cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Threshold-based guidelines threaten preference-sensitive decision making in person-centred care
Creators: name: Kaltoft, Mette Kjer
name: Nielsen, Jesper Bo
name: Salkeld, Glenn
name: Dowie, Jack
Publisher: name: F1000Research
Year: 2016

description: Decisions in relation to screening and treatment for bone fragility are multi-criterial and therefore preference-sensitive. In person-centred care the relevant preferences are those of the patient-as-person. Threshold-based guidelines typically focus on a single numerical criterion, such as 10 year Fracture probability in those based on Frax, leaving other criteria for largely verbal 'consideration. Drawing on Australian, Danish and UK Frax data we show how a simple MCDA-based Decision Support Tool can trump a guideline by generating a personalised opinion based on the individual's preferences and the best available estimates of the performance rates of the main medications on multiple criteria, including Fracture within 10 years. Guidelines for assessment and intervention are not appropriate in person-centred care, where individual preferences and criterion trade-offs are formally elicited at the point of decision, making the group average thresholds underpinning the guidelines redundant. Personalised decision support tools are a necessity for eliciting these preferences and the computational task of integrating them with the best estimates available, to facilitate visual, interactive, informed and preference-based consent.
Producing quality-adjusted opinions for preference-sensitive multi-criterial decision support
Creators: name: Kaltoft, Mette Kjer
name: Nielsen, Jesper Bo
name: Salkeld, Glenn
name: Dowie, Jack
Publisher: name: F1000Research
Year: 2016

description: Person-centred care requires the Best Estimates Available Now (BEANs) for the performance of all relevant options on person-important criteria to be integrated at the Point of Decision with personal preferences in relation to these criteria. Multi-Criteria Decision Analysis (MCDA) provides a theoretical basis for decision support tools that can meet these requirements, generating Option Scores that combine the two distinct types of input into an Opinion via an expected value algorithm. The BEANs for each of the n Ratings needed in an MCDA will vary in quality as a result of their different provenances (at a minimum n = the number of Criteria times the number of Options). A numerical ratio measure of the quality of all estimates, not only of ‘evidence’, is essential to produce a quality-adjusted opinion in an MCDA. QE8D, based on 8 GRADE dimensions is proposed as a multi-criterial framework for such a preference-sensitive measure. Rejecting such a measure leaves the task of dealing with the lack of ‘evidence’, and variation in verbal ratings of it, at the Point of Decision in the minds, and unquantified, non-transparent  preferences of the individual decision maker.
Nuevo y curioso romance, del modo de vivir de los pobres Estudiantes: Digital Edition
Creators: name: Jacsont Pauline
Publisher: name: Zenodo
Year: 2024
Subjects: Spanish literature
Digital edition
XML-TEI

description: Digital edition of a Spanish pliego de cordel (19th c.). It contains the XML-TEI file of the edition, as well as the files that led to this edition, i.e. the digital facsimiles (raw and retouched), and the transcription produced by the OCR tool e-Scriptorium (ALTO-XML). This digital edition is a part of the research project Desenrollando el cordel / Untangling the cordel / Démêler le cordel (2020-2024), led by professor Constance Carta at the University of Geneva and supported by the philanthropic Sandoz-Monique de Meuron Family Foundation.
Pedagogical Strategies for Teaching the DSM: Centering Diversity and Equity
Creators: name: Ghezzi, Mariyln
name: Levine, Amy
Publisher: name: IUPUI University Library
Year: 2022

description:
The Diagnostic and Statistical Manual of Mental Disorders, Fifth Edition presents numerous ethical challenges for social workers. As social work educators, we are tasked with preparing students for clinical social work practice, which includes not only instructing students in the use of the DSM-5, but also emphasizing the importance of pursuing social justice and equity in clinical work. With the most recent revision, the DSM-5 Task Force attempted to improve cultural awareness and sensitivity – efforts that yielded mixed results. This article explores the changes, benefits, and shortcomings of these efforts to address cultural diversity and highlights pedagogical approaches for bringing this knowledge to the MSW classroom. We describe specific teaching strategies that underscore the importance of a strong cultural formulation of client problems and are designed to inspire critical thinking about the process of diagnosing. Social workers are encouraged to adopt these strategies for using the DSM-5 not only to better inform their clinical decision-making but also to better align their clinical practice with social work values and ethics.
Immunohistochemical expression of MCM2 predicts biochemical recurrence in prostate cancer: a tissue microarray and digital imaging analysis-based study of 428 cases
Creators: name: Toubaji, Antoun
name: Sutcliffe, Siobhan
name: Chaux, Alcides
name: Lecksell, Kristen
name: Hicks, Jessica
name: Marzo, Angelo M. De
name: Platz, Elizabeth A.
name: Netto, George J.
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: Prostate cancer remains a major health problem in the United States. Established clinicopathologic parameters, such as Gleason score, tumor stage, and serum PSA levels, are currently the guiding tools for prognostication and disease management. Additional biomarkers that could increase accuracy of predicting disease progression, response to therapy, and survival are needed. The goal of this study was to evaluate MCM2 and Ki-67 immunohistochemical expression as predictors of outcome in prostate cancer.

DESIGN: 11 tissue microarrays were constructed using tumor and nontumor samples from 428 patients. Patients were divided into short-term (mean, 2.9 years) and long-term (mean, 14.1 years) follow-up groups. Endpoints were biochemical recurrence for the short-term group, and prostate cancer-related death for the long-term group. All men in the long-term follow-up group had biochemical recurrence at the time of recruitment. Tissue microarray spots were scanned and analyzed using the BLISS platform (Bacus Laboratories, Inc., Lombard, IL). MCM2 and Ki-67 levels were analyzed for i) percentage of positive cells, ii) intensity of staining, and iii) the product of percentage and intensity.

