16%) was associated with shorter survival adjusting for MSKCC variables (adjusted HR 1.89, <i>p</i> &lt; .001). Adding NLR to MSKCC variables increased the C-index by 0.01. Among patients who died before 24 months (<i>N</i> = 415), adding NLR reclassified 8% and 2% to a higher and lower risk category, respectively. Among those alive at 24 months (<i>N</i> = 636), adding NLR reclassified 4% and 1% to a higher and lower risk category, respectively. This finding translates to a net benefit of eight additional patients who die within 24 months correctly identified as poor risk per 1000 patients tested. We obtained similar results when evaluating NLR with IMDC variables. <b>Conclusions:</b> NLR does not substantially improve risk reclassification over pre-existing prognostic tools. MSKCC and IMDC classifications remain the standard for guiding risk-directed therapy and trial stratification of patients with advanced RCC.
DOI: 10.6084/m9.figshare.9746150
title: Supplementary Table.xlsx

description: Supplementary Table of the manuscript entitled "Difference in effects of muscle, nerve and deep fascia stiffness on joint flexibility between young and older people: a shear wave ultrasound elastography study"
DOI: 10.6084/m9.figshare.9746141
title: Supplementary Material for: Monotherapy for Alopecia Areata: A Systematic Review and Network Meta-Analysis

description: <b><i>Background:</i></b> There are many treatments available for alopecia areata; however, none are approved by the US Food and Drug Administration. Thus, there is clinician benefit in efficacy comparison. <b><i>Methods:</i></b> A network meta-analysis was used to create direct and indirect comparisons of alopecia areata studies in addition to an inconsistency analysis, risk of bias, and quality of evidence assessment. <b><i>Results:</i></b> For mild disease, intralesional corticosteroids were ranked the most likely to produce a response at 78.9% according to SUCRA (surface under the cumulative ranking curve) followed by topical corticosteroids (67.9%), prostaglandin analogs (67.1%), diphenylcyclopropenone (DPCP, 63.4%), topical minoxidil (61.2%), and squaric acid dibutylester (SADBE, 35.0%). In contrast, for moderate to severe disease (&gt;50% scalp hair loss), DPCP was the top-ranked treatment (87.9%), followed by laser (77.9%), topical minoxidil (55.5%), topical corticosteroids (50.1%), SADBE (49.7%), and topical tofacitinib (47.6%). There were insufficient eligible trials to include oral tofacitinib in the network. <b><i>Conclusion:</i></b> Statistically significant evidence is presented for the use of intralesional and topical corticosteroids for treatment of mild disease and DPCP, laser, SADBE, topical minoxidil and topical corticosteroids for moderate to severe disease. Further controlled trials are required to analyze the relative efficacy of oral tofacitinib.
DOI: 10.6084/m9.figshare.9746150.v2
title: Supplementary Table.xlsx

description: Supplementary Table of the manuscript entitled "Difference in effects of muscle, nerve and deep fascia stiffness on joint flexibility between young and older people: a shear wave ultrasound elastography study"
DOI: 10.6084/m9.figshare.9746150.v1
title: Supplementary Table.xlsx

description: Supplementary Table of the manuscript entitled "Difference in effects of muscle, nerve and deep fascia stiffness on joint flexibility between young and older people: a shear wave ultrasound elastography study"
DOI: 10.6084/m9.figshare.9746075
title: Meeting Farmers Where They Are – Rural Clinicians’ Views on Farmers’ Mental Health

description: <b>Objective</b>: To explore rural clinicians’ understanding of farmers’ mental health and well-being, current health services, and potential responses. <b>Methods</b>: Qualitative design, with semi-structured, taped interviews of five family physicians and four mental health nurses-counselors practicing in rural Grey–Bruce counties, Ontario. Transcripts analyzed with N-Vivo through iterative coding of emergent themes and mapping of relationships among themes. <b>Results</b>: Participating rural clinicians all expressed admiration for farmers. They shared insights around three main themes: 1) farming as a unique subculture; 2) farming involved both benefits and challenges for health; and 3) farmers rarely seek care. Clinicians need to take advantage of contact opportunities to ask about mental health. Several suggested ways to meet farmers where they are, e.g., through better funding for house-farm calls and community events. <b>Conclusion</b>: Clinician responses to farmers’ mental health challenges include recognizing farmers’ distinct context. Complementary health promotion in conjunction with farm organizations is needed to reach farmers.
DOI: 10.6084/m9.figshare.9746051
title: High dimensional surrogacy: computational aspects of an upscaled analysis

