1,721,023 research outputs found
PANDA Challenge Analysis Code
No full textCode related to analysis of algorithms sourced through the PANDA challenge.
Main website: https://panda.grand-challenge.org/
Challenge platform: https://www.kaggle.com/c/prostate-cancer-grade-assessment
Study design: https://zenodo.org/record/3715938
Organizers and main study contributors: Wouter Bulten, Kimmo Kartasalo, Po-Hsuan Cameron Chen, Peter Ström, Hans Pinckaers, Kunal Nagpal, Yuannan Cai, David Steiner Hester van Boven, Robert Vink, Christina Hulsbergen-van de Kaa, Jeroen van der Laak, Hemamali Samaratunga, Brett Delahunt, Toyonori Tsuzuki, Tomi Häkkinen, Henrik Grönberg, Lars Egevad, Maggie Demkin, Sohier Dane, Lily Peng, Craig Mermel Pekka Ruusuvuori, Geert Litjens, Martin Eklun
Prognostic factors in prostate cancer: key elements in structured histopathology reporting of radical prostatectomy specimens
No full textProstate cancer is the most common visceral cancer and the second most common cause of cancer death in males. The number of radical prostatectomies performed each year is increasing and accurate data from the histopathological examination of these specimens aid clinicians in stratifying patients for surveillance and adjuvant therapies. This review focuses on the histopathological prognostic factors which should be routinely recorded in pathology reports and complements the Royal College of Pathologists of Australasia Structured Reporting Protocol for Prostate Cancer (Radical Prostatectomy). Such structured pathology reports have been shown to significantly enhance the completeness and quality of data provided to clinicians. The review also discusses the International Society for Urological Pathology Consensus Conference recommendations which were published recently.James G. Kench, David R. Clouston, Warick Delprado, Thomas Eade, David Ellis, Lisa G. Horvath, Hemamali Samaratunga, Jurgen Stahl, Alan M.F. Stapleton, Lars Egevad, John R. Srigley and Brett Delahun
Going Beyond Counting First Authors in Author Co-citation Analysis
Get PDFThe present study examines one of the fundamental aspects of author co-citation analysis (ACA) - the way co-citation
counts are defined. Co-citation counting provides the data on which all subsequent statistical analyses and mappings
are based, and we compare ACA results based on two different types of co-citation counting - the traditional type that
only counts the first one among a cited work's authors on the one hand and a non-traditional type that takes into
account the first 5 authors of a cited work on the other hand. Results indicate that the picture produced through this non-traditional author co-citation counting contains more coherent author groups and is therefore considerably clearer. However, this picture represents fewer specialties in the research field being studied than that produced through the traditional first-author co-citation counting when the same number of top-ranked authors is selected and analyzed. Reasons for these effects are discussed
Variations on the Author
Get PDF“Variations on the Author” discusses two of Eduardo Coutinho’s recent films (Um Dia na Vida, from 2010, and Últimas Conversas, posthumously released in 2015) and their contribution to the general question of documentary authorship. The director’s filmography is characterized by a consistent yet self-effacing form of authorial self-inscription: Coutinho often features as an interviewer that rather than express opinions propels discourses; an interviewer that is good at listening. This mode of self-inscription characterizes him as an author who is not expressive but who is nonetheless markedly present on the screen. In Um Dia na Vida, however, Coutinho is completely absent form the image, while Últimas Conversas, on the contrary, includes a confessional prologue that moves the director from the margins to the center of his films. This article examines the ways in which these works stand out in the filmography of a director who offers new insights into the notion of cinematic authorship
Appropriate Similarity Measures for Author Cocitation Analysis
Get PDFWe provide a number of new insights into the methodological discussion about author cocitation analysis. We first argue that the use of the Pearson correlation for measuring the similarity between authors’ cocitation profiles is not very satisfactory. We then discuss what kind of similarity measures may be used as an alternative to the Pearson correlation. We consider three similarity measures in particular. One is the well-known cosine. The other two similarity measures have not been used before in the bibliometric literature. Finally, we show by means of an example that our findings have a high practical relevance.information science;Pearson correlation;cosine;similarity measure;author cocitation analysis
Reinterpretation of prostate cancer pathology by Appl1, Sortilin and Syndecan-1 biomarkers
No full textThe diagnosis of prostate cancer using histopathology is reliant on the accurate interpretation of prostate tissue sections. Current standards rely on the assessment of Haematoxylin and Eosin (H&E) staining, which can be difficult to interpret and introduce inter-observer variability. Here, we present a digital pathology atlas and online resource of prostate cancer tissue micrographs for both H&E and the reinterpretation of samples using a novel set of three biomarkers as an interactive tool, where clinicians and scientists can explore high resolution histopathology from various case studies. The digital pathology prostate cancer atlas when used in conjunction with the biomarkers, will assist pathologists to accurately grade prostate cancer tissue samples.Jessica M. Logan, Carmela Martini, Alexandra Sorvina, Ian R. D. Johnson, RobertD. Brooks, MariaC.Caruso, ChelseaHuzzell, Courtney R. Moore, Litsa Karageorgos, Lisa M. Butler, PrernaTewari, Sarita Prabhakaran, Shane M.Hickey, Sonja Klebe, Hemamali Samaratunga, Brett Delahunt, Kim Moretti, John J.O, Leary, DouglasA. Brooks, Ben S.-Y. Un
