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Volumn 73, Issue , 2017, Pages 51-61

Finding patients using similarity measures in a rare diseases-oriented clinical data warehouse: Dr. Warehouse and the needle in the needle stack

Author keywords

Data warehouse; Electronic health records; Rare diseases; Similarity measures; Vector space model

Indexed keywords

DATA WAREHOUSES; DISEASES; NEEDLES; RECORDS MANAGEMENT; VECTOR SPACES;

EID: 85026446496     PISSN: 15320464     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbi.2017.07.016     Document Type: Article
Times cited : (34)

References (46)
  • 1
    • 85026476730 scopus 로고    scopus 로고
    • (accessed 26 Sep 2016).
    • The Shire Rare Disease Impact Report (2013 – US and UK Population). (accessed 26 Sep 2016).
  • 2
    • 85026473159 scopus 로고    scopus 로고
    • 5 Questions: Euan Ashley on Diagnosing the Undiagnosable. (accessed 26 Sep)
    • Questions: Euan Ashley on Diagnosing the Undiagnosable. < http://med.stanford.edu/news/all-news/2015/09/5-questions-euan-ashley-on-diagnosing-the-undiagnosable.html> (accessed 26 Sep 2016).
    • (2016)
  • 3
    • 84919862439 scopus 로고    scopus 로고
    • Secondary use of clinical data: the Vanderbilt approach
    • Danciu, I., Cowan, J.D., Basford, M., et al. Secondary use of clinical data: the Vanderbilt approach. J. Biomed. Inform. 52 (2014), 28–35, 10.1016/j.jbi.2014.02.003.
    • (2014) J. Biomed. Inform. , vol.52 , pp. 28-35
    • Danciu, I.1    Cowan, J.D.2    Basford, M.3
  • 4
    • 77953170556 scopus 로고    scopus 로고
    • Serving the enterprise and beyond with informatics for integrating biology and the bedside (i2b2)
    • Murphy, S.N., Weber, G., Mendis, M., et al. Serving the enterprise and beyond with informatics for integrating biology and the bedside (i2b2). J. Am. Med. Inform. Assoc. JAMIA 17 (2010), 124–130, 10.1136/jamia.2009.000893.
    • (2010) J. Am. Med. Inform. Assoc. JAMIA , vol.17 , pp. 124-130
    • Murphy, S.N.1    Weber, G.2    Mendis, M.3
  • 5
    • 77958007735 scopus 로고    scopus 로고
    • STRIDE–an integrated standards-based translational research informatics platform
    • Lowe, H.J., Ferris, T.A., Hernandez, P.M., et al. STRIDE–an integrated standards-based translational research informatics platform. AMIA Annu. Symp. Proc. AMIA Symp. AMIA Symp. 2009 (2009), 391–395.
    • (2009) AMIA Annu. Symp. Proc. AMIA Symp. AMIA Symp. , vol.2009 , pp. 391-395
    • Lowe, H.J.1    Ferris, T.A.2    Hernandez, P.M.3
  • 6
    • 84879940846 scopus 로고    scopus 로고
    • Supervised patient similarity measure of heterogeneous patient records
    • Sun, J., Wang, F., Hu, J., et al. Supervised patient similarity measure of heterogeneous patient records. SIGKDD Explor. Newsl. 14 (2012), 16–24, 10.1145/2408736.2408740.
    • (2012) SIGKDD Explor. Newsl. , vol.14 , pp. 16-24
    • Sun, J.1    Wang, F.2    Hu, J.3
  • 7
    • 79959883118 scopus 로고
    • Computer evaluation of indexing and text processing
    • Salton, G., Lesk, M., Computer evaluation of indexing and text processing. J. ACM 15 (1968), 8–36.
    • (1968) J. ACM , vol.15 , pp. 8-36
    • Salton, G.1    Lesk, M.2
  • 8
    • 0003636202 scopus 로고
    • The SMART Retrieval System—Experiments in Automatic Document Processing
    • Prentice-Hall, Inc. Upper Saddle River, NJ, USA
    • Salton, G., The SMART Retrieval System—Experiments in Automatic Document Processing. 1971, Prentice-Hall, Inc., Upper Saddle River, NJ, USA.
    • (1971)
    • Salton, G.1
  • 9
    • 0004011220 scopus 로고
    • Automatic Information Organization and Retrieval
    • McGraw Hill Text
    • Salton, G., Automatic Information Organization and Retrieval. 1968, McGraw Hill Text.