description: Identification of genomic biomarkers is an important area of research in the context of drug discovery experiments. These experiments typically consist of several high dimensional datasets that contain information about a set of drugs (compounds) under development. This type of data structure introduces the challenge of multi-source data integration. High-Performance Computing (HPC) has become an important tool for everyday research tasks. In the context of drug discovery, high dimensional multi-source data needs to be analyzed to identify the biological pathways related to the new set of drugs under development. In order to process all information contained in the datasets, HPC techniques are required. Even though R packages for parallel computing are available, they are not optimized for a specific setting and data structure. In this article, we propose a new framework, for data analysis, to use R in a computer cluster. The proposed data analysis workflow is applied to a multi-source high dimensional drug discovery dataset and compared with a few existing R packages for parallel computing.
DOI: 10.6084/m9.figshare.9746075.v1
title: Meeting Farmers Where They Are – Rural Clinicians’ Views on Farmers’ Mental Health

description: <b>Objective</b>: To explore rural clinicians’ understanding of farmers’ mental health and well-being, current health services, and potential responses. <b>Methods</b>: Qualitative design, with semi-structured, taped interviews of five family physicians and four mental health nurses-counselors practicing in rural Grey–Bruce counties, Ontario. Transcripts analyzed with N-Vivo through iterative coding of emergent themes and mapping of relationships among themes. <b>Results</b>: Participating rural clinicians all expressed admiration for farmers. They shared insights around three main themes: 1) farming as a unique subculture; 2) farming involved both benefits and challenges for health; and 3) farmers rarely seek care. Clinicians need to take advantage of contact opportunities to ask about mental health. Several suggested ways to meet farmers where they are, e.g., through better funding for house-farm calls and community events. <b>Conclusion</b>: Clinician responses to farmers’ mental health challenges include recognizing farmers’ distinct context. Complementary health promotion in conjunction with farm organizations is needed to reach farmers.
DOI: 10.6084/m9.figshare.9746051.v1
title: High dimensional surrogacy: computational aspects of an upscaled analysis

description: Identification of genomic biomarkers is an important area of research in the context of drug discovery experiments. These experiments typically consist of several high dimensional datasets that contain information about a set of drugs (compounds) under development. This type of data structure introduces the challenge of multi-source data integration. High-Performance Computing (HPC) has become an important tool for everyday research tasks. In the context of drug discovery, high dimensional multi-source data needs to be analyzed to identify the biological pathways related to the new set of drugs under development. In order to process all information contained in the datasets, HPC techniques are required. Even though R packages for parallel computing are available, they are not optimized for a specific setting and data structure. In this article, we propose a new framework, for data analysis, to use R in a computer cluster. The proposed data analysis workflow is applied to a multi-source high dimensional drug discovery dataset and compared with a few existing R packages for parallel computing.
DOI: 10.6084/m9.figshare.9746009
title: Transcriptome and proteome correlation analysis

description: transcriptome and proteome association analysis of male sterile and fertile plants
DOI: 10.6084/m9.figshare.9746009.v1
title: Transcriptome and proteome correlation analysis

description: transcriptome and proteome association analysis of male sterile and fertile plants
DOI: 10.6084/m9.figshare.9745988
title: MOESM2 of EnRoot: a narrow-diameter, inexpensive and partially 3D-printable minirhizotron for imaging fine root production

description: Additional file 2. 3D files for printing the components of EnRoot with a quick guide.
DOI: 10.6084/m9.figshare.9745988.v1
title: MOESM2 of EnRoot: a narrow-diameter, inexpensive and partially 3D-printable minirhizotron for imaging fine root production

description: Additional file 2. 3D files for printing the components of EnRoot with a quick guide.
DOI: 10.6084/m9.figshare.9745949
title: Additional file 1: of Three-dimensional photographic analysis of the face in European adults from southern Spain with normal occlusion: reference anthropometric measurements

description: Variables data generated or analyzed during this study. (XLSX 51 kb)
DOI: 10.6084/m9.figshare.9745949.v1
title: Additional file 1: of Three-dimensional photographic analysis of the face in European adults from southern Spain with normal occlusion: reference anthropometric measurements