RESULTS: Expression of both markers was higher in tumor than in nontumor glands. Percentage of MCM2 positivity was associated with Gleason score in both groups. Percentage and intensity of Ki-67 positivity were associated with Gleason score and pathologic stage only in the short-term group. Higher MCM2 percentages were associated with biochemical recurrence in the short-term group. In the long-term follow-up group, neither MCM2 nor Ki-67 levels (percentages or intensities) predicted prostate cancer death. Furthermore, no significant increase in the risk for cancer death was observed in patients with combined high MCM2 and high Ki-67 percentage expression.

CONCLUSION: Higher percentages of MCM2 and Ki-67 are associated with increased Gleason score. In patients treated by radical prostatectomy, high MCM2 levels are associated with biochemical recurrence. Once biochemical recurrence ensues, neither MCM2 nor Ki-67 predicts cancer-related death.
Nuevo y curioso romance, del modo de vivir de los pobres Estudiantes: Digital Edition
Creators: name: Jacsont Pauline
Publisher: name: Zenodo
Year: 2022
Subjects: Spanish literature
Digital edition
XML-TEI

description: Digital edition of a Spanish pliego de cordel (19th c.). It contains the XML-TEI file of the edition, as well as the files that led to this edition, i.e. the digital facsimiles (raw and retouched), and the transcription produced by the OCR tool e-Scriptorium (ALTO-XML). This digital edition is a part of the research project Desenrollando el cordel / Untangling the cordel / Démêler le cordel (2020-2024), led by the professor Constance Carta at the University of Geneva and supported by the philanthropic Sandoz-Monique de Meuron Family Foundation.
Assessing urinary levels of IL-18, NGAL and albumin creatinine ratio in patients with diabetic nephropathy
Creators: name: Sueud, Taqwa
name: Hadi, Najah
name: Abdulameer, Raed
name: Jamil, Dina
name: Al-Aubaidy, Hayder
Publisher: name: La Trobe
Year: 2022
Subjects: classificationCode: 32
subject: Biomedical and clinical sciences
classificationCode: 3202
subject: Clinical sciences

description: https://www.sciencedirect.com/science/article/pii/S1871402118304648?via=ihub
5-hydroxy-methyl-cytosine content is strongly associated with degree of histological differentiation in penile squamous cell carcinomas
Creators: name: Haffner, Michael C.
name: Netto, George J.
name: Nelson, William G.
name: Srinivasan Yegnasubramanian
name: Lecksell, Kristen L.
name: Cubilla, Antonio L.
name: Chaux, Alcides
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: Cytosine methylation represents an important epigenetic modification that plays a crucial role in normal differentiation as well as carcinogenesis. Recent evidence suggests that methylated cytosine (5mC) can become oxidized to 5-hydroxymethylcytosine (5hmC) in the mammalian genome. We have recently shown that global 5hmC levels are greatly reduced in invasive adenocarcinoma. Here we evaluate the status of 5hmC in squamous cell carcinoma of the penis and explore the association of 5hmC with the degree of tumor differentiation.

DESIGN: Thirty-eight formalin-fixed paraffin-embedded archival cases of penile squamous cell carcinoma were selected to build a tissue microarray (TMA). Each tumor was sampled 3-9 times. TMA spots were scanned using the APERIO system and uploaded to the TMAJ platform (http://tmaj.pathology.jhmi.edu). In total, 147 individual TMA spots were evaluated. Histological grade was assigned in each spot. Global 5hmC levels were assessed using a 5hmC specific antibody and standard immunohistochemical techniques. Extent of 5hmC staining was estimated in each spot as a percentage of positive cells. Association between 5hmC extent and grade was evaluated by the Kruskal-Wallis test and trends were confirmed using Cuzick’s test.

RESULTS: Normal squamous epithelium showed strong staining for 5hmC. In invasive tumors, extent of 5hmC staining showed a strong association with tumor differentiation. 5hmC levels decreased with increasing histologic grade (Figure 1). Differences were significant (P=0.0001), as well as the trend across ordered categories (P<0.0001).

CONCLUSION: In penile squamous cell carcinomas, global 5hmC levels significantly decrease with increased histologic grade. Our finding suggests that alterations in 5hmC levels are associated with carcinogenesis and are inversely correlated with tumor differentiation in penile squamous cell carcinoma.
Assessing urinary levels of IL-18, NGAL and albumin creatinine ratio in patients with diabetic nephropathy
Creators: name: Sueud, Taqwa
name: Hadi, Najah
name: Abdulameer, Raed
name: Jamil, Dina
name: Al-Aubaidy, Hayder
Publisher: name: La Trobe
Year: 2022

