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Rediscovering Don Swanson:The Past, Present and Future of Literature-based Discovery Cover

Rediscovering Don Swanson:The Past, Present and Future of Literature-based Discovery

Open Access
|Dec 2017

References

  1. Agarwal, S., Yu, H., &amp; Kohane, I. (2011). BioNØT: A searchable database of biomedical negated sentences. BMC Bioinformatics, 12:420. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-12-420#Abs1">https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-12-420#Abs1</ext-link>.<pub-id pub-id-type="pmid">22032181</pub-id>
  2. Baek, S.H., Lee, D., Kim, M., Lee, J.H., &amp; Song, M. (2017). Enriching plausible new hypothesis generation in PubMed. PLoS ONE, 12(7), e0180539.<pub-id pub-id-type="pmid">28678852</pub-id>
  3. Bekhuis, T. (2006). Conceptual biology, hypothesis discovery, and text mining: Swanson’s legacy. Biomedical Digital Libraries, 3:2. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://bio-diglib.biomedcentral.com/articles/10.1186/1742-5581-3-2">https://bio-diglib.biomedcentral.com/articles/10.1186/1742-5581-3-2</ext-link>.
  4. Bruza, P., &amp; Weeber, M. (Eds.) (2008). Literature-based discovery. Berlin: Springer-Verlag.
  5. Cairelli, M.J., Miller, C.M., Fiszman, M., Workman, T.E., &amp; Rindflesch, T.C. (2013). Semantic MEDLINE for discovery browsing: Using semantic predications and the literature-based discovery paradigm to elucidate a mechanism for the obesity paradox. In AMIA Annual Symposium Proceedings (pp. 164–173). Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://europepmc.org/articles/PMC3900170">http://europepmc.org/articles/PMC3900170</ext-link>.
  6. Cameron, D., Kavuluru, R., Rindflesch, T.C., Sheth, A.P., Thirunarayan, K., &amp; Bodenreider, O. (2015). Context-driven automatic subgraph creation for literature-based discovery. Journal of Biomedical Informatics, 54 (C), 141–157.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.jbi.2015.01.014" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2015.01.014</a></pub-id><pub-id pub-id-type="pmid">25661592</pub-id>
  7. Cohen, K.B., Johnson, H.L., Verspoor, K., Roeder, C., &amp; Hunter, L.E. (2010). The structural and content aspects of abstracts versus bodies of full text journal articles are different. BMC Bioinformatics, 11: 492. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="<a href="https://doi.org/10.1186/1471-2105-11-492" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">https://doi.org/10.1186/1471-2105-11-492</a>">https://doi.org/10.1186/1471-2105-11-492</ext-link>.<pub-id pub-id-type="pmid">20920264</pub-id>
  8. Cohen, T., Whitfield, G.K., Schvaneveldt, R.W., Mukund, K., &amp; Rindflesch, T. (2010). EpiphaNet: An interactive tool to support biomedical discoveries. Journal of Biomed Discovery Collaboration, 5(1), 21–49.
  9. Cohen, T., &amp; Widdows, D. (2009). Empirical distributional semantics: Methods and biomedical applications. Journal of Biomed Information, 42(2), 390–405.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.jbi.2009.02.002" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2009.02.002</a></pub-id>
  10. Cohen, T., &amp; Widdows, D. (2017). Embedding of semantic predications. Journal of Biomed Information, 68, 150–166.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.jbi.2017.03.003" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2017.03.003</a></pub-id>
  11. Cole, R., &amp; Bruza, P. (2005). A bare bones approach to literature-based discovery: An analysis of the Raynaud’s/Fish-oil and migraine-magnesium discoveries in semantic space. In A. Hoffmann, H. Motoda, &amp; T. Scheffer (Eds.), Discovery Science (pp. 84–98). Berlin: Springer-Verlag.
