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Items: 1 to 50 of 89

1.

Use of narrative concepts in the EHR to validate genetic determinants of treatment response in a virtual inflammatory bowel disease cohort.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Savova G, Shaw SY, Churchill S, Burke KE, Karlson EW, Murphy SN, Kohane I, Liao KP, Xavier RJ.

Clin Gastroenterol Hepatol. 2019 Aug 9. pii: S1542-3565(19)30861-4. doi: 10.1016/j.cgh.2019.08.005. [Epub ahead of print] No abstract available.

PMID:
31404664
2.

Use of Natural Language Processing to Extract Clinical Cancer Phenotypes from Electronic Medical Records.

Savova GK, Danciu I, Alamudun F, Miller T, Lin C, Bitterman DS, Tourassi G, Warner JL.

Cancer Res. 2019 Aug 8. pii: canres.0579.2019. doi: 10.1158/0008-5472.CAN-19-0579. [Epub ahead of print]

PMID:
31395609
3.

Supervised methods to extract clinical events from cardiology reports in Italian.

Viani N, Miller TA, Napolitano C, Priori SG, Savova GK, Bellazzi R, Sacchi L.

J Biomed Inform. 2019 Jul;95:103219. doi: 10.1016/j.jbi.2019.103219. Epub 2019 May 28.

PMID:
31150777
4.

Decreased Total Iron Binding Capacity May Correlate with Ruptured Intracranial Aneurysms.

Can A, Lai PMR, Castro VM, Yu S, Dligach D, Finan S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Sci Rep. 2019 Apr 15;9(1):6054. doi: 10.1038/s41598-019-42622-y.

5.

Potential Impact of Initial Clinical Data on Adjustment of Pediatric Readmission Rates.

Nakamura MM, Toomey SL, Zaslavsky AM, Petty CR, Lin C, Savova GK, Rose S, Brittan MS, Lin JL, Bryant MC, Ashrafzadeh S, Schuster MA.

Acad Pediatr. 2019 Jul;19(5):589-598. doi: 10.1016/j.acap.2018.09.006. Epub 2018 Nov 20.

PMID:
30470563
6.

Elevated International Normalized Ratio Is Associated With Ruptured Aneurysms.

Can A, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Stroke. 2018 Sep;49(9):2046-2052. doi: 10.1161/STROKEAHA.118.022412.

7.

Association between aspirin dose and subarachnoid hemorrhage from saccular aneurysms: A case-control study.

Can A, Rudy RF, Castro VM, Yu S, Dligach D, Finan S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Neurology. 2018 Sep 18;91(12):e1175-e1181. doi: 10.1212/WNL.0000000000006200. Epub 2018 Aug 22.

PMID:
30135253
8.

Morphological Variables Associated With Ruptured Middle Cerebral Artery Aneurysms.

Zhang J, Can A, Mukundan S, Steigner M, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Wang Z, Weiss ST, Du R.

Neurosurgery. 2019 Jul 1;85(1):75-83. doi: 10.1093/neuros/nyy213.

PMID:
29850834
9.

Low Serum Calcium and Magnesium Levels and Rupture of Intracranial Aneurysms.

Can A, Rudy RF, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Stroke. 2018 Jul;49(7):1747-1750. doi: 10.1161/STROKEAHA.118.020963. Epub 2018 May 29.

10.

Lipid-Lowering Agents and High HDL (High-Density Lipoprotein) Are Inversely Associated With Intracranial Aneurysm Rupture.

Can A, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Stroke. 2018 May;49(5):1148-1154. doi: 10.1161/STROKEAHA.117.019972. Epub 2018 Apr 5.

11.

Clinical Natural Language Processing in languages other than English: opportunities and challenges.

Névéol A, Dalianis H, Velupillai S, Savova G, Zweigenbaum P.

J Biomed Semantics. 2018 Mar 30;9(1):12. doi: 10.1186/s13326-018-0179-8. Review.

12.

Antihyperglycemic Agents Are Inversely Associated With Intracranial Aneurysm Rupture.

Can A, Castro VM, Yu S, Dligach D, Finan S, Gainer VS, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Stroke. 2018 Jan;49(1):34-39. doi: 10.1161/STROKEAHA.117.019249. Epub 2017 Dec 4.

PMID:
29203688
13.

Heroin Use Is Associated with Ruptured Saccular Aneurysms.

Can A, Castro VM, Ozdemir YH, Dagen S, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Transl Stroke Res. 2018 Aug;9(4):340-346. doi: 10.1007/s12975-017-0582-y. Epub 2017 Nov 4.

PMID:
29103103
14.

DeepPhe: A Natural Language Processing System for Extracting Cancer Phenotypes from Clinical Records.

Savova GK, Tseytlin E, Finan S, Castine M, Miller T, Medvedeva O, Harris D, Hochheiser H, Lin C, Chavan G, Jacobson RS.

Cancer Res. 2017 Nov 1;77(21):e115-e118. doi: 10.1158/0008-5472.CAN-17-0615.

15.

Capturing the Patient's Perspective: a Review of Advances in Natural Language Processing of Health-Related Text.

Gonzalez-Hernandez G, Sarker A, O'Connor K, Savova G.

Yearb Med Inform. 2017 Aug;26(1):214-227. doi: 10.15265/IY-2017-029. Epub 2017 Sep 11. Review.

