cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7908575
title: Supplementary Material for: CytoProcessor<sup>TM</sup>: A New Cervical Cancer Screening System for Remote Diagnosis

description: <b><i>Background:</i></b> Current automated cervical cytology screening systems still heavily depend on manipulation of glass slides. We developed a new system called CytoProcessor<sup>TM</sup> (DATEXIM, Caen, France), which increases sensitivity and takes advantage of virtual slide technology to simplify the workflow and save worker time. We used an approach based on artificial intelligence to identify abnormal cells among the tens of thousands in a cervical preparation. <b><i>Objectives:</i></b> We set out to compare the diagnostic sensitivity and specificity of CytoProcessor<sup>TM</sup> and the ThinPrep Imaging System (HOLOGIC, Marlborough, MA, USA). <b><i>Methods:</i></b> A representative population of 1,352 cases was selected from the routine workflow in a private laboratory. Diagnoses were established using the ThinPrep Imaging System and CytoProcessor<sup>TM</sup>. All discordances were resolved by a consensus committee. <b><i>Results:</i></b> Compared to the ThinPrep Imaging System, CytoProcessor<sup>TM</sup> significantly improves diagnostic sensitivity without compromising specificity. The sensitivity of detection of “atypical squamous cells of undetermined significance (ASC-US) and more severe” and “low-grade squamous intraepithelial lesion and more severe” was significantly higher using CytoProcessor<sup>TM</sup>. Considering that cases with a truth diagnosis of ASC-US or more severe required clinical follow-up, 1.5% of the cases (21/1,360) would have been missed if the CytoProcessor<sup>TM</sup> diagnosis had been used for clinical decision-making. In contrast, 4% of the cases (54/1,360) were missed when the ThinPrep Imaging System diagnosis was used for clinical decision-making. There were 2.6 times fewer false negatives using CytoProcessor<sup>TM</sup>. The CytoProcessor<sup>TM</sup> workflow was 1.5 times faster in terms of worker time. <b><i>Conclusions:</i></b> CytoProcessor<sup>TM</sup> is the first of a new generation of automated screening systems, demonstrating improved sensitivity and yielding significant gains in processing time. In addition, the fully digital nature of slide presentation in CytoProcessor<sup>TM</sup> allows the remote diagnosis of Papanicolaou tests for the first time.
DOI: 10.6084/m9.figshare.7908599.v1
title: gVCF_HG01921

description: 1000 Genomes gVCF mapped to hs37d5 for HG01921. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908575.v1
title: Supplementary Material for: CytoProcessor<sup>TM</sup>: A New Cervical Cancer Screening System for Remote Diagnosis

description: <b><i>Background:</i></b> Current automated cervical cytology screening systems still heavily depend on manipulation of glass slides. We developed a new system called CytoProcessor<sup>TM</sup> (DATEXIM, Caen, France), which increases sensitivity and takes advantage of virtual slide technology to simplify the workflow and save worker time. We used an approach based on artificial intelligence to identify abnormal cells among the tens of thousands in a cervical preparation. <b><i>Objectives:</i></b> We set out to compare the diagnostic sensitivity and specificity of CytoProcessor<sup>TM</sup> and the ThinPrep Imaging System (HOLOGIC, Marlborough, MA, USA). <b><i>Methods:</i></b> A representative population of 1,352 cases was selected from the routine workflow in a private laboratory. Diagnoses were established using the ThinPrep Imaging System and CytoProcessor<sup>TM</sup>. All discordances were resolved by a consensus committee. <b><i>Results:</i></b> Compared to the ThinPrep Imaging System, CytoProcessor<sup>TM</sup> significantly improves diagnostic sensitivity without compromising specificity. The sensitivity of detection of “atypical squamous cells of undetermined significance (ASC-US) and more severe” and “low-grade squamous intraepithelial lesion and more severe” was significantly higher using CytoProcessor<sup>TM</sup>. Considering that cases with a truth diagnosis of ASC-US or more severe required clinical follow-up, 1.5% of the cases (21/1,360) would have been missed if the CytoProcessor<sup>TM</sup> diagnosis had been used for clinical decision-making. In contrast, 4% of the cases (54/1,360) were missed when the ThinPrep Imaging System diagnosis was used for clinical decision-making. There were 2.6 times fewer false negatives using CytoProcessor<sup>TM</sup>. The CytoProcessor<sup>TM</sup> workflow was 1.5 times faster in terms of worker time. <b><i>Conclusions:</i></b> CytoProcessor<sup>TM</sup> is the first of a new generation of automated screening systems, demonstrating improved sensitivity and yielding significant gains in processing time. In addition, the fully digital nature of slide presentation in CytoProcessor<sup>TM</sup> allows the remote diagnosis of Papanicolaou tests for the first time.
DOI: 10.6084/m9.figshare.7908584.v1
title: gVCF_HG03600

