cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7979996
title: Dataset for: Breed does not affect the association between murmur intensity and pulmonic or subaortic stenosis severity

description: Objectives: To determine whether breed affects the ability of murmur intensity to predict the severity of the stenosis in dogs with pulmonic stenosis or subaortic stenosis. Methods: Retrospective multi-investigator study of dogs with pulmonic stenosis or subaortic stenosis. Murmur intensity, assessed by a 4-level classification scheme, was compared to echocardiographically-determined pressure gradient across the affected valve. Breeds represented by at least 10 dogs at any murmur intensity were compared to determine the effect, if any, of breed. Results: 1088 dogs (520 with pulmonic stenosis, 568 with subaortic stenosis; representing 106 breeds and the mixed breed group) were included; 208 dogs had soft, 210 had moderate, 283 had loud and 387 had palpable murmurs. Fifteen breeds were represented by at least 10 dogs: 5 breeds with at least 10 dogs had soft murmurs (132 dogs), 9 breeds had moderate murmurs (149 dogs), 10 breeds had loud murmurs (188 dogs), 11 breeds had palpable murmurs (286 dogs). No breeds differed in stenosis severity from any other breeds within any murmur grade. Post-hoc power calculations suggested that we would have been able to detect at least a moderate or large effect size, had one existed. Several dogs with soft murmurs had more-than-mild disease severity. Clinical Significance: Despite anecdotally perceived differences in auscultability of various dog breeds, which have been proposed to potentially affect the interpretation of stenosis severity, we found no obvious breed effect in ability to predict severity of stenosis.
DOI: 10.6084/m9.figshare.7979996.v1
title: Dataset for: Breed does not affect the association between murmur intensity and pulmonic or subaortic stenosis severity

description: Objectives: To determine whether breed affects the ability of murmur intensity to predict the severity of the stenosis in dogs with pulmonic stenosis or subaortic stenosis. Methods: Retrospective multi-investigator study of dogs with pulmonic stenosis or subaortic stenosis. Murmur intensity, assessed by a 4-level classification scheme, was compared to echocardiographically-determined pressure gradient across the affected valve. Breeds represented by at least 10 dogs at any murmur intensity were compared to determine the effect, if any, of breed. Results: 1088 dogs (520 with pulmonic stenosis, 568 with subaortic stenosis; representing 106 breeds and the mixed breed group) were included; 208 dogs had soft, 210 had moderate, 283 had loud and 387 had palpable murmurs. Fifteen breeds were represented by at least 10 dogs: 5 breeds with at least 10 dogs had soft murmurs (132 dogs), 9 breeds had moderate murmurs (149 dogs), 10 breeds had loud murmurs (188 dogs), 11 breeds had palpable murmurs (286 dogs). No breeds differed in stenosis severity from any other breeds within any murmur grade. Post-hoc power calculations suggested that we would have been able to detect at least a moderate or large effect size, had one existed. Several dogs with soft murmurs had more-than-mild disease severity. Clinical Significance: Despite anecdotally perceived differences in auscultability of various dog breeds, which have been proposed to potentially affect the interpretation of stenosis severity, we found no obvious breed effect in ability to predict severity of stenosis.
DOI: 10.17608/k6.auckland.7979942.v2
title: Supplemental information for Sander et al., Transcriptional profiling of the zebrafish proximal tubule

description: The hepatocyte nuclear factor 1 beta (Hnf1b) transcription factor is a key regulator of kidney tubule formation and is associated with a syndrome of renal cysts and early onset diabetes. To further our understanding of Hnf1b in the developing zebrafish kidney, we have performed RNA-Seq of proximal tubules from hnf1b-deficient larvae. This analysis revealed an enrichment of gene transcripts encoding transporters of the solute carrier (SLC) superfamily, including multiple members of the slc2 and slc5 glucose transporters. An investigation of the expression of slc2a1a, slc2a2, slc5a2, as well as a poorly studied glucose/mannose transporter encoded by slc5a9, revealed that these genes undergo dynamic spatiotemporal changes during tubule formation and maturation. A comparative analysis of zebrafish SLC genes with those expressed in mouse proximal tubules showed a substantial overlap at the level of gene families, indicating a high degree of functional conservation between zebrafish and mammalian proximal tubules. Taken together, our findings are consistent with a role for Hnf1b as a critical determinant of proximal tubule transport function by acting upstream of a large number of SLC genes and validate the zebrafish as a physiologically relevant model of the mammalian proximal tubule.<br><br>
DOI: 10.17608/k6.auckland.7979942.v1
title: Supplemental information for Sander et al., Transcriptional profiling of the zebrafish proximal tubule