description: Aims: Diabetic nephropathy (DN) is a serious microvascular complication of a longstanding hyperglycemia. This study aims to evaluate whether urinary neutrophil gelatinase-associated lipocalin (NGAL) and urinary Interleukin-18 possess a better diagnostic value than albumin creatinine ratio in assessing the severity of nephropathy in patients with type 2 diabetes mellitus (T2DM). Material & methods: Ninety participants diagnosed with T2DM were recruited and they were divided into three study groups according to their albumin/creatinine ratio (ACR): (Normoalbuminuria group, Microalbuminuria group, and Macroalbuminuria group). A matching of Ninety healthy subjects were included as controls. Blood and urine samples were collected to measure various markers of glycemic control and kidney function. Results: IL-18 levels were not changed significantly between all study groups (P > 0.05), despite a significant positive correlation between IL-18 and urinary albumin levels. NGAL levels were significantly increased in Microalbuminuria group and Macroalbuminuria group as compared to the control and Normoalbuminuria groups. NGAL was also positively correlated with urinary albumin and ACR, but negatively correlated with the age and body mass index. Receiver Operating Characteristic curves revealed that for early detection of DN, the best cutoff values to discriminate DN and diabetic without nephropathy groups were ˃ 21.4 ng/ml for NGAL (94.67 sensitivity, 26.67% specificity), ≤0.34 pg/mL for IL-18 (72% sensitivity, 53.33% specificity), and ˃29.8 mg/g for ACR (80% sensitivity, 100% specificity). Conclusion: We conclude that the urinary ACR is a more accurate individual biomarker of DN when compared to both NGAL and IL-18.
Combined in situ hybridization and immunohistochemistry for the diagnosis of Human Papillomavirus (HPV) infection in penile carcinomas
Creators: name: Netto, George J.
name: Cubilla, Antonio L.
name: Sharma, Rajni
name: Hicks, Jessica
name: Lecksell, Kristen L.
name: Chaux, Alcides
Publisher: name: F1000Research
Year: 2016

description: About one-half of penile SCC are HPV positive. The polymerase chain reaction (PCR) assay is the gold standard for HPV detection. Alternative methods of detection that are less technically demanding and less costly are desirable, especially in developing countries. In these slides, we show the results of assessing a combination of in situ hybridization and immunohistochemistry for defining HPV status in penile SCC. Forty-eight cases of SCC with previously determined HPV status by SPF-10 PCR assay were included in a set of 4 tissue microarrays (TMA). Presence of high-risk HPV (HR-HPV) was assessed by in situ hybridization (ISH). Immunohistochemical expression of 5 cell cycle control markers (p53, p16INK4a , MDM2, cyclin-D1, and Ki-67) was evaluated. TMA spots were scanned using the APERIO system (Aperio Technologies, Inc., Vista, CA) and uploaded for online evaluation to the TMAJ platform (http://tmaj.pathology.jhmi.edu). Discrimination of markers for defining HPV status was estimated using receiver operating characteristic (ROC) curves, and performances were compared by changes in the area under the ROC curve (AUC). We found that, as a stand-alone marker, p16INK4a performed better than HR-HPV ISH or Ki-67 to define HR-HPV presence. Specificity was high for p16INK4a and HR-HPV ISH positivity (90% and 100% individually; 100% when both positive). Positivity for p16INK4a or HR-HPV ISH (rather than requiring both to be positive) had the best AUC performance.
Evaluating Arterial Congestion and Travel Time Reliability Performance
Creators: name: Smith, Galen T.
Publisher: name: University of Kentucky
Year: 2016
Subjects: subject: Civil Engineering
subject: FOS: Civil engineering
subject: Transportation Engineering

description: This thesis presents an investigation of arterial travel time and reliability. Specifically an examination of the proposed arterial travel time reliability performance measures detailed in Federal Highway Administration’s Notice of Proposed Rulemaking on national performance management measures are performed. These measures, including level of travel time reliability and peak hour travel time ratio, are computed and compared to those currently used to quantify congestion and travel time reliability. Within this process several commonly used data sources are evaluated to determine the effects of data quality and data source on performance measure evaluation. The newly created Urban Streets Reliability tool is also evaluated for its ability to estimate the effect of several proposed projects on the travel time reliability of a transportation network. In conclusion, this thesis found that the proposed travel time reliability performance measures show definite differences in estimates of facility reliability as compared with currently used performance measures such as travel time index and planning time index. A variation in the magnitude of this difference was also observed based on a rural vs. urban roadway setting. Finally, further areas of research involving the use of the Urban Streets Reliability tool to estimate the impact of reliability improvements on side streets and the transportation network as a whole are discussed.
Using the Concept of Encounter to Further the Social Inclusion of People with Intellectual Disabilities: what has been Learned?
Creators: name: Bigby, Christine
name: Wiesel, Ilan
Publisher: name: La Trobe
Year: 2023
Subjects: classificationCode: 39
subject: Education
classificationCode: 3904
subject: Specialist studies in education
classificationCode: 4203
subject: Health services and systems
classificationCode: 44
subject: Human society
classificationCode: 4409
subject: Social work

description: Social inclusion has been an enduring policy aim of intellectual disability policy since the early 1980s, which has been difficult to achieve. It has often been conceptualised as the binary between social presence or social participation. This article synthesises the findings from a program of Australian research that explored the application of “encounter” and “conviviality”–concepts from urban geography, as lenses for understanding the types of places, activities, and practices that facilitate or obstruct social inclusion of people with intellectual disabilities. Three types of convivial encounter were identified: moments of shared identification, everyday recognition, and becoming known. Most common were fleeting convivial encounters of everyday recognition in public places or commercial premises. Convivial encounters were facilitated by: places where activities were non-competitive, there was a shared purpose for being there and opportunities for spoken and other forms of communication; community members’ with experience, confidence, or comfort in interacting with people with intellectual disabilities; and skilled judgments and assistance from support workers in the moment, and their decisions about use of non-segregated mainstream places. The final part of the article reviews studies by other disability studies researchers, who using ideas about encounter have found that the presence of a dog, and places where there is clarity about rules and roles, are facilitating factors, and have begun to investigate more systematic ways of creating opportunities for convivial encounters through social enterprises, community groups, classes, and volunteering.
Adaption and validation of the Working Alliance Inventory for General Practice: qualitative review and cross-sectional surveys.
Creators: name: Sturgiss, Elizabeth A
name: Rieger, Elizabeth
name: Haesler, Emily
name: Ridd, Matthew J
name: Douglas, Kirsty
name: Galvin, Shelley L
Publisher: name: La Trobe
Year: 2022
Subjects: classificationCode: 42
subject: Health sciences
subject: FOS: Health sciences
classificationCode: 4203
subject: Health services and systems
classificationCode: 4206
subject: Public health