description: 1000 Genomes gVCF mapped to hs37d5 for HG03600. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908563
title: gVCF_HG03598

description: 1000 Genomes gVCF mapped to hs37d5 for HG03598. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908569
title: gVCF_HG01920

description: 1000 Genomes gVCF mapped to hs37d5 for HG01920. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908578.v1
title: gVCF_NA19011

description: 1000 Genomes gVCF mapped to hs37d5 for NA19011. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908551
title: gVCF_HG01918

description: 1000 Genomes gVCF mapped to hs37d5 for HG01918. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908527
title: gVCF_NA19010

description: 1000 Genomes gVCF mapped to hs37d5 for NA19010. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908551.v1
title: gVCF_HG01918

description: 1000 Genomes gVCF mapped to hs37d5 for HG01918. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908563.v1
title: gVCF_HG03598

description: 1000 Genomes gVCF mapped to hs37d5 for HG03598. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908518
title: gVCF_HG01917

description: 1000 Genomes gVCF mapped to hs37d5 for HG01917. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908524
title: gVCF_HG03595

description: 1000 Genomes gVCF mapped to hs37d5 for HG03595. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908527.v1
title: gVCF_NA19010

description: 1000 Genomes gVCF mapped to hs37d5 for NA19010. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908569.v1
title: gVCF_HG01920

description: 1000 Genomes gVCF mapped to hs37d5 for HG01920. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908506
title: Supplementary Material for: Hematuria Alone or in Combination with Proteinuria Is a Harbinger of Poor Prognosis in Patients with Non-Hodgkin Lymphoma

description: <b><i>Background:</i></b> Screening for hematuria is essential during health checkups in the general population. However, urine examinations in patients with cancer tend to be overlooked. This study attempted to demonstrate the novel utility of urinalysis in the assessment of the prognosis of non-Hodgkin lymphoma (NHL). <b><i>Methods:</i></b> A longitudinal, retrospective cohort study was conducted to examine the association between hematuria and mortality in 294 patients with NHL. Urinalysis was performed using a dipstick test. A multivariate, logistic regression model was constructed to evaluate factors associated with the presence of hematuria. Statistical association between hematuria and the time to all-cause mortality was analyzed using Kaplan-Meier analysis, followed by multivariate proportional hazards regression analysis adjusted for covariates that might be related to mortality. <b><i>Results:</i></b> The prevalence of hematuria alone and in combination with proteinuria was 11.6 and 5.1%, respectively. C-reactive protein was a significant factor associated with the presence of hematuria (OR [95% CI] 1.17 [1.03–1.34], <i>p</i> = 0.0194). The cumulative mortality was significantly higher in patients with hematuria alone (51.1%), proteinuria alone (47.1%), and both (66.7%), than in those with neither (24.3%). Moreover, the presence of hematuria alone was significantly associated with all-cause mortality (hazard ratio [95% CI] 1.78 [1.10–3.50], <i>p</i> = 0.0455), and patients with concomitant proteinuria were at the highest risk (4.01 [1.71–8.33], <i>p</i> = 0.0001). <b><i>Conclusions:</i></b> In patients with hematuric NHL, systemic inflammation is likely to develop to such a great extent that kidney damage occurs. Therefore, the presence of hematuria, alone or especially in combination with proteinuria, predicts a poor prognosis of NHL.
DOI: 10.6084/m9.figshare.7908524.v1
title: gVCF_HG03595

description: 1000 Genomes gVCF mapped to hs37d5 for HG03595. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908494
title: gVCF_HG01915