  12. Ding, Y., Song, M., Han, J., Yu, Q., Yan, E., Lin, L., &amp; Chambers, T. (2013). Entitymetrics: Measuring the impact of entities. PLoS ONE, 8(8), e71416.<pub-id pub-id-type="pmid">24009660</pub-id>
  13. Dong, W., Liu, Y., Zhu, W., Mou, Q., Wang, J., &amp; Hu, Y. (2014). Simulation of Swanson’s literature-based discovery: Anandamide treatment inhibits growth of gastric cancer cells in vitro and in silico. PLoS ONE, 9(6), e100436.<pub-id pub-id-type="pmid">24949851</pub-id>
  14. Frijters, R., van Vugt, M., Smeets, R., van Schaik, R., de Vlieg, J., &amp; Alkema, W. (2010). Literature mining for the discovery of hidden connections between drugs, genes and diseases. PLoS Computational Biology, 6(9), e1000943.
  15. Gordon, M.D. &amp; Dumais, S. (1998). Using latent semantic indexing for literature based discovery. Journal of the American Society for Information Science, 49(8), 674–685.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1002/(SICI)1097-4571(199806)49:8&lt" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1002/(SICI)1097-4571(199806)49:8&lt</a>;674::AID-ASI2&gt;3.0.CO;2-T</pub-id>
  16. Hossain, M.S., Gresock, J., Edmonds, Y., Helm, R., Potts, M., &amp; Ramakrishnan, N. (2012). Connecting the dots between PubMed abstracts. PLoS ONE, 7(1), e29509.<pub-id pub-id-type="pmid">22235301</pub-id>
  17. Hristovski, D., Kastrin, A., Dinevski, D., &amp; Rindflesch, T.C. (2015). Constructing a graph database for semantic literature-based discovery. Studies in Health Technology and Informatics, 216:1094. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://www.ncbi.nlm.nih.gov/pubmed/26262393">https://www.ncbi.nlm.nih.gov/pubmed/26262393</ext-link>.<pub-id pub-id-type="pmid">26262393</pub-id>
  18. Hristovski, D., Kastrin, A., Dinevski, D., Burgun, A., Žiberna, L., &amp; Rindflesch, TC. (2016). Using literature-based discovery to explain adverse drug effects. Journal of Medical Systems, 40(8), 185.<pub-id pub-id-type="pmid">27318993</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1007/s10916-016-0544-z" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1007/s10916-016-0544-z</a></pub-id>
  19. Ioannidis, J.P. (2005). Why most published research findings are false. PLoS Medicine, 2(8), e124.<pub-id pub-id-type="pmid">16060722</pub-id>
  20. Jonnalagadda, S.R., Goyal, P., &amp; Huffman, M.D. (2015). Automating data extraction in systematic reviews: A systematic review. System Review, 4:78. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="<a href="https://doi.org/10.1186/s13643-015-0066-7" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">https://doi.org/10.1186/s13643-015-0066-7</a>">https://doi.org/10.1186/s13643-015-0066-7</ext-link>.
  21. Kastrin, A., Rindflesch, T.C., &amp; Hristovski, D. (2016). Link prediction on a network of cooccurring MeSH Terms: Towards literature-based discovery. Methods of Information in Medicine, 55(4), 340–346.<pub-id pub-id-type="doi"><a href="https://doi.org/10.3414/ME15-01-0108" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.3414/ME15-01-0108</a></pub-id>
  22. Kell, D.B. (2009). Iron behaving badly: Inappropriate iron chelation as a major contributor to the aetiology of vascular and other progressive inflammatory and degenerative diseases. BMC Medical Genomics, 2:2. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://doi.org/<a href="https://doi.org/10.1186/1755-8794-2-2" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1186/1755-8794-2-2</a>">http://doi.org/<a href="https://doi.org/10.1186/1755-8794-2-2" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1186/1755-8794-2-2</a></ext-link>
  23. Kilicoglu, H. (2017). Biomedical text mining for research rigor and integrity: Tasks, challenges, directions. Brief Bioinform, bbx057. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="<a href="https://doi.org/10.1093/bib/bbx057" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">https://doi.org/10.1093/bib/bbx057</a>">https://doi.org/10.1093/bib/bbx057</ext-link>.
