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Large expert-curated database for benchmarking document similarity detection in biomedical literature search
Faculty
Veterinary Medicine
Year:
2019
Type of Publication:
ZU Hosted
Pages:
Authors:
Yasser Hosny Ali Elewa
Staff Zu Site
Abstract In Staff Site
Journal:
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION OXFORD UNIV PRESS, GREAT CLARENDON ST, OXFORD OX2 6DP, ENGLAND
Volume:
Keywords :
Large expert-curated database , benchmarking document similarity
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 research.
Author Related Publications
Yasser Hosny Ali Elewa, "Local CD34-positive capillaries decrease in mouse models of kidney disease associating with the severity of glomerular and tubulointerstitial lesions", Springer Nature, 2017
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Yasser Hosny Ali Elewa, "Morphological Features of the Testis among Autoimmune Mouse Model and Healthy Strains", CAMBRIDGE UNIV PRESS, 32 AVENUE OF THE AMERICAS, NEW YORK, NY 10013-2473 USA, 2021
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Yasser Hosny Ali Elewa, "Engineered epsilon-decalactone lipomers bypass the liver to selectively in vivo deliver mRNA to the lungs without targeting ligands", ROYAL SOC CHEMISTRY, THOMAS GRAHAM HOUSE, SCIENCE PARK, MILTON RD, CAMBRIDGE CB4 0WF, CAMBS, ENGLAND, 2021
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Yasser Hosny Ali Elewa, "Albendazole-loaded cubosomes interrupt the ERK1/2-HIF-1 alpha-p300/CREB axis in mice intoxicated with diethylnitrosamine: A new paradigm in drug repurposing for the inhibition of hepatocellular carcinoma progression", ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER, 65 RUE CAMILLE DESMOULINS, CS50083, 92442 ISSY-LES-MOULINEAUX, FRANCE, 2021
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Yasser Hosny Ali Elewa, "Comparison of Ovarian Morphology and Follicular Disturbances between Two Inbred Strains of Cotton Rats (Sigmodon hispidus)", MDPI, ST ALBAN-ANLAGE 66, CH-4052 BASEL, SWITZERLAND, 2021
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Department Related Publications
Yasser Hosny Ali Elewa, "Local CD34-positive capillaries decrease in mouse models of kidney disease associating with the severity of glomerular and tubulointerstitial lesions", Springer Nature, 2017
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Nesma Ibrahim Mohamed Ali, "Appraisal of sub-chronic exposure to lambada-cyhalothrin and/or methomyl on the behavior and hepato-renal functioning in Oreochromis niloticus: Supportive role of taurine-supplemented feed", Elseviere, 2022
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Yasser Hosny Ali Elewa, "Morphological Features of the Testis among Autoimmune Mouse Model and Healthy Strains", CAMBRIDGE UNIV PRESS, 32 AVENUE OF THE AMERICAS, NEW YORK, NY 10013-2473 USA, 2021
More
Yasser Hosny Ali Elewa, "Engineered epsilon-decalactone lipomers bypass the liver to selectively in vivo deliver mRNA to the lungs without targeting ligands", ROYAL SOC CHEMISTRY, THOMAS GRAHAM HOUSE, SCIENCE PARK, MILTON RD, CAMBRIDGE CB4 0WF, CAMBS, ENGLAND, 2021
More
Yasser Hosny Ali Elewa, "Albendazole-loaded cubosomes interrupt the ERK1/2-HIF-1 alpha-p300/CREB axis in mice intoxicated with diethylnitrosamine: A new paradigm in drug repurposing for the inhibition of hepatocellular carcinoma progression", ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER, 65 RUE CAMILLE DESMOULINS, CS50083, 92442 ISSY-LES-MOULINEAUX, FRANCE, 2021
More
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