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Sökning: WFRF:(Toth Ervin) > (2015-2019)

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  • Brown, Peter, et al. (författare)
  • Large expert-curated database for benchmarking document similarity detection in biomedical literature search
  • 2019
  • Ingår i: Database : the journal of biological databases and curation. - 1758-0463. ; 2019, s. 1-67
  • Tidskriftsartikel (refereegranskat)abstract
    • Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical science.
  • Haraldsson, E, et al. (författare)
  • Endoscopic classification of the papilla of Vater. Results of an inter- and intraobserver agreement study
  • 2017
  • Ingår i: United European Gastroenterology Journal. - SAGE Publications. - 2050-6406. ; 5:4, s. 504-510
  • Tidskriftsartikel (refereegranskat)abstract
    • Background: Many endoscopists acknowledge that the appearance of the papilla of Vater seems to affect biliary cannulation. To assess the association between the macroscopic appearance of the papilla and biliary cannulation and other related clinical issues, a system is needed to define the appearance of the papilla. Objective: The purpose of this study was to validate an endoscopic classification of the papilla of Vater by assessing the interobserver and intraobserver agreements among endoscopist with varying experience. Methods: An endoscopic classification, based on pictures captured from 140 different papillae, containing four types of papillae was proposed. The four types are (a) Type 1: regular papilla, no distinctive features, ‘classic appearance’; (b) Type 2: small papilla, often flat, with a diameter ≤ 3 mm (approximately 9 Fr); (c) Type 3: protruding or pendulous papilla, a papilla that is standing out, protruding or bulging into the duodenal lumen or sometimes hanging down, pendulous with the orifice oriented caudally; and (d) Type 4: creased or ridged papilla, where the ductal mucosa seems to extend distally, rather out of the papillary orifice, either on a ridge or in a crease. To assess the level of interobserver agreement, a web-based survey was sent out to 18 endoscopists, containing 50 sets of still images of the papilla, distributed between the four different types. Three months later a follow-up survey, with images from the first survey was sent to the same endoscopists. Results: Interobserver agreement was substantial (κ = 0.62, 95% confidence interval (CI) 0.58–0.65) and were similar for both experts and non-experts. The intraobserver agreement assessed with the second survey was also substantial (κ = 0.66, 95% CI 0.59–0.72). Conclusion: The proposed endoscopic classification of the papilla of Vater seems to be easy to use, irrespective of the level of experience of the endoscopist. It carries a substantial inter- and intraobserver agreement and now the clinical relevance of the four different papilla types awaits to be determined.
  • Haraldsson, Erik, et al. (författare)
  • Macroscopic appearance of the major duodenal papilla influences bile duct cannulation : a prospective multicenter study by the Scandinavian Association for Digestive Endoscopy Study Group for ERCP
  • 2019
  • Ingår i: Gastrointestinal Endoscopy. - Mosby. - 0016-5107. ; 90:6, s. 957-963
  • Tidskriftsartikel (refereegranskat)abstract
    • Background and Aims: Certain appearances of the major duodenal papilla have been claimed to make cannulation more difficult during ERCP. This study uses a validated classification of the endoscopic appearance of the major duodenal papilla to determine if certain types of papilla predispose to difficult cannulation. Methods: Patients with a naïve papilla scheduled for ERCP were included. The papilla was classified into 1 of 4 papilla types before cannulation started. Time to successful bile duct cannulation, attempts, and number of pancreatic duct passages were recorded. Difficult cannulation was defined as after 5 minutes, 5 attempts, or 2 pancreatic guidewire passages. Results: A total of 1401 patients were included from 9 different centers in the Nordic countries. The overall frequency of difficult cannulation was 42% (95% confidence interval [CI], 39%-44%). Type 2 small papilla (52%; 95% CI, 45%-59%) and type 3 protruding or pendulous papilla (48%; 95% CI, 42%-53%) were more frequently difficult to cannulate compared with type 1 regular papilla (36%; 95% CI, 33%-40%; both P <.001). If an inexperienced endoscopist started cannulation, the frequency of failed cannulation increased from 1.9% to 6.3% (P <.0001), even though they were replaced by a senior endoscopist after 5 minutes. Conclusions: The endoscopic appearance of the major duodenal papilla influences bile duct cannulation. Small type 2 and protruding or pendulous type 3 papillae are more frequently difficult to cannulate. In addition, cannulation might even fail more frequently if a beginner starts cannulation. These findings should be taken into consideration when performing studies regarding bile duct cannulation and in training future generations of endoscopists.
  • Iakovidis, Dimitris K., et al. (författare)
  • Robotic validation of visual odometry for wireless capsule endoscopy
  • 2016
  • Ingår i: 2016 IEEE International Conference on Imaging Systems and Techniques, IST 2016,Chania, Crete Island, Greece,2016-10-04 - 2016-10-06. - Institute of Electrical and Electronics Engineers Inc..
  • Konferensbidrag (refereegranskat)abstract
    • Wireless capsule endoscopy (WCE) is the prime diagnostic modality for the small-bowel. It consists in a swallowable color camera that enables the visual detection and assessment of abnormalities, without patient discomfort. The localization of the capsule is currently performed in the 3D abdominal space using radiofrequency (RF) triangulation. However, this approach does not provide sufficient information for the localization of the capsule, and therefore for the localization of the detected abnormalities, within the gastrointestinal (GI) lumen. To cope with this problem, we have recently proposed a method for visual tracking of the capsule endoscope (CE). It is based solely on visual features extracted from the captured images during the journey of the CE in the GI tract, enabling therefore visual odometry. Due to lack of ex-vivo or in-vivo ground truth data, the feasibility of that method was assessed using relative measurements in an image-based simulation experiment. In this paper, we make one step forward towards the assessment of the absolute localization capabilities of visual odometry using a calibrated in-vitro experimental setup. The obtained results validate the feasibility of the proposed approach, highlight the difficulty of this complex problem, and reveal the challenges ahead.
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