    • (1968)
    • Salton, G.1
  • 10
    • 84953744816 scopus 로고
    • A statistical interpretation of term specificity and its application in retrieval
    • Jones, K.S., A statistical interpretation of term specificity and its application in retrieval. J. Doc. 28 (1972), 11–21.
    • (1972) J. Doc. , vol.28 , pp. 11-21
    • Jones, K.S.1
  • 11
    • 34548080780 scopus 로고    scopus 로고
    • Introduction to Information Retrieval
    • Cambridge University Press New York, NY, USA
    • Manning, C.D., Raghavan, P., Schütze, H., Introduction to Information Retrieval. 2008, Cambridge University Press, New York, NY, USA.
    • (2008)
    • Manning, C.D.1    Raghavan, P.2    Schütze, H.3
  • 12
    • 0029304734 scopus 로고
    • Efficient retrieval of partial documents
    • Zobel, J., Moffat, A., Wilkinson, R., et al. Efficient retrieval of partial documents. Inf. Process. Manag. 31 (1995), 361–377, 10.1016/0306-4573(94)00052-5.
    • (1995) Inf. Process. Manag. , vol.31 , pp. 361-377
    • Zobel, J.1    Moffat, A.2    Wilkinson, R.3
  • 13
    • 0031095329 scopus 로고    scopus 로고
    • Document ranking and the vector-space model
    • Lee, D.L., Chuang, H., Seamons, K., Document ranking and the vector-space model. IEEE Softw. 14 (1997), 67–75, 10.1109/52.582976.
    • (1997) IEEE Softw. , vol.14 , pp. 67-75
    • Lee, D.L.1    Chuang, H.2    Seamons, K.3
  • 14
    • 0030735796 scopus 로고    scopus 로고
    • Performance standards and evaluations in IR test collections: vector-space and other retrieval models
    • Shaw, W.M., Burgin, R., Howell, P., Performance standards and evaluations in IR test collections: vector-space and other retrieval models. Inf. Process. Manag. 33 (1997), 15–36, 10.1016/S0306-4573(96)00044-1.
    • (1997) Inf. Process. Manag. , vol.33 , pp. 15-36
    • Shaw, W.M.1    Burgin, R.2    Howell, P.3
  • 15
    • 24944494111 scopus 로고    scopus 로고
    • Flexible retrieval based on the vector space model
    • N. Fuhr M. Lalmas S. Malik Springer-Verlag Berlin
    • Crouch, C.J., Mahajan, A., Bellamkonda, A., Flexible retrieval based on the vector space model. Fuhr, N., Lalmas, M., Malik, S., (eds.) Advances in Xml Information Retrieval, 2005, Springer-Verlag, Berlin, 292–302.
    • (2005) Advances in Xml Information Retrieval , pp. 292-302
    • Crouch, C.J.1    Mahajan, A.2    Bellamkonda, A.3
  • 16
    • 33747729581 scopus 로고    scopus 로고
    • Inverted files for text search engines
    • Zobel, J., Moffat, A., Inverted files for text search engines. ACM Comput. Surv., 38, 2006, 10.1145/1132956.1132959.
    • (2006) ACM Comput. Surv. , vol.38
    • Zobel, J.1    Moffat, A.2
  • 17
    • 84883806589 scopus 로고    scopus 로고
    • Development and evaluation of a biomedical search engine using a predicate-based vector space model
    • Kwak, M., Leroy, G., Martinez, J.D., et al. Development and evaluation of a biomedical search engine using a predicate-based vector space model. J. Biomed. Inform. 46 (2013), 929–939, 10.1016/j.jbi.2013.07.006.
    • (2013) J. Biomed. Inform. , vol.46 , pp. 929-939
    • Kwak, M.1    Leroy, G.2    Martinez, J.D.3
  • 18
    • 33646369180 scopus 로고    scopus 로고
    • Automated subject classification of textual web documents
    • Golub, K., Automated subject classification of textual web documents. J. Doc. 62 (2006), 350–371, 10.1108/00220410610666501.
    • (2006) J. Doc. , vol.62 , pp. 350-371
    • Golub, K.1
  • 19
    • 84959567551 scopus 로고    scopus 로고
    • Novel classification method for remote sensing images based on information entropy discretization algorithm and vector space model
    • Xie, L., Li, G., Xiao, M., et al. Novel classification method for remote sensing images based on information entropy discretization algorithm and vector space model. Comput. Geosci. 89 (2016), 252–259, 10.1016/j.cageo.2015.12.015.
