cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.10311188.v1
title: Metadata record for: Dataset supporting blood pressure prediction for the management of chronic hemodialysis

description: This dataset contains key characteristics about the data described in the Data Descriptor Dataset supporting blood pressure prediction for the management of chronic hemodialysis. <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.10311110.v1
title: Physiotherapy Students’ Attitudes Toward Working With People With Dementia: A Cross-Sectional Survey

description: <i>Aims</i>: To understand personal, educational and clinical experiences and the attitudes of physiotherapy students towards people with dementia. <i>Methods</i>: Online survey questionnaire. Physiotherapy students in the last year of a two-year Masters of Physical Therapy (MPT) entry-to-practice degree program (<i>n</i> = 59) were surveyed. Descriptive statistics were used to analyze the data. <i>Results:</i> Fifty-five students participated (93%). The majority of students (<i>n</i> = 52/55, 77%) had at least one clinical placement working with people with dementia. Overall, 53% (<i>n</i> = 29/55) felt their academic training was sufficient to effectively work with people with dementia. Moreover, 82% (<i>n</i> = 45/55) reported their confidence was greatest working with people who could communicate well verbally. <i>Conclusions:</i> Disease-based knowledge was strong, yet just over half felt their academic training was sufficient to effectively work with people with dementia. The findings support the need for more training, particularly in communication strategies, to support students to effectively work with client with dementia upon graduation.
DOI: 10.6084/m9.figshare.10311056
title: Table 1_Proteins_Gradient Length.xlsx

description: List of proteins identified in 3 replicates of different Gradient Length samples (1h, 2h, 3h, and 4h) for lysosome enriched samples.
DOI: 10.6084/m9.figshare.10311056.v1
title: Table 1_Proteins_Gradient Length.xlsx

description: List of proteins identified in 3 replicates of different Gradient Length samples (1h, 2h, 3h, and 4h) for lysosome enriched samples.
DOI: 10.6084/m9.figshare.10311062
title: Table 8_Proteins_Gradient Length_DIA.xlsx

description: List of proteins detected in different LC gradient lengths (30, 60, 120, 180, 240 min) through data independent acquisition
DOI: 10.6084/m9.figshare.10311050
title: Table 4_Proteins_Digestion Methods.xlsx

description: List of proteins identified in 3 replicates of different digestion methods ( Urea, In-gel, FASP and RapiGest) for both CN (Centrigugation) and PN (Precipitation) samples for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311053
title: Table 2_Proteins_Fractionation Methods.xlsx

description: List of proteins identified in 3 replicates of different Fractionation Methods (3 Fractions, 6 Fractions and Unfractionated) for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311053.v1
title: Table 2_Proteins_Fractionation Methods.xlsx

description: List of proteins identified in 3 replicates of different Fractionation Methods (3 Fractions, 6 Fractions and Unfractionated) for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311062.v1
title: Table 8_Proteins_Gradient Length_DIA.xlsx

description: List of proteins detected in different LC gradient lengths (30, 60, 120, 180, 240 min) through data independent acquisition
DOI: 10.6084/m9.figshare.10311068.v1
title: Pecten maximus genome, gene models, annotations and related files

description: Pecten maximus genome, gene models, annotations and related files. Related to genome paper in prep by Kenny et al, with the support of the Wellcome Trust Sanger 25 genomes project<br>
DOI: 10.6084/m9.figshare.10311047
title: Table 6_Semi-tryptic Peptides_Digestion Methods.xlsx

description: List of Semi-tryptic and tryptic peptides identified in 3 replicates of different digestion methods ( Urea, In-gel, FASP and RapiGest) for both CN (Centrigugation) and PN for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311038
title: Table 5_LFQ_Digestion Methods.xlsx

description: List of proteins quantified using Label Free Quantification method from 3 replicates of different digestion methods (Urea, In-gel, FASP, and RapiGest) of both CN (Centrifugation) and PN (Precipitation) for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311044
title: Table 7_Combined_Database Search_4h Gradient Length.xlsx

description: List of proteins detected from combined database search of all 4h gradient measurements (Unfractionated, Oasis, Sep-Pak, Stage Tip, Urea, FASP, In-gel, RapiGest (PN and CN) samples)
DOI: 10.6084/m9.figshare.10311068.v2
title: Pecten maximus genome, gene models, annotations and related files

description: Pecten maximus genome, gene models, annotations and related files. Related to genome paper in prep by Kenny et al, with the support of the Wellcome Trust Sanger 25 genomes project<br>
DOI: 10.6084/m9.figshare.10311038.v1
title: Table 5_LFQ_Digestion Methods.xlsx