description: Background: Relational aspects of primary care are important, but we have no standard measure for assessment. The 'working alliance' incorporates elements of the therapeutic relationship, shared decision-making, goal setting and communication skills. The Working Alliance Inventory (short form) (WAI-SF) has been used in adult psychology, and a high score on the survey is associated with improved outcomes for clients. Objective: To adapt the WAI-SF for use between GPs and patients and to test its concurrent validity with measures of shared decision-making and the doctor-patient relationship and discriminant validity with measures of social desirability. Methods: Two rounds of online survey feedback from 55 GPs and 47 patients were used to adapt the WAI-SF - the WAI-GP. The tool was then completed by 142 patients in waiting rooms after seeing their GP and by 16 GPs at the end of their session. Concurrent validity with measures of shared decision-making and patient-doctor depth of relationship was determined using Spearman Rho correlations. Patients also completed two social desirability surveys, and discriminant validity with WAI-GP was assessed. Results: Following feedback, the survey was re-worded to remove phrases that were perceived as judgmental or irrelevant. The patient measure of the WAI-GP was strongly correlated with Dyadic OPTION (rho = 0.705, P = 0.0001) and Patient-Doctor Depth of Relationship scale (rho = 0.591, P = 0.0001) and not with measures of social desirability. Conclusion: The psychometric properties of the WAI-GP support its use for measuring GP-patient alliance. Possibilities for use include assessing the influence of therapeutic alliance on the effectiveness of interventions.
Immunohistochemistry for ERG expression as a surrogate for TMPRSS2-ERG fusion detection in prostatic adenocarcinomas
Creators: name: Chaux, Alcides
name: Albadine, Roula
name: Toubaji, Antoun
name: Hicks, Jessica
name: Meeker, Alan
name: Platz, Elizabeth A.
name: Marzo, Angelo M. De
name: Netto, George J.
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: TMPRSS2-ERG fusions have been identified in about one-half of all prostatic adenocarcinomas (PCa). Fluorescence in situ hybridization (FISH) and reverse transcription polymerase chain reaction (RT-PCR) have been the most commonly used techniques in this setting. The aim of the present study is to evaluate the utility of ERG immunoexpression as a surrogate for TMPRSS2-ERG fusion in a large series of PCa cases.

MATERIAL & METHODS: 427 radical retropubic prostatectomy tissue samples were used to construct 10 tissue microarrays (TMA). FISH analysis was previously performed using dual-color interphase break-apart probes for the 5’ and 3’ regions of the ERG gene. ERG expression was evaluated using a commercial rabbit anti-ERG monoclonal antibody (clone EPR3864; Epitomics, Burlingame CA). Each TMA spot was independently assessed and any nuclear staining positivity was considered as indicative of ERG expression.

RESULTS: TMPRSS2-ERG fusions were detected by FISH in 195 (45.7%) of the PCa cases. ERG immunoexpression was found in 192 (45.0%) of the PCa cases and in none of the nontumoral tissue samples. Mean ERG H-scores were significantly higher in tumors harboring FISH-detected TMPRSS2-ERG fusions (P<0.00001) and there was a strong association between ERG immunohistochemical expression and TMPRSS2-ERG status defined by FISH (P<0.00001), with a sensitivity of 86% (95% CI 80–90%) and a specificity of 89% (95% CI 84–93%). Receiver-operating characteristic (ROC) curve analysis showed that ERG immunoexpression had a high accuracy for identifying TMPRSS2-ERG fusions detected by FISH, with an area under the curve (AUC) of 0.87 (95% CI 0.84–0.91, P<0.00001).

CONCLUSIONS: We found that ERG immunohistochemical expression has a high accuracy for defining TMPRSS-ERG fusion status. ERG immunohistochemistry may offer an accurate, simpler and less costly alternative for evaluation of ERG fusion status in PCa than FISH.
Combined in situ hybridization and immunohistochemistry for the diagnosis of human papillomavirus infection in penile carcinomas
Creators: name: Netto, George J.
name: Cubilla, Antonio L.
name: Sharma, Rajni
name: Hicks, Jessica
name: Lecksell, Kristen L.
name: Chaux, Alcides
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: Approximately one-half of penile carcinomas are HPV positive. Polymerase chain reaction (PCR) assay is the gold standard for HPV detection. Alternative methods of detection that are less technically demanding and less costly are desirable, especially in developing countries. Herein, we evaluated a combination of in situ hybridization and immunohistochemistry for defining HPV status in penile cancers.

DESIGN: Forty-eight cases of penile squamous cell carcinoma (SCC), with previously determined HPV status by SPF-10 PCR assay, were included in a set of 4 tissue microarrays (TMA). Presence of high-risk HPV (HR-HPV) was assessed by in situ hybridization (ISH). Additionally, immunoexpression of 5 cell cycle control markers (p53, p16INK4a, MDM2, cyclin-D1, and Ki-67) was evaluated. TMA spots were scanned using the APERIO system and uploaded to the TMAJ platform (http://tmaj.pathology.jhmi.edu). Discrimination of markers for defining HPV status was estimated using receiver operating characteristic (ROC) curves, and performances were compared by changes in the area under the ROC curve (AUC).