description: 1000 Genomes gVCF mapped to hs37d5 for HG01915. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908506.v1
title: Supplementary Material for: Hematuria Alone or in Combination with Proteinuria Is a Harbinger of Poor Prognosis in Patients with Non-Hodgkin Lymphoma

description: <b><i>Background:</i></b> Screening for hematuria is essential during health checkups in the general population. However, urine examinations in patients with cancer tend to be overlooked. This study attempted to demonstrate the novel utility of urinalysis in the assessment of the prognosis of non-Hodgkin lymphoma (NHL). <b><i>Methods:</i></b> A longitudinal, retrospective cohort study was conducted to examine the association between hematuria and mortality in 294 patients with NHL. Urinalysis was performed using a dipstick test. A multivariate, logistic regression model was constructed to evaluate factors associated with the presence of hematuria. Statistical association between hematuria and the time to all-cause mortality was analyzed using Kaplan-Meier analysis, followed by multivariate proportional hazards regression analysis adjusted for covariates that might be related to mortality. <b><i>Results:</i></b> The prevalence of hematuria alone and in combination with proteinuria was 11.6 and 5.1%, respectively. C-reactive protein was a significant factor associated with the presence of hematuria (OR [95% CI] 1.17 [1.03–1.34], <i>p</i> = 0.0194). The cumulative mortality was significantly higher in patients with hematuria alone (51.1%), proteinuria alone (47.1%), and both (66.7%), than in those with neither (24.3%). Moreover, the presence of hematuria alone was significantly associated with all-cause mortality (hazard ratio [95% CI] 1.78 [1.10–3.50], <i>p</i> = 0.0455), and patients with concomitant proteinuria were at the highest risk (4.01 [1.71–8.33], <i>p</i> = 0.0001). <b><i>Conclusions:</i></b> In patients with hematuric NHL, systemic inflammation is likely to develop to such a great extent that kidney damage occurs. Therefore, the presence of hematuria, alone or especially in combination with proteinuria, predicts a poor prognosis of NHL.
DOI: 10.6084/m9.figshare.7908491
title: Ribosomal protein RPL22/eL22 regulates the cell cycle by acting as an inhibitor of the CDK4-cyclin D complex

description: Senescence is a tumor suppressor program characterized by a stable growth arrest while maintaining cell viability. Senescence-associated ribogenesis defects (SARD) have been shown to regulate senescence through the ability of the ribosomal protein S14 (RPS14 or uS11) to bind and inhibit the cyclin-dependent kinase 4 (CDK4). Here we report another ribosomal protein that binds and inhibits CDK4 in senescent cells: L22 (RPL22 or eL22). Enforcing the expression of RPL22/eL22 is sufficient to induce an RB and p53-dependent cellular senescent phenotype in human fibroblasts. Mechanistically, RPL22/eL22 can interact with and inhibit CDK4-Cyclin D1 to decrease RB phosphorylation both <i>in vitro</i> and in cells. Briefly, we show that ribosome-free RPL22/eL22 causes a cell cycle arrest which could be relevant during situations of nucleolar stress such as cellular senescence or the response to cancer chemotherapy.
DOI: 10.6084/m9.figshare.7908488
title: Data for "Cortical patterning of abnormal morphometric similarity in psychosis is associated with brain expression of schizophrenia-related genes"