  24. Kostoff, R.N., Block, J.A., Solka, J.L., Briggs, M.B., Rushenberg, R.L., Stump, J.A., Johnson, D., Lyons, T. J. &amp; Wyatt, J.R. (2009). Literature-related discovery. Annual Review of Information Science and Technology, 43(1), 1–71.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1002/aris.2009.1440430112" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1002/aris.2009.1440430112</a></pub-id>
  25. Lugli, G., Larson, J., Martone, M.E., Jones, Y., &amp; Smalheiser, N.R. (2005). Dicer and eIF2c are enriched at postsynaptic densities in adult mouse brain and are modified by neuronal activity in a calpain-dependent manner. Journal Neurochem, 94(4), 896–905.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1111/j.1471-4159.2005.03224.x" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1111/j.1471-4159.2005.03224.x</a></pub-id>
  26. Manev, H., &amp; Manev, R. (2010). Benefits of neuropsychiatric phenomics: Example of the 5-lipoxygenase-leptin-Alzheimer connection. Cardiovasc Psychiatry Neurol, No. 838164. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://dx.doi.org/<a href="https://doi.org/10.1155/2010/838164" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1155/2010/838164</a>">http://dx.doi.org/<a href="https://doi.org/10.1155/2010/838164" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1155/2010/838164</a></ext-link>.
  27. Maver, A., Hristovski, D., Rindflesch, T.C., &amp; Peterlin, B. (2013). Integration of data from Omic studies with the literature-based discovery towards identification of Novel treatments for neovascularization in diabetic retinopathy. BioMed Research International, No. 848952. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://doi.org/<a href="https://doi.org/10.1155/2013/848952" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1155/2013/848952</a>">http://doi.org/<a href="https://doi.org/10.1155/2013/848952" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1155/2013/848952</a></ext-link>.
  28. Mikolov, T., Sutskever, I., Chen, K., Corrado, G.S., &amp; Dean, J. (2013). Distributed representations of words and phrases and their compositionality. In Advances in Neural Information Processing Systems 26 (NIPS 2013). Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://papers.nips.cc/paper/5021-distributed-representations-of-words-and-phrases-and-their-compositionality">http://papers.nips.cc/paper/5021-distributed-representations-of-words-and-phrases-and-their-compositionality</ext-link>.
  29. Miller, C.M., Rindflesch, T.C., Fiszman, M., Hristovski, D., Shin, D., Rosemblat, G., Zhang, H., &amp; Strohl, K.P. (2012). A closed literature-based discovery technique finds a mechanistic link between hypogonadism and diminished sleep quality in aging men. Sleep, 35(2), 279–285.<pub-id pub-id-type="pmid">22294819</pub-id>
  30. Mishra, S., &amp; Torvik, V.I. (2016). Quantifying conceptual novelty in the biomedical literature. D-Lib Magazine, 22, No. 9/10. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://www.dlib.org/dlib/september16/mishra/09mishra.html">http://www.dlib.org/dlib/september16/mishra/09mishra.html</ext-link>.
  31. Mower, J., Subramanian, D., Shang, N., &amp; Cohen, T. (2016). Classification-by-analogy: Using vector representations of implicit relationships to identify plausibly causal drug/side-effect relationships. AMIA Annual Symposium Proceedings, 1940–1949.
  32. O’Mara-Eves, A., Thomas, J., McNaught, J., Miwa, M., &amp; Ananiadou S. (2015). Using text mining for study identification in systematic reviews: A systematic review of current approaches. System Review, 4:5. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="<a href="https://doi.org/10.1186/2046-4053-4-5" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">https://doi.org/10.1186/2046-4053-4-5</a>">https://doi.org/10.1186/2046-4053-4-5</ext-link>.