description: Variables data generated or analyzed during this study. (XLSX 51 kb)
DOI: 10.17036/researchdata.aston.ac.uk.00000474
title: Bi-Directional Amplification of C+L-Band Signals by Polarization Insensitive Fiber Optic Parametric Amplifier
DOI: 10.6084/m9.figshare.9745850
title: Additional file 4: of Bone marrow concentrate-induced mesenchymal stem cell conditioned medium facilitates wound healing and prevents hypertrophic scar formation in a rabbit ear model

description: Raw data of RNA sequence. Detail of differential gene expression and fold of change between case and control. A: DMEM, B: MSCs CM, C: BMC CM, D: BMC-MSCs CM. 2,3,6: No. of patient (XLSX 40 kb)
DOI: 10.6084/m9.figshare.9745850.v1
title: Additional file 4: of Bone marrow concentrate-induced mesenchymal stem cell conditioned medium facilitates wound healing and prevents hypertrophic scar formation in a rabbit ear model

description: Raw data of RNA sequence. Detail of differential gene expression and fold of change between case and control. A: DMEM, B: MSCs CM, C: BMC CM, D: BMC-MSCs CM. 2,3,6: No. of patient (XLSX 40 kb)
DOI: 10.6084/m9.figshare.9745817
title: Additional file 9: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S9. Identification information of N deficiency and N compensation-responsive DEPs between NCP and NDT. (XLSX 62 kb)
DOI: 10.6084/m9.figshare.9745811
title: Additional file 7: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S7. Identification information of N deficiency-responsive DEPs between NDT and NST at the tillering stage. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.9745814
title: Additional file 8: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S8. Identification information of N compensation-responsive DEPs between NCP and NSP at the young panicle differentiation stage. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.9745814.v1
title: Additional file 8: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S8. Identification information of N compensation-responsive DEPs between NCP and NSP at the young panicle differentiation stage. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.9745817.v1
title: Additional file 9: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S9. Identification information of N deficiency and N compensation-responsive DEPs between NCP and NDT. (XLSX 62 kb)
DOI: 10.6084/m9.figshare.9745805
title: Additional file 6: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S6. Information on all the peptides identified in experiment 3. (XLSX 1988 kb)
DOI: 10.6084/m9.figshare.9745811.v1
title: Additional file 7: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S7. Identification information of N deficiency-responsive DEPs between NDT and NST at the tillering stage. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.9745802
title: Additional file 5: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S5. Proteins identified and quantified in experiments 3. (XLSX 248 kb)
DOI: 10.6084/m9.figshare.9745805.v1
title: Additional file 6: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S6. Information on all the peptides identified in experiment 3. (XLSX 1988 kb)
DOI: 10.6084/m9.figshare.9745796
title: Additional file 4: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S4. Information on all the peptides identified in experiment 2. (XLSX 1957 kb)
DOI: 10.6084/m9.figshare.9745790
title: Additional file 3: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S3. Proteins identified and quantified in experiment 2. (XLSX 243 kb)
DOI: 10.6084/m9.figshare.9745802.v1
title: Additional file 5: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S5. Proteins identified and quantified in experiments 3. (XLSX 248 kb)
DOI: 10.6084/m9.figshare.9745796.v1
title: Additional file 4: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S4. Information on all the peptides identified in experiment 2. (XLSX 1957 kb)
DOI: 10.6084/m9.figshare.9745784
title: Additional file 2: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S2. Information on all the peptides identified in experiment 1. (XLSX 1857 kb)
DOI: 10.6084/m9.figshare.9745790.v1
title: Additional file 3: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S3. Proteins identified and quantified in experiment 2. (XLSX 243 kb)
DOI: 10.6084/m9.figshare.9745778
title: Additional file 1: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S1. Proteins identified and quantified in experiments 1. (XLSX 222 kb)
DOI: 10.6084/m9.figshare.9745784.v1
title: Additional file 2: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S2. Information on all the peptides identified in experiment 1. (XLSX 1857 kb)
DOI: 10.6084/m9.figshare.9745778.v1
title: Additional file 1: of iTRAQ-based quantitative proteomic and physiological analysis of the response to N deficiency and the compensation effect in rice

description: Table S1. Proteins identified and quantified in experiments 1. (XLSX 222 kb)
DOI: 10.6084/m9.figshare.9745679
title: Additional file 6: of Natural allelic variations of Saccharomyces cerevisiae impact stuck fermentation due to the combined effect of ethanol and temperature; a QTL-mapping study