description: This dataset contains the data which accompanies the paper "Cortical patterning of abnormal morphometric similarity in psychosis is associated with brain expression of schizophrenia-related genes", Morgan et al, 2019.<br>The data for the Maastricht GROUP, Dublin and Cobre datasets is in 3 separate folders. Each folder contains:<br><br>1. 308 regional values of cortical thickness, grey matter volume, surface area, mean curvature, Gaussian curvature, mean diffusivity and fractional anisotropy, for each of the subjects (i.e. 7 tables with dimensions 308 cortical regions x N subjects)<br>2. A vector of the subjects' ages<br>3. A vector of the subjects' genders (1= male, 2=female)<br>4. A vector of the subjects' group membership (1=control, 2=patient)<br><br>A fourth folder contains miscellaneous required files, namely:<br><br>1. Anatomical names and x, y, z co-ordinates in MNI space for each of the 308 cortical regions<br>2. Yeo network and von Economo classes for the 308 cortical regions<br>Please note that the 308 cortical region parcellation was created by Dr Rafael Romero-Garcia- see Romero-Garcia et al, NeuroImage 2012 (https://doi.org/10.1016/j.neuroimage.2011.10.086). The Yeo network mapping was performed by Jakob Seidlitz as part of the paper Váša et al, Cereb Cortex. 2018 (https://doi.org/10.1093/cercor/bhx249). The von Economo class mapping was performed by Dr Konrad Wagstyl and Dr Kirstie Whitaker as part of the paper Whitaker and Vértes, PNAS 2016 (https://doi.org/10.1073/pnas.1601745113). Please cite those papers if you use the mappings in your own work.<br><br>Code to calculate morphometric similarity matrices and perform the analyses reported in the paper is available at: https://github.com/SarahMorgan/Morphometric_Similarity_SZ.<b></b><i></i><sub></sub><sup></sup><br>
DOI: 10.6084/m9.figshare.7908491.v1
title: Ribosomal protein RPL22/eL22 regulates the cell cycle by acting as an inhibitor of the CDK4-cyclin D complex

description: Senescence is a tumor suppressor program characterized by a stable growth arrest while maintaining cell viability. Senescence-associated ribogenesis defects (SARD) have been shown to regulate senescence through the ability of the ribosomal protein S14 (RPS14 or uS11) to bind and inhibit the cyclin-dependent kinase 4 (CDK4). Here we report another ribosomal protein that binds and inhibits CDK4 in senescent cells: L22 (RPL22 or eL22). Enforcing the expression of RPL22/eL22 is sufficient to induce an RB and p53-dependent cellular senescent phenotype in human fibroblasts. Mechanistically, RPL22/eL22 can interact with and inhibit CDK4-Cyclin D1 to decrease RB phosphorylation both <i>in vitro</i> and in cells. Briefly, we show that ribosome-free RPL22/eL22 causes a cell cycle arrest which could be relevant during situations of nucleolar stress such as cellular senescence or the response to cancer chemotherapy.
DOI: 10.6084/m9.figshare.7908494.v1
title: gVCF_HG01915

description: 1000 Genomes gVCF mapped to hs37d5 for HG01915. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908473
title: gVCF_NA19009

description: 1000 Genomes gVCF mapped to hs37d5 for NA19009. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908464
title: gVCF_HG03594

description: 1000 Genomes gVCF mapped to hs37d5 for HG03594. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908431
title: gVCF_HG01914

description: 1000 Genomes gVCF mapped to hs37d5 for HG01914. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908464.v1
title: gVCF_HG03594

description: 1000 Genomes gVCF mapped to hs37d5 for HG03594. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908383
title: gVCF_HG03593

description: 1000 Genomes gVCF mapped to hs37d5 for HG03593. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908407
title: isoform_exp in preinH, preinP and preinO

description: isoform_exp in preinH, preinP and preinO
DOI: 10.6084/m9.figshare.7908365
title: gVCF_NA19007

description: 1000 Genomes gVCF mapped to hs37d5 for NA19007. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908374
title: gVCF_HG01912

description: 1000 Genomes gVCF mapped to hs37d5 for HG01912. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908431.v1
title: gVCF_HG01914

description: 1000 Genomes gVCF mapped to hs37d5 for HG01914. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908374.v1
title: gVCF_HG01912

description: 1000 Genomes gVCF mapped to hs37d5 for HG01912. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908383.v1
title: gVCF_HG03593

description: 1000 Genomes gVCF mapped to hs37d5 for HG03593. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908407.v1
title: isoform_exp in preinH, preinP and preinO

description: isoform_exp in preinH, preinP and preinO
DOI: 10.6084/m9.figshare.7908323
title: gVCF_HG01896

description: 1000 Genomes gVCF mapped to hs37d5 for HG01896. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908323.v1
title: gVCF_HG01896

description: 1000 Genomes gVCF mapped to hs37d5 for HG01896. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908311
title: gVCF_NA19006

description: 1000 Genomes gVCF mapped to hs37d5 for NA19006. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908320
title: gVCF_HG03589

description: 1000 Genomes gVCF mapped to hs37d5 for HG03589. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908320.v1
title: gVCF_HG03589