description: The hepatocyte nuclear factor 1 beta (Hnf1b) transcription factor is a key regulator of kidney tubule formation and is associated with a syndrome of renal cysts and early onset diabetes. To further our understanding of Hnf1b in the developing zebrafish kidney, we have performed RNA-Seq of proximal tubules from hnf1b-deficient larvae. This analysis revealed an enrichment of gene transcripts encoding transporters of the solute carrier (SLC) superfamily, including multiple members of the slc2 and slc5 glucose transporters. An investigation of the expression of slc2a1a, slc2a2, slc5a2, as well as a poorly studied glucose/mannose transporter encoded by slc5a9, revealed that these genes undergo dynamic spatiotemporal changes during tubule formation and maturation. A comparative analysis of zebrafish SLC genes with those expressed in mouse proximal tubules showed a substantial overlap at the level of gene families, indicating a high degree of functional conservation between zebrafish and mammalian proximal tubules. Taken together, our findings are consistent with a role for Hnf1b as a critical determinant of proximal tubule transport function by acting upstream of a large number of SLC genes and validate the zebrafish as a physiologically relevant model of the mammalian proximal tubule.<br><br>
DOI: 10.6084/m9.figshare.7977497
title: Geomorphology&SpeciesInteractions_Crotty&Angelini

description: <i>All data associated with manuscript: Geomorphology and species interactions hierarchically control facilitation cascade spatial self-organization and strength</i>
DOI: 10.6084/m9.figshare.7977497.v1
title: Geomorphology&SpeciesInteractions_Crotty&Angelini

description: <i>All data associated with manuscript: Geomorphology and species interactions hierarchically control facilitation cascade spatial self-organization and strength</i>
DOI: 10.6084/m9.figshare.7977452
title: s-Figure3.tif

description: Figure S3. Case Five Illustration. (A-F)Preoperative CT scan showed left middle skull base tumor with peritumoral bone destruction. The tumor was hypersignal in T1 and T2 images, isosignal in DWI images and no enhancement after contrast. (G-I)HE staining showed hyperplasia of collagen tissues, formation of inflammatory granuloma, which accompanyed with many necrotic tissues. (J-L)Postoprative 7-months MRI images showed lesion decreased significantly.
DOI: 10.6084/m9.figshare.7977407
title: s-Figure2.tif

description: Figure S2. Case Four Illustration. (A-D)Preoperative images showed osteolytic destruction of left temporal bone and skull base on CT scan, and the tumor was in long T1 signal and obvious enhanced after contrast on MRI. (E) Postoperative CT images on the day of the surgery showed tumor subtotal resection. (F) PET-CT of 3 months after operation showd abnormal FDG uptake in left temporal part. (G-L) HE staining showed mononuclear stromal cells, which were positive with KP1(CD68) and SMA, but negtive with EMA and S100. Ki-67 staining indicated proliferation rate was about 5% approximately. (M-O)Postoprative 3-years MRI images demonstrated no development of tumor after radiotherapy.
DOI: 10.6084/m9.figshare.7977377
title: Fiure3.tif

description: Figure 3. Case Two Illustration. (A-C)T2 flair images showed hyperintensity lesion in right middle cranial fossa. (D-F)Intraoperative images showed the second (V2) and third (V3) branch of trigeminal nerve adhered with tumor capsule, brown-yellowish tumor was exposed after tumor capsule opened. (G-I)HE staining showd epidermal cyst accompanyed with granulomatous reaction and cholesterol crystal formation, which had positive reaction with CK in IHC staining. (J-L) T2 flair images demonstrated no tumor residual and recurrence one year after operation.
DOI: 10.6084/m9.figshare.7977383
title: s-Figure1.tif