    • (2016) Comput. Geosci. , vol.89 , pp. 252-259
    • Xie, L.1    Li, G.2    Xiao, M.3
  • 20
    • 77957556167 scopus 로고    scopus 로고
    • Knowledge-based vector space model for text clustering
    • Jing, L., Ng, M.K., Huang, J.Z., Knowledge-based vector space model for text clustering. Knowl. Inf. Syst. 25 (2010), 35–55, 10.1007/s10115-009-0256-5.
    • (2010) Knowl. Inf. Syst. , vol.25 , pp. 35-55
    • Jing, L.1    Ng, M.K.2    Huang, J.Z.3
  • 21
    • 78049305572 scopus 로고    scopus 로고
    • Assessment of ontology-based knowledge network formation by Vector-Space Model
    • Lee, P.-C., Su, H.-N., Chan, T.-Y., Assessment of ontology-based knowledge network formation by Vector-Space Model. Scientometrics 85 (2010), 689–703, 10.1007/s11192-010-0267-8.
    • (2010) Scientometrics , vol.85 , pp. 689-703
    • Lee, P.-C.1    Su, H.-N.2    Chan, T.-Y.3
  • 22
    • 81855221782 scopus 로고    scopus 로고
    • Enhanced topic-based vector space model for semantics-aware spam filtering
    • Santos, I., Laorden, C., Sanz, B., et al. Enhanced topic-based vector space model for semantics-aware spam filtering. Expert Syst. Appl. 39 (2012), 437–444, 10.1016/j.eswa.2011.07.034.
    • (2012) Expert Syst. Appl. , vol.39 , pp. 437-444
    • Santos, I.1    Laorden, C.2    Sanz, B.3
  • 23
    • 33846260106 scopus 로고    scopus 로고
    • An adaptation of the vector-space model for ontology-based information retrieval
    • Castells, P., Fernandez, M., Vallet, D., An adaptation of the vector-space model for ontology-based information retrieval. IEEE Trans. Knowl. Data Eng. 19 (2007), 261–272, 10.1109/TKDE.2007.22.
    • (2007) IEEE Trans. Knowl. Data Eng. , vol.19 , pp. 261-272
    • Castells, P.1    Fernandez, M.2    Vallet, D.3
  • 24
    • 84857176542 scopus 로고    scopus 로고
    • A vector space model approach to identify genetically related diseases
    • Sarkar, I.N., A vector space model approach to identify genetically related diseases. J. Am. Med. Inform. Assoc. JAMIA 19 (2012), 249–254, 10.1136/amiajnl-2011-000480.
    • (2012) J. Am. Med. Inform. Assoc. JAMIA , vol.19 , pp. 249-254
    • Sarkar, I.N.1
  • 25
    • 84929340147 scopus 로고    scopus 로고
    • Personalized mortality prediction driven by electronic medical data and a patient similarity metric
    • Lee, J., Maslove, D.M., Dubin, J.A., Personalized mortality prediction driven by electronic medical data and a patient similarity metric. PloS One, 10, 2015, e0127428, 10.1371/journal.pone.0127428.
    • (2015) PloS One , vol.10 , pp. e0127428
    • Lee, J.1    Maslove, D.M.2    Dubin, J.A.3
  • 26
    • 84894321031 scopus 로고    scopus 로고
    • Full-text automated detection of surgical site infections secondary to neurosurgery in Rennes, France
    • Campillo-Gimenez, B., Garcelon, N., Jarno, P., et al. Full-text automated detection of surgical site infections secondary to neurosurgery in Rennes, France. Stud. Health Technol. Inform. 192 (2013), 572–575.
    • (2013) Stud. Health Technol. Inform. , vol.192 , pp. 572-575
    • Campillo-Gimenez, B.1    Garcelon, N.2    Jarno, P.3
  • 27
    • 79953093873 scopus 로고    scopus 로고
    • Data from clinical notes: a perspective on the tension between structure and flexible documentation
    • Rosenbloom, S.T., Denny, J.C., Xu, H., et al. Data from clinical notes: a perspective on the tension between structure and flexible documentation. J. Am. Med. Inform. Assoc. JAMIA 18 (2011), 181–186, 10.1136/jamia.2010.007237.