RESULTS: The proportions of tumors with and without warty and/or basaloid features were 45.8% and 54.2%. 35.4% of the cases were positive for HPV infection using PCR. The concordance index between PCR and in situ hybridization was 81.3%. By immunohistochemistry, the percentage of positivity was 29% for p16INK4a , 40% for p53, 46% for cyclin-D1, 19% for MDM2, and 42% for Ki-67. Levels of p16INK4a and Ki-67 were significantly different (P<0.05) between HPV positive and HPV negative tumors, as defined by PCR. For the rest of markers (p53, MDM2, and Cyclin-D1), immunohistochemical levels were similar between HPV positive and HPV negative tumors. Positive HR-HPV by ISH and increased p16INK4a and Ki-67 expression were significantly associated with HPV status (P<0.008).

CONCLUSION: As a stand-alone marker, p16INK4a performed better than HR-HPV ISH or Ki-67 to define the presence of HR-HPV. Specificity was high for p16INK4a and HR-HPV ISH positivity (90% and 100% individually; 100% when both positive). Positivity for p16INK4a or HR-HPV ISH (rather than requiring both to be positive) had the best area under the ROC curve (AUC) performance. The latter combination could serve as an acceptable surrogate to the gold standard PCR assay.
Integration of OMERO and ARC
Creators: name: Kandpal, Niraj
name: Zentis, Peter
name: Schrader, Andrea
name: Valencia-Schneider, Monica
name: Schauss, Astrid
Publisher: name: Zenodo
Year: 2023

description: The poster is part of poster session for first NFDI4BIOIMAGE All-Hands Meeting that took place in Duesseldorf in 2023. The poster contains work on integration of ARC(Annotated Research context) and OMERO(Open Microscopy Environments Remote Objects). The work is a collaboration between two different consortium, NFDI4BIOIMAGE and DataPLANT.
Immunohistochemical expression of phosphorylated S6 is associated with degree of differentiation in penile squamous cell carcinoma
Creators: name: Chaux, Alcides
name: Cubilla, Antonio L.
name: Hicks, Jessica
name: Lecksell, Kristen L.
name: Netto, George J.
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: Activation of the mammalian target of rapamycin (mTOR) pathway is essential for normal cell growth, differentiation, and specialization. Additionally, dysregulation of this pathway has been implicated in the pathogenesis of several cancers, including tumors of the kidney, prostate, and bladder. However, studies on the status of the mTOR pathway in penile squamous cell carcinomas (SCC) are scant. Herein, we evaluate the immunoexpression of members of the mTOR pathway in a large series of penile carcinomas.

DESIGN: One hundred and twelve cases of penile SCC were used to build 4 tissue microarrays (TMA). Each tumor was sampled 3 to 12 times. TMA spots were scanned using the APERIO system and uploaded to the TMAJ platform (http://tmaj.pathology.jhmi.edu). Immunohistochemical expression of phosphorylated AKT (phos-AKT), phosphorylated mTOR (phos-mTOR), and phosphorylated S6 (phos-S6) was assessed by immunohistochemistry, using a previously described protocol (Am J Surg Pathol 2011;35:1549). Percentages of positive cells were estimated in each TMA spot and average values per case were used for data analysis.

RESULTS: Low extent of phos-AKT (mean 1.3%, SD 2%) and phos-mTOR (mean 0.5%, SD 2%) expression were observed. Higher phos-S6 expression was noted (mean 38%, SD 26%). No association was observed between expression levels of phos-AKT, phos-mTOR, or phos-S6 and histological subtype (P>0.05). However, low-grade (grades 1 or 2) tumors had significantly higher levels of phos-S6 than high grade (grade 3) tumors (52% vs. 31%, P=0.0001). The difference in phos-S6 expression by histologic grade was independent of histologic subtype. There was no significant association between phos-AKT or phos-mTOR and histologic grade.

CONCLUSION: Expression levels of phos-S6 were associated with histologic grade in penile SCC, independent of histologic subtype. Well to moderately differentiated tumors had higher levels of phos-S6 compared to high-grade tumors. In light of the recently identified specific inhibitors of S6 kinases, these findings might be useful in the planning of future clinical trials for patients with penile cancer.
Unravelling Inflammatory Bowel Disease: Gut Mucosal in vitro Models and the Effects of Food Bioactives on its Cellular Components
Creators: name: Vilardi, Aurora
Publisher: name: University of Leicester
Year: 2025