description: Figure S1. Case Three Illustration. (A-C)Preoperative images showed a leision in left middle and posterior cranial fossa was in low density on CT scan and hypersignal on T2 and DWI images. (D-F)Intraoperative images showed pearly white-like-tumor was were capsulized. (H-G)HE staining demonstrated cuticulated epithelium. IHC staining indicated CK(+) and Ki-67(-). (K-M)CT, T2 and DWI images demonstrated no tumor residual and recurrence one year after operation.
DOI: 10.6084/m9.figshare.7977314
title: Figure1.tif

description: Figure 1. (A) Head position and incision. (B) Bone widow in basal temporal area. (C) Operation visual field.
DOI: 10.6084/m9.figshare.7977308
title: Data from: Phylogeny of Paepalanthus Mart. (Eriocaulaceae), a diverse Neotropical monocot lineage

description: These are supplementary files to the manuscript "Phylogeny of Paepalanthus Mart. (Eriocaulaceae), a diverse Neotropical monocot lineage", submitted for publication in the Botanical Journal of the Linnean Society.
DOI: 10.6084/m9.figshare.7977320
title: Figure2.tif

description: Figure 2. Case One Illustration. (A)CT images showed enlargement of right oval foramen. (B-C)MRI images before gama knife therapy showed hypointensity T1 lesion was in right middle cranial fossa and enhanced heterogeneously after contrast. (D-F)MRI images after gama knife therapy demonstrated no obvious tumor decrease. (G-I)Intraoperative images showed enlarged oval foramen and grayish and yellowish tumor. (J-L) HE staining showed spindle shaped cells and stellate cells. IHC studies showed strong positivity for Vimintin and S-100.
DOI: 10.6084/m9.figshare.7977308.v1
title: Data from: Phylogeny of Paepalanthus Mart. (Eriocaulaceae), a diverse Neotropical monocot lineage

description: These are supplementary files to the manuscript "Phylogeny of Paepalanthus Mart. (Eriocaulaceae), a diverse Neotropical monocot lineage", submitted for publication in the Botanical Journal of the Linnean Society.
DOI: 10.6084/m9.figshare.7977278

description: leukocyte recognition, small object detect
DOI: 10.6084/m9.figshare.7977245
title: Bacteria in Paper - Hol Whitesides Dekker

description: Data repository for paper: <br> Title: Bacteria in Paper, a versatile platform to study bacterial ecology Author(s): Hol, Felix; Whitesides, George; Dekker, Cees Ecology Letters 2019
DOI: 10.6084/m9.figshare.7977221
title: Supplementary Material for: Conjunctival Melanoma in Childhood and Adolescence: A Systematic Review

description: <b><i>Background:</i></b> Conjunctival melanoma is rare in adults and rarer in children. We systematically reviewed the presentation, diagnostic and management strategies as well as outcomes for conjunctival melanoma in children and adolescents. <b><i>Methods:</i></b> The following databases were searched: Medline, Embase, Web of Science and Scopus for cases of conjunctival melanoma occurring in children and adolescents &lt; 18 years of age. <b><i>Results:</i></b> Seventeen studies with 32 patients (18 males) were identified. The median age at presentation was 11 years (range 4–18 years). Most patients were white. Most patients presented with a conjunctival mass or naevus with a recent history of growth or change. Excision biopsy provided diagnosis and management for all cases. Adjuvant chemotherapy and radiotherapy were also used. One patient had metastatic disease at diagnosis and 3 developed metastatic disease (range 1–10 months). Two patients died from disease and one was alive with metastatic disease. Two patients had disease recurrence. Outcomes were observed to be better where diagnosis was made earlier and “no-touch” excision biopsy was performed in an appropriate specialist setting. <b><i>Conclusions:</i></b> Conjunctival melanoma occurs rarely in children and adolescents. Surgery is the mainstay of management. The prognosis is guarded in metastatic disease due to the small sample size and limited follow-up.
DOI: 10.6084/m9.figshare.7977221.v1
title: Supplementary Material for: Conjunctival Melanoma in Childhood and Adolescence: A Systematic Review

