Full text and figure display improves bioscience literature search

PLoS ONE

Volumn 5, Issue 4, 2010, Pages

  Divoli, Anna ^a,b   Wooldridge, Michael A ^a   Hearst, Marti A ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CHICAGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; BIOCHEMISTRY; GENETIC TRANSCRIPTION; INFORMATION PROCESSING; INTERNET; MEDICAL LITERATURE; MEDLINE; NUCLEOTIDE SEQUENCE; PHENOTYPE; PROTEIN DATABASE; QUALITATIVE ANALYSIS; SEARCH ENGINE; SUPPORT VECTOR MACHINE; BIBLIOGRAPHIC DATABASE; COMPUTER GRAPHICS; COMPUTER INTERFACE; DOCUMENTATION; INFORMATION RETRIEVAL; PUBLICATION;

ABSTRACTING AND INDEXING AS TOPIC; COMPUTER GRAPHICS; DATABASES, BIBLIOGRAPHIC; INFORMATION STORAGE AND RETRIEVAL; PUBLICATIONS; PUBMED; SEARCH ENGINE; USER-COMPUTER INTERFACE;

EID: 77956324768     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0009619     Document Type: Article

References (38)

1. Hearst MA, Divoli A, Guturu H, Ksikes A, Nakov P, et al. (2007) BioText Search Engine: beyond abstract search. Bioinformatics 23(16): 2196-7.
2. Lin J, DiCuccio M, Grigoryan V, Wilbur WJ (2008) Navigating information spaces: A case study of related article search in PubMed. Information Processing and Management.
3. Lin J, Wilbur WJ (2007) PubMed related articles: a probabilistic topic-based model for content similarity. BMC Bioinformatics 8: 423.
4. Hirschman L, Yeh A, Blaschke C, Valencia A (2005) Overview of BioCreAtIvE: critical assessment of information extraction for biology. BMC Bioinformatics 6 Suppl 1: S1.
5. Krallinger M, Morgan A, Smith L, Leitner F, Tanabe L, et al. (2008) Evaluation of text-mining systems for biology: overview of the Second BioCreative community challenge. Genome Biol 9 Suppl 2: S1.
6. Hoffmann R, Valencia A (2004) A gene network for navigating the literature. Nat Genet 36(7): 664.
7. Chen H, Sharp BM (2004) Content-rich biological network constructed by mining PubMed abstracts. BMC Bioinformatics 5: 147.
8. Shah PK, Perez-Iratxeta C, Bork P, Andrade MA (2003) Information extraction from full text scientific articles: where are the keywords? BMC Bioinformatics 4: 20.
9. Hersh W, Cohen AM, Roberts P, Rekapalli HK (2006) TREC 2006 genomics track overview, in The Fifteenth Text Retrieval Conference 2006.
10. Yeh AS, Hirschman L, Morgan AA (2003) Evaluation of text data mining for database curation: lessons learned from the KDD Challenge Cup. Bioinformatics 19 Suppl 1: i331-9.
11. Hearst MA, Divoli A, Ye J, Wooldridge MA (2007) Exploring the Efficacy of Caption Search for Bioscience Journal Search Interfaces. in Proceedings of BioNLP 2007, a workshop of ACL 2007.
12. Srihari R (1991) PICTION: A System that Uses Captions to Label Human Faces in Newspaper Photographs. in Proceedings AAAI-91.
13. Srihari R (1995) Automatic indexing and content-based retrieval of captioned images. Computer 1995 28(9): 49-56.
14. Shatkay H, Chen N, Blostein D (2006) Integrating image data into biomedical text categorization. Bioinformatics 22(14): e446-53.
15. Cohen W, Wang R, Murphy R (2003) Understanding captions in biomedical publications. in Proceedings of the ninth ACM SIGKDD international conference on Knowledge discovery and data mining.
16. Murphy R, Velliste M, Porreca G (2003) Robust Numerical Features for Description and Classification of Sub-cellular Location Patterns in Fluorescence Microscope Images. The Journal of VLSI Signal Processing 35(3): 311-321.
17. Qian Y, Murphy RF (2008) Improved recognition of figures containing fluorescence microscope images in online journal articles using graphical models. Bioinformatics 24(4): 569-76.