description: List of proteins quantified using Label Free Quantification method from 3 replicates of different digestion methods (Urea, In-gel, FASP, and RapiGest) of both CN (Centrifugation) and PN (Precipitation) for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311041
title: Table 3_Proteins_Desalting Methods.xlsx

description: List of proteins identified in 3 replicates of different Desalting methods (Oasis, Sep-Pak, and StageTip) for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311047.v1
title: Table 6_Semi-tryptic Peptides_Digestion Methods.xlsx

description: List of Semi-tryptic and tryptic peptides identified in 3 replicates of different digestion methods ( Urea, In-gel, FASP and RapiGest) for both CN (Centrigugation) and PN for lysosome enriched samples
DOI: 10.6084/m9.figshare.10311029
title: Fetal electrocardiograms, direct and abdominal with reference heart beats annotations

description: B1_Pregnancy_dataset The B1 pregnancy signal dataset consists of 10 records marked "B1_Pregnancy_X" (where X is a record number), each containing four files (duration of signals: 20 minutes, sampling frequency: 500 Hz). In the binary file "B1_abSignals_X.ecg" saved in the LabView format there are four abdominal signals after preliminary filtering, and four indirect FECG signals after suppressing the interfering MECG by means of subtraction of maternal P-QRS-T complex pattern and first derivative of the QRS complex. Additionally, all the signals were saved in the text file "B1_abSignals_X.txt". The text file "B1_Maternal_R_X.txt" contains information (expressed as a sample number) on the fiducial points that indicate the locations of maternal QRS complexes (R-waves) in abdominal signals. The file "B1_Fetal_R_X.txt" contains information on the fiducial points for fetal QRS complexes in FECG signals. The fiducial points for FECG have been verified by clinical experts and therefore each point has a reliability flag associated. When the flag equals 0, the fetal R-wave position could not be verified by an expert due to high level of interferences, the value 1 means that the R-wave position has been correctly verified. B2_Labour_dataset The labour signals dataset B2 consists of 12 records marked "B2_Labour_X", where X is a record number, each containing five data files. In the binary file "B2_abSignals_X.ecg" saved in the LabView format there are four abdominal signals after preliminary filtering, and four FECG signals after suppression of interfering MECG (signal duration: 5 minutes, sampling frequency: 500 Hz). The binary file "B2_dFECG_X.ecg" saved in the same format contains a direct FECG signal (raw and after preliminary filtering), registered simultaneously from a fetal head (signal duration: 5 minutes, sampling frequency: 1 kHz). All signals were also available in the text files marked as "B2_abSignals_X.txt" and "B2_dFECG_X.txt", respectively. The text file "B2_Maternal_R_X.txt" contains information (as a sample number) about fiducial points indicating the locations of maternal QRS complexes (R waves) in abdominal signals. The text file "B2_Fetal_R_X.txt" comprises information about fiducial points that indicate the locations of fetal QRS complexes in the direct FECG signal, verified by clinical experts.
DOI: 10.6084/m9.figshare.10311044.v1
title: Table 7_Combined_Database Search_4h Gradient Length.xlsx

description: List of proteins detected from combined database search of all 4h gradient measurements (Unfractionated, Oasis, Sep-Pak, Stage Tip, Urea, FASP, In-gel, RapiGest (PN and CN) samples)
DOI: 10.6084/m9.figshare.10310990
title: LB 25 RAW (2).zip

description: 476421
DOI: 10.6084/m9.figshare.10310993
title: LB 25 RAW (3).zip

description: 476421
DOI: 10.6084/m9.figshare.10311029.v1
title: Fetal electrocardiograms, direct and abdominal with reference heart beats annotations