description: 1000 Genomes gVCF mapped to hs37d5 for HG03589. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908311.v1
title: gVCF_NA19006

description: 1000 Genomes gVCF mapped to hs37d5 for NA19006. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908281
title: Target genes of novel lncRNAs in pituitary

description: Target genes of novel lncRNAs in pituitary
DOI: 10.25376/hra.7908272
title: Affective tone of mothers' statements to restrict their children's eating_2016.pdf

description: Maternal restrictive feeding behaviors have been associated with child weight status. The affective toneof mothers' statements intended to restrict their children's eating has not been examined. The objectivesof this study were to describe the affective tone of mothers' restrictive feeding behaviors (positive ornegative), and to test the association of child and mother characteristics with rates of Restriction withPositive Affect, Restriction with Negative Affect and Total Restriction. A total of 237 low-income childmotherdyads (mean child age 5.9 years) participated in a videotaped standardized laboratory eatingprotocol, during which mothers and children were both presented with large servings of cupcakes. Acoding scheme was developed to count each restrictive statement with a positive affective tone and eachrestrictive statement with a negative affective tone. To establish reliability, 20% of videos were doublecoded.Demographics and anthropometrics were obtained. Poisson regression models were used totest the association between characteristics of the child and mother with counts of Restriction withPositive Affect, Restriction with Negative Affect, and Total Restriction. Higher rates of Restriction withPositive Affect and Total Restriction were predicted by child obese weight status, and mother non-Hispanic white race/ethnicity. Higher rates of Restriction with Negative Affect were predicted by olderchild age, child obese weight status, mother non-Hispanic white race/ethnicity, and lower mother educationlevel. In conclusion, in this study mothers of obese (vs. non-obese) children had higher rates ofrestriction in general, but particularly higher rates of Restriction with Negative Affect. Rather than beingtold not to restrict, mothers may need guidance on how to sensitively restrict their child's intake. Futurestudies should consider the contributions of maternal affect to children's responses to maternalrestriction.
DOI: 10.25376/hra.7908272.v1
title: Affective tone of mothers' statements to restrict their children's eating_2016.pdf

description: Maternal restrictive feeding behaviors have been associated with child weight status. The affective toneof mothers' statements intended to restrict their children's eating has not been examined. The objectivesof this study were to describe the affective tone of mothers' restrictive feeding behaviors (positive ornegative), and to test the association of child and mother characteristics with rates of Restriction withPositive Affect, Restriction with Negative Affect and Total Restriction. A total of 237 low-income childmotherdyads (mean child age 5.9 years) participated in a videotaped standardized laboratory eatingprotocol, during which mothers and children were both presented with large servings of cupcakes. Acoding scheme was developed to count each restrictive statement with a positive affective tone and eachrestrictive statement with a negative affective tone. To establish reliability, 20% of videos were doublecoded.Demographics and anthropometrics were obtained. Poisson regression models were used totest the association between characteristics of the child and mother with counts of Restriction withPositive Affect, Restriction with Negative Affect, and Total Restriction. Higher rates of Restriction withPositive Affect and Total Restriction were predicted by child obese weight status, and mother non-Hispanic white race/ethnicity. Higher rates of Restriction with Negative Affect were predicted by olderchild age, child obese weight status, mother non-Hispanic white race/ethnicity, and lower mother educationlevel. In conclusion, in this study mothers of obese (vs. non-obese) children had higher rates ofrestriction in general, but particularly higher rates of Restriction with Negative Affect. Rather than beingtold not to restrict, mothers may need guidance on how to sensitively restrict their child's intake. Futurestudies should consider the contributions of maternal affect to children's responses to maternalrestriction.
DOI: 10.6084/m9.figshare.7908257
title: gVCF_HG01894

description: 1000 Genomes gVCF mapped to hs37d5 for HG01894. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908281.v1
title: Target genes of novel lncRNAs in pituitary

description: Target genes of novel lncRNAs in pituitary
DOI: 10.6084/m9.figshare.7908254
title: gVCF_HG03585

description: 1000 Genomes gVCF mapped to hs37d5 for HG03585. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7908254.v1
title: gVCF_HG03585

description: 1000 Genomes gVCF mapped to hs37d5 for HG03585. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307