description: Inflammatory Bowel Disease (IBD), including Crohn’s Disease and Ulcerative Colitis, represents chronic inflammatory conditions often marked by intestinal epithelial impairment triggered by environmental factors, such as diet. The molecular mechanisms underlying barrier damage, diet and IBD remain unclear. Despite the lack of tissue complexity, two-dimensional (2D) cell culture systems provide valuable insights into the cellular responses to dietary and inflammatory stimuli. Recently, a more advanced perspective has been provided by three dimensional (3D) in vitro co-culture models. However, they mostly rely on the use of colon epithelial cancer cell lines, such as Caco-2, traditionally used to study gut leakiness in 2D. This project aims to (i) generate transcriptomics and secretory inflammatory profiles following 2D exposure of each cell line to fructose, lipopolysaccharide (LPS) and resveratrol at 1, 24 and 48 hours; (ii) build a 3D co-culture model of the healthy intestinal epithelium using non-neoplastic colon epithelial cells (HCEC-SV40) and dermal fibroblasts (HDF/tert164) supported by the Alvetex® Scaffold; and (iii) label each cell line employed in the model by inserting fluorescent genes via CRISPR/Cas9 homology-directed repair (HDR) within the ROSA26 locus. 2D studies revealed that resveratrol and LPS activated antiviral and interferon-related genes in HCEC-SV40 and HDF/tert164, promoting cell proliferation. Over time, these cell lines revealed a significant increase in IL-17A, MUC16 and N-Cadherin upon exposure to fructose, LPS and resveratrol. Co-culturing HDF/tert164 and Caco-2 on collagen showed the potential to recapitulate the intestinal mucosa, while further optimisation is required for HCECSV40. CRISPR/Cas9-mediated HDR successfully incorporated fluorescent transgenes into the ROSA26 locus, demonstrating the feasibility of exploiting fluorescence to study individual cells within the 3D co-cultures. The work presented in this thesis allows to dissect the molecular differences between cancer and non-neoplastic cells and lays the foundation for optimising 3D co-culture systems to investigate the cell types profiled in the 2D monocultures.
Interior Ethnic Minority Boarding Schools: China’s Bold and Unpredictable Educational Experiment
Creators: name: Leibold, James
Publisher: name: La Trobe
Year: 2022
Subjects: classificationCode: 39
subject: Education
classificationCode: 3902
subject: Education policy, sociology and philosophy
classificationCode: 440807
subject: Government and politics of Asia and the Pacific

description: By way of introduction, this lead essay provides an overview of China’s ethnic minority boarding school system, exploring its background, aims and history, while introducing the mechanics and curricula employed in these special schools. The article seeks to interrogate the goals and outcomes of the system, arguing that the pedagogic results do not fully accord with the expectations of minority graduates or Han Party-state officials. The result is a highly significant educational experiment whose long-term results are far from predictable. This introduction sets the stage for the detailed empirical and ethnographic studies that comprise this special issue.
Supplementary document for 15 Millijoule, Few-Cycle Pulse Compression Using a Large-Bore Hollow Fiber for Relativistic Laser-Matter Interactions - 7450788.pdf
Creators: name: Meadows, Alexander
name: Yamamoto, Kiyoshi
name: Graumann, Ivan
name: Szlafsztein, Francisco
name: Chvykov, Vladimir
name: Hollinger, Reed
name: Chandrasekaran, Aparajit
name: Shpilman, Zeev
name: Geiss, Owen
name: Abdolghader, Pedram
Publisher: name: Optica Publishing Group
Year: 2025
Subjects: Uncategorized

description: Supplementary Materials for OL#560628
Decrease or loss of PTEN expression is frequent in penile squamous cell carcinomas
Creators: name: Chaux, Alcides
name: Cubilla, Antonio L.
name: Hicks, Jessica
name: Lecksell, Kristen L.
name: Netto, George J.
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: Loss of PTEN tumor suppressor gene expression is a common genetic alteration in several types of malignancies. Data on PTEN status in penile squamous cell carcinomas (SCC) is scant. Herein, we evaluate PTEN expression in a large series of penile tumors.

DESIGN: One hundred and twelve cases of penile SCC were used to build 4 tissue microarrays (TMA). Each tumor was sampled 3 to 12 times. TMA spots were scanned using the APERIO system and uploaded to the TMAJ platform (http://tmaj.pathology.jhmi.edu). Cytoplasmic PTEN expression was assessed by immunohistochemistry, using a previously described protocol (see https://www.ncbi.nlm.nih.gov/pubmed/21881486). A case was categorized as showing PTEN loss when complete PTEN loss of expression was encountered in all TMA spots. A case was classified as retained PTEN expression when all TMA spots expressed PTEN in all cells. All remaining cases were classified as decreased PTEN expression.

RESULTS: PTEN expression was retained in 13 cases (12%), decreased in 84 cases (75%), and lost in 15 cases (13%). Distribution of histological subtypes was similar in cases with retained and decreased PTEN expression (P=0.77). However, cases with PTEN loss showed a higher proportion of warty/basaloid carcinomas (80%) than keratinizing carcinomas (20%). This difference was significant (P=0.02). Histological grade was not associated with PTEN expression (P=0.20).

CONCLUSION: The majority (88%) of penile SCC showed decrease or loss of PTEN expression. PTEN loss was observed more frequently in warty/basaloid carcinomas, independent of histological grade. Additional studies are required to further characterize this association and to explore any potential relationship between PTEN loss and HPV infection.
Distinctive immunohistochemical profile of the penile distal urethra
Creators: name: Han, Jeong S.
name: Netto, George J.
name: Lee, Stephen
name: González-Roibón, Nilda
name: Ross, Hillary
name: Sharma, Rajni
name: Cubilla, Antonio L.
name: Chaux, Alcides
Publisher: name: F1000Research
Year: 2016

description: BACKGROUND: The true nature of the epithelium covering the penile distal urethra remains undefined. Some authors argue that, given its purported embryogenesis and pathology, the epithelium of the distal urethra would be more closely related to a squamous epithelium than to urothelium. Herein, we evaluate a panel of stains routinely used as markers of urothelial differentiation.

DESIGN: Eleven total penectomies performed for squamous cell carcinoma of the glans were selected based on the presence of intact distal urethra in the tissue blocks. In all cases, the distal urethral mucosa was histologically unremarkable and uninvolved by tumor. Standard immunohistochemistry for CK7, CK20, thrombomodulin, p63, and GATA3 (BioCare, GATA3 clone L50-823) was performed.