description: B1_Pregnancy_dataset The B1 pregnancy signal dataset consists of 10 records marked "B1_Pregnancy_X" (where X is a record number), each containing four files (duration of signals: 20 minutes, sampling frequency: 500 Hz). In the binary file "B1_abSignals_X.ecg" saved in the LabView format there are four abdominal signals after preliminary filtering, and four indirect FECG signals after suppressing the interfering MECG by means of subtraction of maternal P-QRS-T complex pattern and first derivative of the QRS complex. Additionally, all the signals were saved in the text file "B1_abSignals_X.txt". The text file "B1_Maternal_R_X.txt" contains information (expressed as a sample number) on the fiducial points that indicate the locations of maternal QRS complexes (R-waves) in abdominal signals. The file "B1_Fetal_R_X.txt" contains information on the fiducial points for fetal QRS complexes in FECG signals. The fiducial points for FECG have been verified by clinical experts and therefore each point has a reliability flag associated. When the flag equals 0, the fetal R-wave position could not be verified by an expert due to high level of interferences, the value 1 means that the R-wave position has been correctly verified. B2_Labour_dataset The labour signals dataset B2 consists of 12 records marked "B2_Labour_X", where X is a record number, each containing five data files. In the binary file "B2_abSignals_X.ecg" saved in the LabView format there are four abdominal signals after preliminary filtering, and four FECG signals after suppression of interfering MECG (signal duration: 5 minutes, sampling frequency: 500 Hz). The binary file "B2_dFECG_X.ecg" saved in the same format contains a direct FECG signal (raw and after preliminary filtering), registered simultaneously from a fetal head (signal duration: 5 minutes, sampling frequency: 1 kHz). All signals were also available in the text files marked as "B2_abSignals_X.txt" and "B2_dFECG_X.txt", respectively. The text file "B2_Maternal_R_X.txt" contains information (as a sample number) about fiducial points indicating the locations of maternal QRS complexes (R waves) in abdominal signals. The text file "B2_Fetal_R_X.txt" comprises information about fiducial points that indicate the locations of fetal QRS complexes in the direct FECG signal, verified by clinical experts.
DOI: 10.6084/m9.figshare.10310990.v1
title: LB 25 RAW (2).zip

description: 476421
DOI: 10.6084/m9.figshare.10310993.v1
title: LB 25 RAW (3).zip

description: 476421
DOI: 10.6084/m9.figshare.10310879
title: Your Digital Presence - Shelley Stall, Keynote Talk #SciData19

description: Shelley Stall gives the first of the keynote talks at Better Science through Better Data 2019 (#SciData19) - her talk is entitled 'Your Digital Presence'. The video recording, presentation slides and live scribe illustrations are included.Shelley Stall is the Senior Director for the American Geophysical Union’s Data Leadership Program. She works with AGU’s members, their organizations, and the broader research community to improve data and digital object practices with the ultimate goal of elevating how research data is managed and valued. Better data management results in better science. Shelley’s diverse experience working as a program and project manager, software architect, database architect, performance and optimization analyst, data product provider, and data integration architect for international communities, both non-profit and commercial, provides her with a core capability to guide development of practical and sustainable data policies and practices ready for adoption and adapting by the broad research community. <br>Shelley’s recent work includes the Enabling FAIR Data project, engaging over 300 stakeholders in the Earth, space, and environmental sciences to make data open and FAIR, targeting the publishing and repository communities to change practices by no longer archiving data in the supplemental information of a paper but instead depositing the data supporting the research into a trusted repository where it can be discovered, managed, and preserved.
DOI: 10.6084/m9.figshare.10310855
title: Supplementary Material for: Endobronchial Ultrasound for the Diagnosis of Centrally Located Lung Tumors: A Systematic Review and Meta-Analysis

description: <b><i>Introduction:</i></b> Obtaining a tissue diagnosis of centrally located lung tumors in patients presenting without endobronchial abnormalities is challenging, and therefore a considerable diagnostic problem. <b><i>Objective:</i></b> The objective of this study was to evaluate the performance of linear endobronchial ultrasound guided-transbronchial-needle aspiration (EBUS-TBNA) for the diagnosis of centrally located lung tumors. <b><i>Methods:</i></b> We performed a systematic review (PROSPERO, CRD42017080968) and searched MEDLINE, Embase, BIOSIS Previews, and Web of Science till November 18, 2018 for studies that evaluated the yield and/or sensitivity of EBUS-TBNA for diagnosing centrally located lung tumors. We assessed the study quality using QUADAS-2 and performed random-effects meta-analysis. <b><i>Results:</i></b> A total of 5,657 manuscripts were identified; of these 14 were considered for the study, including 1,175 patients who underwent EBUS-TBNA for diagnosing an intrapulmonary tumor. All studies had a high risk of bias or applicability concerns, predominately regarding patient selection. The average yield of EBUS-TBNA for diagnosing centrally located lung tumors was 0.89 (95% CI 0.84–0.92) and average sensitivity for diagnosing malignant tumors was 0.91 (95% CI 0.88–0.94). Among studies reporting this information, EBUS-related complications occurred in 5.4% of patients (42/721). <b><i>Conclusion:</i></b> EBUS-TBNA has a high yield and sensitivity for diagnosing centrally located lung tumors and is safe in selected patients. Prospective studies are recommended to evaluate the routine use of this procedure for diagnosing intrapulmonary tumors.
DOI: 10.6084/m9.figshare.10310810
title: Supplementary Material for: Taller-Than-Wide Shape: A New Definition Improves the Specificity of TIRADS Systems