description: <b><i>Background:</i></b> Conjunctival melanoma is rare in adults and rarer in children. We systematically reviewed the presentation, diagnostic and management strategies as well as outcomes for conjunctival melanoma in children and adolescents. <b><i>Methods:</i></b> The following databases were searched: Medline, Embase, Web of Science and Scopus for cases of conjunctival melanoma occurring in children and adolescents &lt; 18 years of age. <b><i>Results:</i></b> Seventeen studies with 32 patients (18 males) were identified. The median age at presentation was 11 years (range 4–18 years). Most patients were white. Most patients presented with a conjunctival mass or naevus with a recent history of growth or change. Excision biopsy provided diagnosis and management for all cases. Adjuvant chemotherapy and radiotherapy were also used. One patient had metastatic disease at diagnosis and 3 developed metastatic disease (range 1–10 months). Two patients died from disease and one was alive with metastatic disease. Two patients had disease recurrence. Outcomes were observed to be better where diagnosis was made earlier and “no-touch” excision biopsy was performed in an appropriate specialist setting. <b><i>Conclusions:</i></b> Conjunctival melanoma occurs rarely in children and adolescents. Surgery is the mainstay of management. The prognosis is guarded in metastatic disease due to the small sample size and limited follow-up.
DOI: 10.6084/m9.figshare.7977278.v1
title: detection_test_set.rar

description: leukocyte recognition, 11 types
DOI: 10.6084/m9.figshare.7977200
title: QUESTIONNAIRE FORMAT OF OUR STUDY

description: QUESTIONNAIRE FORMAT
DOI: 10.6084/m9.figshare.7977278.v3
title: detection_leukocyte

description: leukocyte recognition, 11 types
DOI: 10.6084/m9.figshare.7977119
title: Supplementary Material for: Meta-Analysis of Neuropsychological Studies in Panic Disorder Patients: Evidence of Impaired Performance during the Emotional Stroop Task

description: <b><i>Background:</i></b> Recent investigations have highlighted significant differences in verbal recall between patients with panic disorder (PD) and controls. These studies have highlighted that verbal memory and working memory could be impaired in PD. <b><i>Objectives:</i></b> The objective of the present meta-analysis is to confirm this hypothesis, reviewing the studies that have investigated neurocognitive testing in PD. <b><i>Methods:</i></b> We performed a systematic literature search for studies published between 1980 and 2015 that reported cognitive measurements in PD patients and controls. Effect size estimates were computed using the restricted maximum likelihood model. Only case-control studies were selected for this meta-analysis. We included studies that made a direct comparison between PD subjects and healthy controls. The diagnostic group consisted of adult patients aged over 18 years diagnosed with PD. We excluded the studies that did not employ a case-control design. All statistical analyses were carried out on R using the “metafor” package version 1.9-8. The effect size for each study neuropsychological test was calculated using the mean and SD of performance results, and <i>p</i> values &lt; 0.05 were considered significant. <b><i>Results:</i></b> We identified few studies that tested verbal memory and executive functions in PD patients and controls, and this difference was not significant. On the other hand, there are several studies that have used the emotional Stroop task to assess cognitive functions in PD. There is no robust evidence of impairment of memory function in PD; however, when considering the emotional Stroop task, it was found that PD patients performed slower (<i>p</i> &lt; 0.01) than healthy controls for all three types of stimuli (neutral, negative, positive). <b><i>Conclusion:</i></b> This meta-analysis included a small number of studies, which may have introduced bias into the analysis. However, there is some evidence of impairment of neurocognitive functions in PD when performing the emotional Stroop task. Furthermore, the paucity of studies evaluating neurocognition in PD suggests the need for further research in this field in order to draw meaningful conclusions.
DOI: 10.6084/m9.figshare.7977200.v1
title: QUESTIONNAIRE FORMAT OF OUR STUDY

description: QUESTIONNAIRE FORMAT
DOI: 10.6084/m9.figshare.7977278.v2
title: detection_test_set.rar

description: leukocyte recognition, 11 types
DOI: 10.6084/m9.figshare.7977092
title: Supplementary Material for: The Elusive Role of Placental Macrophages: The Hofbauer Cell