  33. Packalen, M., &amp; Bhattacharya, J. (2015). Neophilia ranking of scientific journals. NBER Working Paper No. w21579. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://ssrn.com/abstract=2663237">https://ssrn.com/abstract=2663237</ext-link>.
  34. Peng, Y., Bonifield, G., &amp; Smalheiser, N.R. (2017). Gaps within the biomedical literature: Initial characterization and assessment of strategies for discovery. Frontiers in Research Metrics and Analytics, 2:3. Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://www.frontiersin.org/articles/10.3389/frma.2017.00003/full">https://www.frontiersin.org/articles/10.3389/frma.2017.00003/full</ext-link>.
  35. Popper, K.R. (1978). Three worlds. The tanner lecture on human values. The University of Michigan. Ann Arbor. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://tannerlectures.utah.edu/_documents/a-to-z/p/popper80.pdf">http://tannerlectures.utah.edu/_documents/a-to-z/p/popper80.pdf</ext-link>.
  36. Pennington, J., Socher, R., &amp; Manning, C.D. (2014, October). Glove: Global vectors for word representation. In Conference on Empirical Methods in Natural Lanugage Processing, Vol. 14 (pp. 1532–1543). Retrieved on August 9, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://www.aclweb.org/anthology/D14-1162">http://www.aclweb.org/anthology/D14-1162</ext-link>.
  37. Petrič, I., Cestnik, B., Lavrač, N., &amp; Urbančič, T. (2010). Outlier detection in cross-context link discovery for creative literature mining. The Computer Journal, 55(1), 47–61.
  38. Preiss, J., &amp; Stevenson, R. (2016). The effect of word sense disambiguation accuracy on literature based discovery. BMC Medical Informatics and Decision Making,16(1), 59–63.
  39. Rzhetsky, A., Iossifov, I., Loh, J.M., &amp; White, K.P. (2006). Microparadigms: Chains of collective reasoning in publications about molecular interactions. Proceedings of the National Academy of Sciences of the United States of America, 103(13), 4940–4945.<pub-id pub-id-type="pmid">16543380</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1073/pnas.0600591103" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1073/pnas.0600591103</a></pub-id>
  40. Sebastian, Y., Siew, E.G., &amp; Orimaye, S.O. (2017a). Emerging approaches in literature-based discovery: Techniques and performance review. Knowledge Engineering Review, 32, article no. e12. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="<a href="https://doi.org/10.1017/S0269888917000042" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">https://doi.org/10.1017/S0269888917000042</a>">https://doi.org/10.1017/S0269888917000042</ext-link>.
  41. Sebastian, Y., Siew, E.G., &amp; Orimaye, S.O. (2017b). Learning the heterogeneous bibliographic information network for literature-based discovery. Knowledge-Based Systems, 115, 66–79.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.knosys.2016.10.015" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.knosys.2016.10.015</a></pub-id>
  42. Shang, N., Xu, H., Rindflesch, T.C., &amp; Cohen, T. (2014). Identifying plausible adverse drug reactions using knowledge extracted from the literature. Journal of Biomedical Informatics, 52, 293–310. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://doi.org/<a href="https://doi.org/10.1016/j.jbi.2014.07.011" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2014.07.011</a>">http://doi.org/<a href="https://doi.org/10.1016/j.jbi.2014.07.011" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2014.07.011</a></ext-link>.<pub-id pub-id-type="pmid">25046831</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.jbi.2014.07.011" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2014.07.011</a></pub-id>
  43. Shi, C., Li, Y., Zhang, J., Sun, Y., &amp; Philip, S.Y. (2017). A survey of heterogeneous information network analysis. IEEE Transactions on Knowledge and Data Engineering, 29(1), 17–37.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1109/TKDE.2016.2598561" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1109/TKDE.2016.2598561</a></pub-id>
  44. Smalheiser, N.R. (2007). Exosomal transfer of proteins and RNAs at synapses in the nervous system. Biology Direct, 2(1), 35.<pub-id pub-id-type="pmid">18053135</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1186/1745-6150-2-35" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1186/1745-6150-2-35</a></pub-id>
  45. Smalheiser, N.R. (2012a). The search for endogenous siRNAs in the mammalian brain. Experimental Neurology, 235(2), 455–463.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.expneurol.2011.10.015" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.expneurol.2011.10.015</a></pub-id>
  46. Smalheiser, N.R. (2012b). Literature-based discovery: Beyond the ABCs. Journal of the Association for Information Science and Technology, 63(2), 218–224.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1002/asi.21599" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1002/asi.21599</a></pub-id>
  47. Smalheiser, N.R. (2014). The RNA-centred view of the synapse: Non-coding RNAs and synaptic plasticity. Philosophical Transactions of the Royal Society B Biological Sciences, 369(1652).