description: <b><i>Introduction:</i></b> A taller-than-wide (TTW) shape is a suspicious feature of thyroid nodules commonly defined as an anteroposterior/transverse diameter (AP/T) ratio &gt;1. An intraobserver variability of up to 18% in AP diameter evaluations has been described, which may lead to overreporting of this feature. To potentially improve the reliability of the TTW definition, we propose an arbitrary ratio of ≥1.2. <b><i>Objective:</i></b> The aim of this study was to estimate the impact of this definition on diagnostic performance. <b><i>Methods:</i></b> We prospectively analyzed 553 thyroid nodules referred for cytology evaluation at an academic center. Before fine-needle aspiration, two examiners jointly defined all sonographic features considered in risk stratification systems developed by the American Thyroid Association (ATA), the American Association of Clinical Endocrinologists (AACE), the American College of Radiology (ACR TIRADS), the European Thyroid Association (EU-TIRADS), and the Korean Society of Thyroid Radiology (K-TIRADS). TTW was defined according to the current definition (AP/T diameter ratio &gt;1) and an arbitrary alternative definition (AP/T ratio &gt;1.2). <b><i>Results:</i></b> The alternative definition classified fewer nodules as TTW (28, 5.1% vs. 94, 17%). The current and proposed definitions have a sensitivity of 26.2 and 11.9% (<i>p</i> = 0.03) and a specificity of 83.8 and 95.5% (<i>p</i> &lt; 0.001). Thus, as a single feature, the arbitrary definition has a lower sensitivity and a higher specificity. When applied to sonographic risk stratification systems, however, the proposed definition would increase the number of avoided biopsies (up to 58.2% for ACR TIRADS) and the specificity of all systems, without negative impact on sensitivity or diagnostic odds ratio. <b><i>Conclusions:</i></b> Re-defining TTW nodules as those with an AP/T ratio ≥1.2 improves this marker’s specificity for malignancy. Using this definition in risk stratification systems will increase their specificity, reducing the number of suggested biopsies without significantly diminishing their overall diagnostic performance.
DOI: 10.6084/m9.figshare.10310804
title: Supplementary Material for: Evaluation of the Site and Frequency of Lymph Node Metastasis with Non-Functioning Pancreatic Neuroendocrine Tumor

description: <b><i>Backgrounds:</i></b> The optimal lymph node dissection range in patients with non-functioning pancreatic neuroendocrine tumors is not yet clear. In this study, we investigated the site and frequency of lymph node metastasis and the significance of lymph node dissection in patients with non-functioning pancreatic neuroendocrine tumors. <b><i>Methods:</i></b> This retrospective study analyzed 74 patients who underwent a curative pancreatectomy for non-functioning pancreatic neuroendocrine tumors between 2000 and 2016. The site and frequency of lymph node metastasis and clinicopathological factors were evaluated. <b><i>Results:</i></b> The rate of synchronous lymph node metastasis was 17.6%, with 11.1 and 29.4% for tumors with diameters of 10–19 mm and ≥20 mm, respectively. Lymph node metastasis was not observed for tumors with a diameter &lt;10 mm. Lymph node metastasis was observed along the anterior (17a: 13.3%, 17b: 12.5%) and posterior (13a: 5.9%, 13b: 26.7%) surfaces of the pancreatic head and the superior mesenteric artery (14p: 12.5%, 14d: 7.7%) in patients with non-functioning pancreatic head neuroendocrine tumors, in the common hepatic (8a: 5.3%), splenic (10: 14.3%, 11p: 17.6%, 11d: 12.5%), and super mesenteric artery (14d: 14.3%) in patients with non-functioning pancreatic body neuroendocrine tumors, and only in the splenic artery (11p: 8.3%, 11d: 7.7%) in patients with non-functioning pancreatic tail neuroendocrine tumors. Grade 2 (HR = 6.21) and synchronous lymph node metastasis (HR = 10.4) were significant risk factors for disease-free survival. The 5-year disease-free survival was 95.7, 72.6, and 0% in patients with 0, 1, and 2 prognostic factors, respectively. <b><i>Conclusions:</i></b> This study clarified the site and frequency of lymph node metastasis and the optimal range of lymph node dissection in patients with non-functioning pancreatic neuroendocrine tumors.
DOI: 10.6084/m9.figshare.10310810.v1
title: Supplementary Material for: Taller-Than-Wide Shape: A New Definition Improves the Specificity of TIRADS Systems