Dispelling the Myths Behind First-author Citation Counts
Get PDFWe conducted a full-scale evaluative citation analysis study of scholars in the XML research field to explore just how different from each other author rankings resulting from different citation counting methods actually are, and to demonstrate the capability of emerging data and tools on the Web in supporting more realistic citation counting methods. Our results contest some common arguments for the continued
use of first-author citation counts in the evaluation of scholars, such as high correlations between author rankings by first-author citation counts and other citation
counting methods, and high costs of using more realistic citation counting methods that are not well-supported by the ISI databases. It is argued that increasingly available digital full text research papers make it possible for citation analysis studies to go beyond what the ISI databases have directly supported and to employ more
sophisticated methods
Artificial intelligence for streamlining prostate cancer diagnostics
No full textWith around 1.2 million cases per year, prostate cancer is the second most common cancer among men. It is usually a slow growing disease that affects older men. It is also a cancer that is heterogenous, often multifocal, and rarely show symptoms as long as it is localized. All these things make the disease difficult to detect, diagnose and study. The objective of this thesis is to develop and improve technologies for prostate cancer diagnostics and to acquire knowledge related to these technologies that directly translate to clinical utility.In Study I, we extended analysis of the multivariable diagnostic prediction model S3M by exploring the relative contribution from the individual predictors and evaluating the model in reflex setting where the test is only given to men positive on a PSA test. We also updated the list of included predictors and refitted the model to more data. In Study II, we digitized a substantial part of the biopsy cores collected from the men in study I. These images were used to develop and validate an AI for prostate cancer diagnostics by detecting, grading, and measuring the extent of cancer in the biopsies. The AI achieved nearly perfect detection of cancer and expert pathologist level grading of the biopsies. It also well predicted the total tumor burden of the patient. In Study III, we focused our attention on perineural invasion, a common finding in prostate biopsies. This study has added to the evidence that there is substantial and independent prognostic information in this finding and argued that it should be included as a compulsory part in pathology reporting guidelines for prostate biopsies. In Study IV, we developed an AI for detection and localization of perineural invasion in biopsies. The AI achieved high discriminative ability on an independent test set. We are currently collecting external data to validate these results in another environment and to compare the results of the AI against expert pathologists.In conclusion, the technologies developed in this thesis has shown promise in streamlining the clinical workload around prostate cancer detection and diagnostics. The thesis has also contributed to pieces of information related to these technologies.List of scientific papersI. Peter Ström, Tobias Nordström, Markus Aly, Lars Egevad, Henrik Grönberg, and Martin Eklund. The Stockholm-3 Model for Prostate Cancer Detection: Algorithm Update, Biomarker Contribution, and Reflex Test Potential. European Urology. 2018. https://doi.org/10.1016/j.eururo.2017.12.028 II. Peter Ström*, Kimmo Kartasalo*, Henrik Olsson, Leslie Solorzano, Brett Delahunt, DanielMBerney, David G Bostwick, Andrew J. Evans , David J Grignon, Peter A Humphrey, Kenneth A Iczkowski, James G Kench, Glen Kristiansen, Theodorus H van der Kwast, Katia RM Leite, Jesse K McKenney, Jon Oxley, Chin-Chen Pan, Hemamali Samaratunga, John R Srigley, Hiroyuki Takahashi, Toyonori Tsuzuki, Murali Varma, Ming Zhou, Johan Lindberg, Cecilia Lindskog, Pekka Ruusuvuori, Carolina Wählby, Henrik Grönberg, Mattias Rantalainen, Lars Egevad, and Martin Eklund. Artificial intelligence for diagnosis and grading of prostate cancer in biopsies: a population-based, diagnostic study. LANCET Oncology. 2019. *Equal contribution. https://doi.org/10.1016/S1470-2045(19)30738-7 III. Peter Ström, Tobias Nordström, Brett Delahunt, Hemamali Samaratunga, Henrik Grönberg, Lars Egevad, and Martin Eklund. Prognostic value of perineural invasion in prostate needle biopsies: a population-based study of patients treated by radical prostatectomy. Journal of Clinical Pathology. 2020. https://doi.org/10.1136/jclinpath-2019-206300 IV. Peter Ström, Kimmo Kartasalo, Pekka Ruusuvuori, Henrik Grönberg, Hemamali Samaratunga, Brett Delahunt, Toyonori Tsuzuki, Lars Egevad, and Martin Eklund. Detection of Perineural Invasion in Prostate Needle Biopsies with Deep Neural Networks. [Manuscript]</p
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