    • (2011) J. Am. Med. Inform. Assoc. JAMIA , vol.18 , pp. 181-186
    • Rosenbloom, S.T.1    Denny, J.C.2    Xu, H.3
  • 29
    • 85019668391 scopus 로고    scopus 로고
    • Improving a full-text search engine: the importance of negation detection and family history context to identify cases in a biomedical data warehouse, J. Am. Med. Inform. Assoc. JAMIA.. Published Online First: 20 October
    • N. Garcelon, A. Neuraz, V. Benoit, et al., Improving a full-text search engine: the importance of negation detection and family history context to identify cases in a biomedical data warehouse, J. Am. Med. Inform. Assoc. JAMIA. http://dx.doi.org/10.1093/jamia/ocw144. Published Online First: 20 October 2016.
    • (2016)
    • Garcelon, N.1    Neuraz, A.2    Benoit, V.3
  • 30
    • 0035755279 scopus 로고    scopus 로고
    • Evaluation of negation phrases in narrative clinical reports
    • Chapman, W.W., Bridewell, W., Hanbury, P., et al. Evaluation of negation phrases in narrative clinical reports. Proc. AMIA Symp. 2001 (2001), 105–109.
    • (2001) Proc. AMIA Symp. , vol.2001 , pp. 105-109
    • Chapman, W.W.1    Bridewell, W.2    Hanbury, P.3
  • 31
    • 34748836934 scopus 로고    scopus 로고
    • Evaluating the effectiveness of four contextual features in classifying annotated clinical conditions in emergency department reports
    • Chu, D., Dowling, J.N., Chapman, W.W., Evaluating the effectiveness of four contextual features in classifying annotated clinical conditions in emergency department reports. AMIA Annu. Symp. Proc. AMIA Symp., 2006, 141–145.
    • (2006) AMIA Annu. Symp. Proc. AMIA Symp. , pp. 141-145
    • Chu, D.1    Dowling, J.N.2    Chapman, W.W.3
  • 32
    • 9244221094 scopus 로고    scopus 로고
    • The family history–more important than ever
    • Guttmacher, A.E., Collins, F.S., Carmona, R.H., The family history–more important than ever. N. Engl. J. Med. 351 (2004), 2333–2336, 10.1056/NEJMsb042979.
    • (2004) N. Engl. J. Med. , vol.351 , pp. 2333-2336
    • Guttmacher, A.E.1    Collins, F.S.2    Carmona, R.H.3
  • 33
    • 85026453859 scopus 로고    scopus 로고
    • Orphanet. (accessed 22 Feb)
    • Orphanet. < http://www.orpha.net/consor/www/cgi-bin/index.php?lng=FR> (accessed 22 Feb 2017).
    • (2017)
  • 34
    • 33845600615 scopus 로고    scopus 로고
    • Lowe syndrome
    • Loi, M., Lowe syndrome. Orphanet. J. Rare Dis., 1, 2006, 16, 10.1186/1750-1172-1-16.
    • (2006) Orphanet. J. Rare Dis. , vol.1 , pp. 16
    • Loi, M.1
  • 35
    • 0028048490 scopus 로고
    • Recurrent nonsense mutations within the type VII collagen gene in patients with severe recessive dystrophic epidermolysis bullosa
    • Hovnanian, A., Hilal, L., Blanchet-Bardon, C., et al. Recurrent nonsense mutations within the type VII collagen gene in patients with severe recessive dystrophic epidermolysis bullosa. Am. J. Hum. Genet. 55 (1994), 289–296.
    • (1994) Am. J. Hum. Genet. , vol.55 , pp. 289-296
    • Hovnanian, A.1    Hilal, L.2    Blanchet-Bardon, C.3
  • 36
    • 0037387857 scopus 로고    scopus 로고
    • Mutation analysis of the entire keratin 5 and 14 genes in patients with epidermolysis bullosa simplex and identification of novel mutations
    • Schuilenga-Hut, P.H.L., Vlies, P.v.d., Jonkman, M.F., et al. Mutation analysis of the entire keratin 5 and 14 genes in patients with epidermolysis bullosa simplex and identification of novel mutations. Hum. Mutat., 21, 2003, 447, 10.1002/humu.9124.
    • (2003) Hum. Mutat. , vol.21 , pp. 447
    • Schuilenga-Hut, P.H.L.1    Vlies, P.V.D.2    Jonkman, M.F.3
  • 37
    • 0032830639 scopus 로고    scopus 로고
    • Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2
    • Amir, R.E., Van den Veyver, I.B., Wan, M., et al. Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2. Nat. Genet. 23 (1999), 185–188, 10.1038/13810.