description: <b><i>Introduction:</i></b> A taller-than-wide (TTW) shape is a suspicious feature of thyroid nodules commonly defined as an anteroposterior/transverse diameter (AP/T) ratio &gt;1. An intraobserver variability of up to 18% in AP diameter evaluations has been described, which may lead to overreporting of this feature. To potentially improve the reliability of the TTW definition, we propose an arbitrary ratio of ≥1.2. <b><i>Objective:</i></b> The aim of this study was to estimate the impact of this definition on diagnostic performance. <b><i>Methods:</i></b> We prospectively analyzed 553 thyroid nodules referred for cytology evaluation at an academic center. Before fine-needle aspiration, two examiners jointly defined all sonographic features considered in risk stratification systems developed by the American Thyroid Association (ATA), the American Association of Clinical Endocrinologists (AACE), the American College of Radiology (ACR TIRADS), the European Thyroid Association (EU-TIRADS), and the Korean Society of Thyroid Radiology (K-TIRADS). TTW was defined according to the current definition (AP/T diameter ratio &gt;1) and an arbitrary alternative definition (AP/T ratio &gt;1.2). <b><i>Results:</i></b> The alternative definition classified fewer nodules as TTW (28, 5.1% vs. 94, 17%). The current and proposed definitions have a sensitivity of 26.2 and 11.9% (<i>p</i> = 0.03) and a specificity of 83.8 and 95.5% (<i>p</i> &lt; 0.001). Thus, as a single feature, the arbitrary definition has a lower sensitivity and a higher specificity. When applied to sonographic risk stratification systems, however, the proposed definition would increase the number of avoided biopsies (up to 58.2% for ACR TIRADS) and the specificity of all systems, without negative impact on sensitivity or diagnostic odds ratio. <b><i>Conclusions:</i></b> Re-defining TTW nodules as those with an AP/T ratio ≥1.2 improves this marker’s specificity for malignancy. Using this definition in risk stratification systems will increase their specificity, reducing the number of suggested biopsies without significantly diminishing their overall diagnostic performance.
DOI: 10.6084/m9.figshare.10310786
title: non-coding RNA annotations of Folsomia candida

description: non-coding RNA annotations of Folsomia candida
DOI: 10.6084/m9.figshare.10310804.v1
title: Supplementary Material for: Evaluation of the Site and Frequency of Lymph Node Metastasis with Non-Functioning Pancreatic Neuroendocrine Tumor

description: <b><i>Backgrounds:</i></b> The optimal lymph node dissection range in patients with non-functioning pancreatic neuroendocrine tumors is not yet clear. In this study, we investigated the site and frequency of lymph node metastasis and the significance of lymph node dissection in patients with non-functioning pancreatic neuroendocrine tumors. <b><i>Methods:</i></b> This retrospective study analyzed 74 patients who underwent a curative pancreatectomy for non-functioning pancreatic neuroendocrine tumors between 2000 and 2016. The site and frequency of lymph node metastasis and clinicopathological factors were evaluated. <b><i>Results:</i></b> The rate of synchronous lymph node metastasis was 17.6%, with 11.1 and 29.4% for tumors with diameters of 10–19 mm and ≥20 mm, respectively. Lymph node metastasis was not observed for tumors with a diameter &lt;10 mm. Lymph node metastasis was observed along the anterior (17a: 13.3%, 17b: 12.5%) and posterior (13a: 5.9%, 13b: 26.7%) surfaces of the pancreatic head and the superior mesenteric artery (14p: 12.5%, 14d: 7.7%) in patients with non-functioning pancreatic head neuroendocrine tumors, in the common hepatic (8a: 5.3%), splenic (10: 14.3%, 11p: 17.6%, 11d: 12.5%), and super mesenteric artery (14d: 14.3%) in patients with non-functioning pancreatic body neuroendocrine tumors, and only in the splenic artery (11p: 8.3%, 11d: 7.7%) in patients with non-functioning pancreatic tail neuroendocrine tumors. Grade 2 (HR = 6.21) and synchronous lymph node metastasis (HR = 10.4) were significant risk factors for disease-free survival. The 5-year disease-free survival was 95.7, 72.6, and 0% in patients with 0, 1, and 2 prognostic factors, respectively. <b><i>Conclusions:</i></b> This study clarified the site and frequency of lymph node metastasis and the optimal range of lymph node dissection in patients with non-functioning pancreatic neuroendocrine tumors.
DOI: 10.6084/m9.figshare.10310777
title: predicted CDS sequences of Folsomia candida

description: predicted CDS sequences of Folsomia candida
DOI: 10.6084/m9.figshare.10310771
title: predicted protein sequences of Folsomia cadida

description: predicted protein sequences of Folsomia cadida