description: In this review, we discuss the often overlooked tissue-resident fetal macrophages, Hofbauer cells, which are found within the chorionic villi of the human placenta. Hofbauer cells have been shown to have a phenotype associated with regulatory and anti-inflammatory functions. They are thought to play a crucial role in the regulation of pregnancy and in the maintenance of a homeostatic environment that is crucial for fetal development. Even though the numbers of these macrophages are some of the most abundant immune cells in the human placenta, which are sustained throughout pregnancy, there are very few studies that have identified their origin, their phenotype, and functions and why they are maintained throughout gestation. It is not yet understood how Hofbauer cells may change in function throughout normal pregnancy, and especially in those complicated by maternal gestational diabetes, preeclampsia, and viral infections, such as Zika, cytomegalovirus, and human immunodeficiency virus. We review what is known about the origin of these macrophages and explore how common complications of pregnancy dysregulate these cells leading to adverse birth outcomes in humans. Our synthesis sheds light on areas for human studies that can further define these innate regulatory cells.
DOI: 10.6084/m9.figshare.7977077
title: Supplementary Material for: TGF-β1 Impairs Vitamin D-Induced and Constitutive Airway Epithelial Host Defense Mechanisms

description: Airway epithelium is an important site for local vitamin D (VD) metabolism; this can be negatively affected by inflammatory mediators. VD is an important regulator of respiratory host defense, for example, by increasing the expression of hCAP18/LL-37. TGF-β1 is increased in chronic obstructive pulmonary disease (COPD), and known to decrease the expression of constitutive host defense mediators such as secretory leukocyte protease inhibitor (SLPI) and polymeric immunoglobulin receptor (pIgR). VD has been shown to affect TGF-β1-signaling by inhibiting TGF-β1-induced epithelial-to-mesenchymal transition. However, interactions between VD and TGF-β1, relevant for the understanding host defense in COPD, are incompletely understood. Therefore, the aim of the present study was to investigate the combined effects of VD and TGF-β1 on airway epithelial cell host defense mechanisms. Exposure to TGF-β1 reduced both baseline and VD-induced expression of hCAP18/LL-37, partly by increasing the expression of the VD-degrading enzyme CYP24A1. TGF-β1 alone decreased the number of secretory club and goblet cells and reduced the expression of constitutive host defense mediators SLPI, s/lPLUNC and pIgR, effects that were not modulated by VD. These results suggest that TGF-β1 may decrease the respiratory host defense both directly by reducing the expression of host defense mediators, and indirectly by affecting VD-mediated effects such as expression of hCAP18/LL-37.
DOI: 10.6084/m9.figshare.7977119.v1
title: Supplementary Material for: Meta-Analysis of Neuropsychological Studies in Panic Disorder Patients: Evidence of Impaired Performance during the Emotional Stroop Task

description: <b><i>Background:</i></b> Recent investigations have highlighted significant differences in verbal recall between patients with panic disorder (PD) and controls. These studies have highlighted that verbal memory and working memory could be impaired in PD. <b><i>Objectives:</i></b> The objective of the present meta-analysis is to confirm this hypothesis, reviewing the studies that have investigated neurocognitive testing in PD. <b><i>Methods:</i></b> We performed a systematic literature search for studies published between 1980 and 2015 that reported cognitive measurements in PD patients and controls. Effect size estimates were computed using the restricted maximum likelihood model. Only case-control studies were selected for this meta-analysis. We included studies that made a direct comparison between PD subjects and healthy controls. The diagnostic group consisted of adult patients aged over 18 years diagnosed with PD. We excluded the studies that did not employ a case-control design. All statistical analyses were carried out on R using the “metafor” package version 1.9-8. The effect size for each study neuropsychological test was calculated using the mean and SD of performance results, and <i>p</i> values &lt; 0.05 were considered significant. <b><i>Results:</i></b> We identified few studies that tested verbal memory and executive functions in PD patients and controls, and this difference was not significant. On the other hand, there are several studies that have used the emotional Stroop task to assess cognitive functions in PD. There is no robust evidence of impairment of memory function in PD; however, when considering the emotional Stroop task, it was found that PD patients performed slower (<i>p</i> &lt; 0.01) than healthy controls for all three types of stimuli (neutral, negative, positive). <b><i>Conclusion:</i></b> This meta-analysis included a small number of studies, which may have introduced bias into the analysis. However, there is some evidence of impairment of neurocognitive functions in PD when performing the emotional Stroop task. Furthermore, the paucity of studies evaluating neurocognition in PD suggests the need for further research in this field in order to draw meaningful conclusions.