  48. Smalheiser, N.R. (2017). Data literacy: How to make your experiments robust and reproducible. Cambridge, MA: Academic Press.
  49. Smalheiser, N.R., &amp; Gomes, O.L. (2014). Mammalian Argonaute-DNA binding? Direct, 10:27. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://biologydirect.biomedcentral.com/articles/10.1186/s13062-014-0027-4">https://biologydirect.biomedcentral.com/articles/10.1186/s13062-014-0027-4</ext-link>.
  50. Smalheiser, N.R., Manev, H., &amp; Costa, E. (2001). RNAi and brain function: Was McConnell on the right track? Trends in Neurosciences, 24(4), 216–218.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/S0166-2236(00)01739-2" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/S0166-2236(00)01739-2</a></pub-id><pub-id pub-id-type="pmid">11250005</pub-id>
  51. Smalheiser, N.R., &amp; Swanson, D.R. (1994). Assessing a gap in the biomedical literature: Magnesium deficiency and neurologic disease. Neuroscience Research Communications, 15(1), 1–9.
  52. Smalheiser, N.R., &amp; Swanson, D.R. (1996a). Indomethacin and Alzheimer’s disease. Neurology, 46(2), 583.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1212/WNL.46.2.583" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1212/WNL.46.2.583</a></pub-id>
  53. Smalheiser, N.R., &amp; Swanson, D.R. (1996b). Linking estrogen to Alzheimer’s disease: An informatics approach. Neurology, 47(3), 809–810.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1212/WNL.47.3.809" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1212/WNL.47.3.809</a></pub-id>
  54. Smalheiser, N.R., &amp; Swanson, D.R. (1998). Calcium-independent phospholipase A2 and schizophrenia. Archives of General Psychiatry, 55(8), 752–753.<pub-id pub-id-type="pmid">9707387</pub-id>
  55. Smalheiser, N.R., &amp; Torvik, V.I. (2004). A population-based statistical approach identifies parameters characteristic of human microRNA-mRNA interactions. BMC Bioinformatics, 5:139. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="<a href="https://doi.org/10.1186/1471-2105-5-139" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">https://doi.org/10.1186/1471-2105-5-139</a>">https://doi.org/10.1186/1471-2105-5-139</ext-link>.
  56. Smalheiser, N.R., &amp; Torvik, V.I. (2005). Mammalian microRNAs derived from genomic repeats. Trends in Genetics, 21(6), 322–326.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.tig.2005.04.008" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.tig.2005.04.008</a></pub-id>