RESULTS: In all cases, 2 distinctive cell layers were observed in the epithelial lining of the distal urethra. The superficial layer was composed of a single file of tall columnar cells with clear cytoplasm and conspicuous cell borders. Stratified cubical cells with scant cytoplasm and undefined cell borders were observed underlying the superficial columnar layer. All distal urethral sections were negative for CK20 and thrombomodulin. Staining for CK7 was strong and diffuse in the superficial columnar cells, and negative to weak in the underlying layers in all cases. p63 displayed an inverse pattern of expression, with absence of staining in the superficial columnar cells, and strong and diffuse positivity in the underlying layers. With the exception of 1 case, GATA3 staining was observed transmucosally in all distal urethral sections.

CONCLUSION: The epithelium of the distal urethral mucosa is distinctive, morphologically and immunohistochemically, similar to urothelium. It is composed of 2 cell layers, a superficial columnar simple epithelium (CK7+/p63-/GATA3+), and an underlying stratified epithelium composed of cubical cells (CK7-/p63+/GATA3+).
The role of GATA3 in the differential diagnosis of upper tract urothelial and collecting duct carcinomas
Creators: name: González-Roibón, Nilda
name: Chaux, Alcides
name: Sharma, Rajni
name: Netto, George J.
Publisher: name: F1000Research
Year: 2016

description: In these slides we discuss the role of GATA binding protein 3 (GATA3) in the differential diagnosis of upper tract urothelial carcinomas versus collecting duct carcinomas. GATA3 is a transcription factor that binds to consensus DNA motif (A/T)GATA(A/G) that has been identified as a marker of urothelial differentiation. We found that GATA3 was higher in upper tract urothelial carcinomas than in collecting ducts carcinomas, suggesting a role in the differential of these two entities. We also found that adding GATA3 to our previously suggested binary panel of p63 and PAX8 improved its performance.
Likelihood of knee replacement surgery up to 15 years after sports injury: A population-level data linkage study
Creators: name: Ackerman, Ilana N
name: Bohensky, MA
name: Kemp, Joanne
name: de Steiger, R
Publisher: name: La Trobe
Year: 2023
Subjects: classificationCode: 32
subject: Biomedical and clinical sciences
classificationCode: 3202
subject: Clinical sciences
classificationCode: 42
subject: Health sciences
subject: FOS: Health sciences
classificationCode: 4206
subject: Public health
classificationCode: 4207
subject: Sports science and exercise
classificationCode: 5201
subject: Applied and developmental psychology

description: Objectives: Knee injury is strongly associated with the development of knee osteoarthritis. While there is preliminary evidence for an increased risk of knee replacement (KR) surgery after sports injury, no studies have investigated this at a population level. This population-level study aimed to quantify the likelihood of KR surgery and direct healthcare costs 10–15 years after sports injury. Design: Statewide population-based cohort study. Methods: The cohort was established by linking two key administrative datasets capturing all hospital admissions and emergency department (ED) presentations in Victoria, Australia. Sports injury presentations from 2000–2005 and KR admissions from 2000–2015 were identified using ICD-10-AM codes. A Cox proportional hazards model estimated likelihood of KR using time to surgery admission data, adjusting for potential confounders. KR costs for the sports-injured cohort were estimated from the health system perspective using diagnosis codes and national hospital cost weights. Results: Over the study period there were 64,038 sports injuries (including 7205 knee injuries) resulting in ED presentation or hospitalisation, and 326 KR procedures. Multivariate analysis showed that having a knee injury more than doubled the hazard of subsequent KR (hazard ratio 2.41, 95%CI 1.73–3.37), compared to all other sports injuries. Direct healthcare costs for KR totaled $AUD7.93 million for the cohort, with 21% of costs attributable to the knee injury group. Conclusions: Sports-related knee injury manifests in a significantly greater likelihood of KR, at considerable cost to society. Targeted health policy and effective interventions are needed to prevent sports-related knee injuries and contain this substantial burden.
Association between histologic grade and HPV infection in penile squamous cell carcinomas
Creators: name: Chaux, Alcides
name: Netto, George J.
name: Lloveras, Belén
name: Núbia Muñóz
name: Sanjosé, Silvia De
name: F. Xavier Bosch
name: Cubilla, Antonio L.
Publisher: name: F1000Research
Year: 2016

description: The vast majority of penile malignant tumors are squamous cell carcinomas (SCC) originating in the distal penis. Around 40% of these SCC show evidence of HPV infection. Histologic grade is a significant prognostic factor of nodal involvement, but HPV presence is controversial as a prognostic factor. In these slides, we aim to answer if is there any association between HPV and histologic grade which could have clinical implications. For this purpose, we evaluated 202 penile SCC in regards to their histologic grade and histologic subtype, along with HPV detection by SPF-10 PCR coupled with genotypification by LiPA25. We found that 52% of all high-grade SCC were HPV positive compared to 17% of all low-grade SCC (P<0.0001). About two-thirds (68%) of high-grade carcinomas with warty/basaloid features were HPV positive, as compared to about one-third (35%) of low-grade SCC (P=0.016). Finally, 29% of high-grade carcinomas without warty/basaloid features were HPV positive, as compared to 13% of low-grade tumors (P=0.039).
Sexual history and distinctive pathological features in human papillomavirus-related penile carcinomas
Creators: name: Cubilla, Antonio L.
name: Chaux, Alcides
name: Rodríguez, Ingrid M.
name: Barreto, José E.
name: Netto, George J.
name: F. Xavier Bosch
name: Sanjosé, Silvia De
name: Núbia Muñóz
name: Hildesheim, Allan
Publisher: name: F1000Research
Year: 2016