description: List on SNP within parental strains and their effect for loci on chromosomes VIII and IV (XLSX 10 kb)
DOI: 10.6084/m9.figshare.9745679.v1
title: Additional file 6: of Natural allelic variations of Saccharomyces cerevisiae impact stuck fermentation due to the combined effect of ethanol and temperature; a QTL-mapping study

description: List on SNP within parental strains and their effect for loci on chromosomes VIII and IV (XLSX 10 kb)
DOI: 10.6084/m9.figshare.9745673
title: Additional file 5: of Natural allelic variations of Saccharomyces cerevisiae impact stuck fermentation due to the combined effect of ethanol and temperature; a QTL-mapping study

description: KASP Markers used for linkage analysis (XLSX 12 kb)
DOI: 10.6084/m9.figshare.9745667
title: Additional file 4: of Natural allelic variations of Saccharomyces cerevisiae impact stuck fermentation due to the combined effect of ethanol and temperature; a QTL-mapping study

description: SNP detected by NGS (sheet 1); Tiling (Sheet 2) and filtered markers with their occurrence in the 7 segregants genotyped (sheet 3) (XLSX 544 kb)
DOI: 10.6084/m9.figshare.9745664
title: Additional file 1: of NPM1 as a potential therapeutic target for atypical teratoid/rhabdoid tumors

description: Supplementary figures. (XLSX 672 kb)
DOI: 10.6084/m9.figshare.9745667.v1
title: Additional file 4: of Natural allelic variations of Saccharomyces cerevisiae impact stuck fermentation due to the combined effect of ethanol and temperature; a QTL-mapping study

description: SNP detected by NGS (sheet 1); Tiling (Sheet 2) and filtered markers with their occurrence in the 7 segregants genotyped (sheet 3) (XLSX 544 kb)
DOI: 10.6084/m9.figshare.9745673.v1
title: Additional file 5: of Natural allelic variations of Saccharomyces cerevisiae impact stuck fermentation due to the combined effect of ethanol and temperature; a QTL-mapping study

description: KASP Markers used for linkage analysis (XLSX 12 kb)
DOI: 10.6084/m9.figshare.9745664.v1
title: Additional file 1: of NPM1 as a potential therapeutic target for atypical teratoid/rhabdoid tumors

description: Supplementary figures. (XLSX 672 kb)
DOI: 10.6084/m9.figshare.9745574
title: Additional file 6: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: The longest viral genome length of each species identified in this study and their related the reference genomes length as well as the accession number. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.9745574.v1
title: Additional file 6: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: The longest viral genome length of each species identified in this study and their related the reference genomes length as well as the accession number. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.9745535
title: MOESM6 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 6: TableÂ S5. List of 37 potential CRC biomarker protein candidates.
DOI: 10.6084/m9.figshare.9745541
title: Additional file 2: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: Sequencing information and SRA number. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.9745535.v1
title: MOESM6 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 6: TableÂ S5. List of 37 potential CRC biomarker protein candidates.
DOI: 10.6084/m9.figshare.9745523
title: MOESM5 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 5: TableÂ S4. List of quantifiable plasma proteins captured by non-depletion and depletion strategies.
DOI: 10.6084/m9.figshare.9745526
title: Additional file 11: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: Null parameters of bacterial models and WIsH prediction results. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.9745541.v1
title: Additional file 2: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: Sequencing information and SRA number. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.9745523.v1
title: MOESM5 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 5: TableÂ S4. List of quantifiable plasma proteins captured by non-depletion and depletion strategies.
DOI: 10.6084/m9.figshare.9745526.v1
title: Additional file 11: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: Null parameters of bacterial models and WIsH prediction results. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.9745517
title: MOESM4 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 4: TableÂ S3. List of 8 proteins that have not previouslyÂ identifiedÂ in human plasma, searched against PeptideAtlas database.
DOI: 10.6084/m9.figshare.9745520
title: Additional file 10: of Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics

description: qRT-PCR primers, probes and conditions. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9745508
title: MOESM2 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 2: TableÂ S1. List of identified proteins/peptides from different peptide fractionation methods.
DOI: 10.6084/m9.figshare.9745514
title: MOESM3 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 3: TableÂ S2. Plasma protein concentration, subcellular location and tissue specificity.
DOI: 10.6084/m9.figshare.9745517.v1
title: MOESM4 of Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel

description: Additional file 4: TableÂ S3. List of 8 proteins that have not previouslyÂ identifiedÂ in human plasma, searched against PeptideAtlas database.