    • (1999) Nat. Genet. , vol.23 , pp. 185-188
    • Amir, R.E.1    Van den Veyver, I.B.2    Wan, M.3
  • 38
    • 84887824378 scopus 로고    scopus 로고
    • Phosphoinositide 3-kinase δ gene mutation predisposes to respiratory infection and airway damage
    • Angulo, I., Vadas, O., Garçon, F., et al. Phosphoinositide 3-kinase δ gene mutation predisposes to respiratory infection and airway damage. Science 342 (2013), 866–871, 10.1126/science.1243292.
    • (2013) Science , vol.342 , pp. 866-871
    • Angulo, I.1    Vadas, O.2    Garçon, F.3
  • 39
    • 84907008346 scopus 로고    scopus 로고
    • A human immunodeficiency caused by mutations in the PIK3R1 gene
    • Deau, M.-C., Heurtier, L., Frange, P., et al. A human immunodeficiency caused by mutations in the PIK3R1 gene. J. Clin. Invest. 124 (2014), 3923–3928, 10.1172/JCI75746.
    • (2014) J. Clin. Invest. , vol.124 , pp. 3923-3928
    • Deau, M.-C.1    Heurtier, L.2    Frange, P.3
  • 40
    • 85026460775 scopus 로고    scopus 로고
    • Introduction to Modern Information Retrieval, McGraw-Hill, Inc., 1986. (accessed 17 Sep)
    • G. Salton, M.J. McGill, Introduction to Modern Information Retrieval, McGraw-Hill, Inc., 1986. (accessed 17 Sep 2015).
    • (2015)
    • Salton, G.1    McGill, M.J.2
  • 41
    • 84996528817 scopus 로고    scopus 로고
    • Clinical spectrum and features of activated phosphoinositide 3-kinase δ syndrome: a large patient cohort study
    • Published Online First: 16 July 2016.
    • T.I. Coulter, A. Chandra, C.M. Bacon, et al., Clinical spectrum and features of activated phosphoinositide 3-kinase δ syndrome: a large patient cohort study, J. Allergy Clin. Immunol. http://dx.doi.org/10.1016/j.jaci.2016.06.021. Published Online First: 16 July 2016.
    • J. Allergy Clin. Immunol.
    • Coulter, T.I.1    Chandra, A.2    Bacon, C.M.3
  • 42
    • 85026487004 scopus 로고    scopus 로고
    • Efficient Estimation of Word Representations in Vector Space. ArXiv13013781 Cs. (accessed 24 Sep 2016). Published Online First: 16 January
    • T. Mikolov, K. Chen, G. Corrado, et al., Efficient Estimation of Word Representations in Vector Space. ArXiv13013781 Cs. < http://arxiv.org/abs/1301.3781> (accessed 24 Sep 2016). Published Online First: 16 January 2013.
    • (2013)
    • Mikolov, T.1    Chen, K.2    Corrado, G.3
  • 43
    • 0037267608 scopus 로고    scopus 로고
    • The hypotonic infant: case study of central core disease
    • Castrodale, V., The hypotonic infant: case study of central core disease. Neonatal Netw. NN 22 (2003), 53–59, 10.1891/0730-0832.22.1.53.
    • (2003) Neonatal Netw. NN , vol.22 , pp. 53-59
    • Castrodale, V.1
  • 44
    • 84930251247 scopus 로고    scopus 로고
    • Differential Diagnosis for the Dermatologist
    • Springer Science & Business Media
    • Jackson, S., Nesbitt, L.T., Differential Diagnosis for the Dermatologist. 2012, Springer Science & Business Media.
    • (2012)
    • Jackson, S.1    Nesbitt, L.T.2
  • 45
    • 84948823359 scopus 로고    scopus 로고
    • Undiagnosed Diseases Network International (UDNI): white paper for global actions to meet patient needs
    • Taruscio, D., Groft, S.C., Cederroth, H., et al. Undiagnosed Diseases Network International (UDNI): white paper for global actions to meet patient needs. Mol. Genet. Metab. 116 (2015), 223–225, 10.1016/j.ymgme.2015.11.003.
    • (2015) Mol. Genet. Metab. , vol.116 , pp. 223-225
    • Taruscio, D.1    Groft, S.C.2    Cederroth, H.3


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