  57. Swanson, D.R. (1986a). Undiscovered public knowledge. Library Quarterly, 56(2), 103–118.
  58. Swanson, D.R. (1986b). Fish oil, Raynaud’s syndrome, and undiscovered public knowledge. Perspectives in Biology &amp; Medicine, 30(1), 7–18.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1353/pbm.1986.0087" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1353/pbm.1986.0087</a></pub-id>
  59. Swanson, D.R. (1987). Two medical literatures that are logically but not bibliographically connected. Journal of the American Society for Information Science, 38(4), 228–233.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1002/(SICI)1097-4571(198707)38:4&lt" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1002/(SICI)1097-4571(198707)38:4&lt</a>;228::AID-ASI2&gt;3.0.CO;2-G</pub-id>
  60. Swanson, D.R. (1988). Migraine and magnesium: Eleven neglected connections. Perspectives in Biology &amp; Medicine, 31(4), 526–557.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1353/pbm.1988.0009" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1353/pbm.1988.0009</a></pub-id>
  61. Swanson, D.R. (1990). Somatomedin C and arginine: Implicit connections between mutually-isolated literatures. Perspectives in Biology &amp; Medicine, 33(2), 157–186.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1353/pbm.1990.0031" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1353/pbm.1990.0031</a></pub-id>
  62. Swanson, D.R. (1993). Intervening in the life cycles of scientific knowledge. Library Trends, 41(4), 606–631.
  63. Swanson, D.R. (2006). Atrial fibrillation in athletes: Implicit literature-based connections suggest that overtraining and subsequent inflammation may be a contributory mechanism. Medical Hypotheses, 66(6), 1085–92.<pub-id pub-id-type="pmid">16504414</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.mehy.2006.01.006" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.mehy.2006.01.006</a></pub-id>
  64. Swanson, D.R. (2011). Literature-based resurrection of neglected medical discoveries. Journal of Biomedical Discovery &amp; Collaboration, 6(6), 34–47.<pub-id pub-id-type="doi"><a href="https://doi.org/10.5210/disco.v6i0.3515" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.5210/disco.v6i0.3515</a></pub-id>
  65. Swanson, D.R., &amp; Smalheiser, N.R. (1997). An interactive system for finding complementary literatures: A stimulus to scientific discovery. Artificial Intelligence, 91(2), 183–203.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/S0004-3702(97)00008-8" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/S0004-3702(97)00008-8</a></pub-id>
  66. Swanson, D.R., Smalheiser, N.R., &amp; Bookstein, A. (2001). Information discovery from complementary literatures: Categorizing viruses as potential weapons. Journal of the American Society for Information Science and Technology, 52(10), 797–812.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1002/asi.1135" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1002/asi.1135</a></pub-id>
  67. Torvik, V.I., &amp; Smalheiser, N.R. (2007). A quantitative model for linking two disparate sets of articles in Medline. Bioinformatics, 23(13), 1658–1665.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1093/bioinformatics/btm161" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1093/bioinformatics/btm161</a></pub-id><pub-id pub-id-type="pmid">17463015</pub-id>
  68. Uzzi, B., Mukherjee, S., Stringer, M., &amp; Jones, B. (2013). Atypical combinations and scientific impact. Science, 342 (6157), 468–472.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1126/science.1240474" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1126/science.1240474</a></pub-id><pub-id pub-id-type="pmid">24159044</pub-id>
  69. van der Eijk, C.C., van Mulligen, E.M., Kors, J.A., Mons, B., &amp; van den Berg, J. (2004). Constructing an associative concept space for literature—based discovery. Journal of the Association for Information Science and Technology, 55(5), 436–444.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1002/asi.10392" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1002/asi.10392</a></pub-id>
  70. Vos, R., Aarts, S., van Mulligen, E., Metsemakers, J., van Boxtel, M.P., Verhey, F., &amp; van den Akker, M. (2014). Finding potentially new multimorbidity patterns of psychiatric and somatic diseases: Exploring the use of literature-based discovery in primary care research. Journal of the American Medical Informatics Association, 21(1), 139–145.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1136/amiajnl-2012-001448" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1136/amiajnl-2012-001448</a></pub-id>
  71. Weeber, M., Vos, R., Klein, H., de Jong-van den Berg, L.T.W., Aronson, A.R., &amp; Molema, G. (2003). Generating hypotheses by discovering implicit associations in the literature: A case report of a search for new potential therapeutic uses for thalidomide. Journal of the American Medical Informatics Association, 10(3), 252–259.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1197/jamia.M1158" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1197/jamia.M1158</a></pub-id>
  72. Widdows, D., &amp; Cohen, T. (2015). Reasoning with vectors: A continuous model for fast robust inference. Logic Journal of the IGPL, 23(2), 141–73.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1093/jigpal/jzu028" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1093/jigpal/jzu028</a></pub-id><pub-id pub-id-type="pmid">26582967</pub-id>
  73. Wren, J.D. (2004). Extending the mutual information measure to rank inferred literature relationships. BMC Bioinformatics, 5:145. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://www.ncbi.nlm.nih.gov/pubmed/15471547">https://www.ncbi.nlm.nih.gov/pubmed/15471547</ext-link>.