description: Most penile malignant tumors originate in the distal portion of the penis and correspond to squamous cell carcinomas (SCC). There is a worldwide variation in the incidence of penile cancer. Purported risk factors include phimosis, poor hygiene, smoking, and lack of circumcision. Evidence of HPV infection is found in about 40% of all cases. In these slides, we present the results socioeconomic, clinical, and pathologic features of 89 patients with penile cancer who were interviewed from 1993 to 2007 using an NCI-designed questionnaire.	Patients were treated by total/partial penectomy or circumcision.	HPV detection was done using SPF-10 PCR and DEIA, a DNA enzyme immunoassay for general HPV detection.	We found that most patients lived in rural (43%) or suburban (40%) areas.	Most patients received only elementary education (78%) or no formal education at all (15%).	Familial income was below the minimal wage in most cases (78%).	No significant differences were found between HPV-positive and HPV-negative patients.	We also found that HPV was present in 36% of cases.	HPV-positive patients reported a higher number of female partners than HPV-negative patients. Warty/basaloid morphology, high grade, and p16INK4a positivity were associated with HPV (P≤0.005).	Differentiated penile intraepithelial neoplasia (PeIN) and lichen sclerosus were more frequent in HPV-negative cases, while warty/basaloid PeIN was more frequently found in HPV-positive tumors (P≤0.001).
We conclude that risk factors that are important for penile cancer development seem to be not significantly different regarding HPV status. Sexual behavior could be related to some special subtypes of penile cancer. Socioeconomics features are similar in both groups and might reflect a general trend for penile cancer patients. Pathologic features are distinctive in HPV-related and unrelated tumors. The inverse relationship between lichen sclerosus and HPV infection warrants further investigation.
title: Measuring the Impact of Trade Cost Volatility on Supply Chains: An Application to Plastics and Light Truck Manufacturing
Creators: name: Powers, William
name: Schreiber, Samantha
Publisher: name: United States International Trade Commission
publisherIdentifier: https://ror.org/05hsggr76
publisherIdentifierScheme: ROR
Year: 2023

description: This paper employs two methods to estimate the impact of trade cost volatility on U.S.
imports of plastic products. First, an econometric model is used to estimate the relationship between trade cost volatility and sourcing of U.S. imports. We find that a one
percent increase in trade cost volatility is associated with about a 0.7 percent reduction
in U.S. imports. Then, we introduce a partial equilibrium model of the upstream plastic
industry and downstream light truck manufacturing industry in the United States. To
measure the impact of plastic trade cost volatility on downstream light truck manufacturing, we run a Monte Carlo simulation using a historical distribution of trade costs
as model inputs to understand how a reduction in trade cost volatility translates into a
reduction in volatility in downstream outcomes.
Supplementary document for Chiral quasi-bound states in the continuum with near-unity and switchable circular dichroism in a photosensitive silicon metasurface - 7423143.pdf
Creators: name: Chen, Bingying
name: Zhu, Wenchang
name: Jiang, Huan
name: Wang, Lulu
name: zhou, chaobiao
name: Zhang, Hui
Publisher: name: Optica Publishing Group
Year: 2025
Subjects: Uncategorized

description: Supplemental Document
WHY FUZZY QUALITY?
Creators: name: Parchami, Abbas
name: Gildeh, Bahram Sadeghpour
name: Mashaallah Mashinchi
Publisher: name: Center for Quality
Year: 2016
Subjects: fuzzy quality
quality control chart
manufacturing process

description: International Journal for Quality Research; Vol 10, No 3, 2016. ISSN 1800-6450
description: Such as other statistical problems, we may confront with uncertain and fuzzy concepts in quality control. One particular case in process capability analysis is a situation in which specification limits are two fuzzy sets. In such a
uncertain and vague environment, the produced product is not qualified with a two-valued Boolean view, but to some degree depending on the decision-maker strictness and the quality
level of the produced product. This matter can be cause to a rational decision-making on the quality of the production line. First, a comprehensive approach is presented in this paper for
modeling the fuzzy quality concept. Then, motivations and advantages of applying this flexible approach instead of using classical quality are mentioned.
INVESTIGATING THE ROLE OF PORTER DIAMOND DETERMINANTS FOR COMPETITIVENESS IN MSMEs
Creators: name: Kharub, Manjeet
name: Sharma, Rajiv Kumar
Publisher: name: Center for Quality
Year: 2016
Subjects: MSMEs
manufacturing firm
competitive advantage
Porter's Diamond

description: International Journal for Quality Research; Vol 10, No 3, 2016. ISSN 1800-6450
description: After the globalization of market the micro, small and medium enterprises (MSMEs) got numerous opportunities to work in integration with large-scale organizations. Competitive advantage plays a significant role in deciding how
organizations can exploit theses opportunities. So, the aim of this paper is to measure the competitive advantage of MSMEs based upon the Porter’s diamond model framework. A welldesigned
questionnaire is used to collect data about the various determinants of the model. Based upon the frequency of responses, percent point score (PPS) of each casual variable was calculated. By reviewing the result of this study, it is observed that competitiveness among MSME's sectors is mostly affected by market value. As is indicated by maximum PPS score e.g. 68%, followed by highly educated personnel, production and process technology (62%), further study
results indicate that there is a need to increase clusters i.e. related and supported industries as depicted by low score (PPS=49%).