18. Liu F, Jenssen TK, Nygaard V, Sack J, Hovig E (2004) FigSearch: a figure legend indexing and classification system. Bioinformatics 20(16): 2880-2.
19. Rafkind B, Lee M, Chang S, Yu H (2006) Exploring text and image features to classify images in bioscience literature. in Proceedings of the BioNLP Workshop on Linking Natural Language Processing and Biology at HLT-NAACL.
20. Yu H, Lee M (2006) Accessing bioscience images from abstract sentences. Bioinformatics 22(14): e547-56.
21. Yu H, Agarwal S, Johnston M, Cohen A (2009) Are figure legends sufficient? Evaluating the contribution of associated text to biomedical figure comprehension. J BiomedDiscov Collab 4: 1.
22. Christiansen A, Lee D, Chang Y (2007) Finding relevant PDF medical journal articles by the content of their figures. in Proceedings of SPIE.
23. Deserno T, Antani S, Long R (2007) Exploring access to scientific literature using content-based image retrieval. in Proceedings SPIE.
24. Xu S, McCusker J, Krauthammer M (2008) Yale Image Finder (YIF): a new search engine for retrieving biomedical images. Bioinformatics 24(17): 1968-70.
25. Guan Z, Cutrell E (2007) An eye tracking study of the effect of target rank on web search. In Proceedings of the SIGCHI Conference on Human Factors in Computing Systems (CHI'07), ACM Press New York, NY, USA.
26. Kaisser M, Hearst M, Lowe J (2008) Improving Search Results Quality by Customizing Summary Lengths. in Proceedings of the 46th Annual Meeting of the Association for Computational Linguistics: Human Language Technlogies (ACL-HLT'08).
27. Czerwinski M, van Dantzich M, Robertson G, Hoffman H (1999) The contribution of thumbnail image, mouse-over text and spatial location memory to web page retrieval in 3D. in Proceedings of Human-Computer Interaction (INTERACT'99).
28. Dziadosz S, Chandrasekar R (2002) Do Thumbnail Previews Help Users Make Better Relevance Decisions about Web Search Results. in Proceedings of the 25th Annual International ACM SIGIR Conference on Research and development in information retrieval (SIGIR'02).
29. Kaasten S, Greenberg S, Edwards C (2002) How People Recognise Previously Seen Web Pages from Titles, URLs and Thumbnails. People and Computers. pp 247-266.
30. iProspect: iProspect Search Engine User Behavior Study (2006) [cited; Available from: http://www.iprospect.com/about/searchenginemarketingwhitepapers.htm].
31. Agichtein E, Brill E, Dumais S, Ragno R (2006) Learning User Interaction Models For Predicting Web Search Result Preferences. in Proceedings of the 29th Annual International ACM SIGIR Conference on Research and development in information retrieval (SIGIR'06).
32. Hearst M (2009) Search User Interfaces. Cambridge University Press.
33. Sun H, Zhang P (2006) The role of moderating factors in user technology acceptance. International Journal of Human-Computer Studies 64(2): 53-78.
34. Venkatesh V, Morris M (2003) User Acceptance of Information Technology: Toward a Unified View. Management Information Systems Quarterly 27: 18.
35. Hearst M, Elliott A, English J, Sinha R, Swearingen K, et al. (2002) Finding the flow in web site search. Communications of the ACM 45(9): 42-49.
36. Yee K, Swearingen K, Li K, Hearst M (2003) Faceted metadata for image search and browsing. in Proceedings of the SIGCHI conference on Human factors in computing systems, ACM New York, NY, USA.
37. Boren M, Ramey J (2000) Thinking Aloud: Reconciling Theory And Practice. IEEE Transactions On Professional Communication 43(3): 261.
38. Divoli A, Hearst MA, Wooldridge MA (2008) Evidence for showing gene/protein name suggestions in bioscience literature search interfaces, in Pac Symp Biocomput. pp 568-79.