  74. Wren, J.D., Bekeredjian, R., Stewart, J.A., Shohet, R.V., &amp; Garner, H.R. (2004). Knowledge discovery by automated identification and ranking of implicit relationships. Bioinformatics, 20(3), 389–398.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1093/bioinformatics/btg421" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1093/bioinformatics/btg421</a></pub-id><pub-id pub-id-type="pmid">14960466</pub-id>
  75. Wolchover, N. (2017). A long-sought proof, found and almost lost. Quanta Magazine March 28, 2017. Retrieved on July 17, 2017, from <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="https://www.quantamagazine.org/statistician-proves-gaussian-correlation-inequality-20170328">https://www.quantamagazine.org/statistician-proves-gaussian-correlation-inequality-20170328</ext-link>.
  76. Workman, T.E., Fiszman, M., Cairelli, M.J., Nahl, D., &amp; Rindflesch, TC. (2016). Spark, an application based on serendipitous knowledge discovery. Journal of Biomedical Informatics, 60(c), 23–37.<pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.jbi.2015.12.014" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2015.12.014</a></pub-id><pub-id pub-id-type="pmid">26732995</pub-id>
  77. Yang, H.T., Ju, J.H., Wong, Y.T., Shmulevich, I., &amp; Chiang, J.H. (2017). Literature-based discovery of new candidates for drug repurposing. Briefings in Bioinformatics, 18(3), 488–497.<pub-id pub-id-type="pmid">27113728</pub-id>
  78. Yetisgen-Yildiz, M., &amp; Pratt, W. (2009). A new evaluation methodology for literature-based discovery systems. Journal of Biomedical Informatics, 42(4), 633–643.<pub-id pub-id-type="pmid">19124086</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1016/j.jbi.2008.12.001" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1016/j.jbi.2008.12.001</a></pub-id>
  79. Zweigenbaum, P., Demner-Fushman, D., Yu, H., &amp; Cohen, K.B. (2007). Frontiers of biomedical text mining: Current progress. Briefings in Bioinformatics, 8(5), 358–375.<pub-id pub-id-type="pmid">17977867</pub-id><pub-id pub-id-type="doi"><a href="https://doi.org/10.1093/bib/bbm045" target="_blank" rel="noopener noreferrer" class="text-signal-blue hover:underline">10.1093/bib/bbm045</a></pub-id>
DOI: https://doi.org/10.1515/jdis-2017-0019 | Journal eISSN: 2543-683X | Journal ISSN: 2096-157X
Language: English
Page range: 43 - 64
Submitted on: Aug 9, 2017
Accepted on: Sep 13, 2017
Published on: Dec 29, 2017
Published by: Chinese Academy of Sciences, National Science Library
In partnership with: Paradigm Publishing Services
Publication frequency: 4 times per year

© 2017 Neil R. Smalheiser, published by Chinese Academy of Sciences, National Science Library
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.