16.

Phelan-McDermid syndrome data network: Integrating patient reported outcomes with clinical notes and curated genetic reports.

Kothari C, Wack M, Hassen-Khodja C, Finan S, Savova G, O'Boyle M, Bliss G, Cornell A, Horn EJ, Davis R, Jacobs J, Kohane I, Avillach P.

Am J Med Genet B Neuropsychiatr Genet. 2018 Oct;177(7):613-624. doi: 10.1002/ajmg.b.32579. Epub 2017 Sep 1.

17.

Association of intracranial aneurysm rupture with smoking duration, intensity, and cessation.

Can A, Castro VM, Ozdemir YH, Dagen S, Yu S, Dligach D, Finan S, Gainer V, Shadick NA, Murphy S, Cai T, Savova G, Dammers R, Weiss ST, Du R.

Neurology. 2017 Sep 26;89(13):1408-1415. doi: 10.1212/WNL.0000000000004419. Epub 2017 Aug 30.

18.

Alcohol Consumption and Aneurysmal Subarachnoid Hemorrhage.

Can A, Castro VM, Ozdemir YH, Dagen S, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R.

Transl Stroke Res. 2018 Feb;9(1):13-19. doi: 10.1007/s12975-017-0557-z. Epub 2017 Jul 27.

PMID:
28752411
19.

Towards generalizable entity-centric clinical coreference resolution.

Miller T, Dligach D, Bethard S, Lin C, Savova G.

J Biomed Inform. 2017 May;69:251-258. doi: 10.1016/j.jbi.2017.04.015. Epub 2017 Apr 21.

20.

Large-scale identification of patients with cerebral aneurysms using natural language processing.

Castro VM, Dligach D, Finan S, Yu S, Can A, Abd-El-Barr M, Gainer V, Shadick NA, Murphy S, Cai T, Savova G, Weiss ST, Du R.

Neurology. 2017 Jan 10;88(2):164-168. doi: 10.1212/WNL.0000000000003490. Epub 2016 Dec 7.

21.

Suboptimal Clinical Documentation in Young Children with Severe Obesity at Tertiary Care Centers.

Brady CC, Thaker VV, Lingren T, Woo JG, Kennebeck SS, Namjou-Khales B, Roach A, Bickel JP, Patibandla N, Savova GK, Solti I, Holm IA, Harley JB, Kohane IS, Crimmins NA.

Int J Pediatr. 2016;2016:4068582. Epub 2016 Sep 6.

22.

An information model for computable cancer phenotypes.

Hochheiser H, Castine M, Harris D, Savova G, Jacobson RS.

BMC Med Inform Decis Mak. 2016 Sep 15;16(1):121. doi: 10.1186/s12911-016-0358-4.

23.

Electronic Health Record Based Algorithm to Identify Patients with Autism Spectrum Disorder.

Lingren T, Chen P, Bochenek J, Doshi-Velez F, Manning-Courtney P, Bickel J, Wildenger Welchons L, Reinhold J, Bing N, Ni Y, Barbaresi W, Mentch F, Basford M, Denny J, Vazquez L, Perry C, Namjou B, Qiu H, Connolly J, Abrams D, Holm IA, Cobb BA, Lingren N, Solti I, Hakonarson H, Kohane IS, Harley J, Savova G.

PLoS One. 2016 Jul 29;11(7):e0159621. doi: 10.1371/journal.pone.0159621. eCollection 2016.

24.

Developing an Algorithm to Detect Early Childhood Obesity in Two Tertiary Pediatric Medical Centers.

Lingren T, Thaker V, Brady C, Namjou B, Kennebeck S, Bickel J, Patibandla N, Ni Y, Van Driest SL, Chen L, Roach A, Cobb B, Kirby J, Denny J, Bailey-Davis L, Williams MS, Marsolo K, Solti I, Holm IA, Harley J, Kohane IS, Savova G, Crimmins N.

Appl Clin Inform. 2016 Jul 20;7(3):693-706. doi: 10.4338/ACI-2016-01-RA-0015.

25.

Normalizing acronyms and abbreviations to aid patient understanding of clinical texts: ShARe/CLEF eHealth Challenge 2013, Task 2.

Mowery DL, South BR, Christensen L, Leng J, Peltonen LM, Salanterä S, Suominen H, Martinez D, Velupillai S, Elhadad N, Savova G, Pradhan S, Chapman WW.

J Biomed Semantics. 2016 Jul 1;7:43. doi: 10.1186/s13326-016-0084-y.

26.

PheKB: a catalog and workflow for creating electronic phenotype algorithms for transportability.

Kirby JC, Speltz P, Rasmussen LV, Basford M, Gottesman O, Peissig PL, Pacheco JA, Tromp G, Pathak J, Carrell DS, Ellis SB, Lingren T, Thompson WK, Savova G, Haines J, Roden DM, Harris PA, Denny JC.

J Am Med Inform Assoc. 2016 Nov;23(6):1046-1052. doi: 10.1093/jamia/ocv202. Epub 2016 Mar 28.

27.

Comparative Effectiveness of Infliximab and Adalimumab in Crohn's Disease and Ulcerative Colitis.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Savova G, Churchill S, Karlson EW, Kohane I, Liao KP, Murphy SN.

Inflamm Bowel Dis. 2016 Apr;22(4):880-5. doi: 10.1097/MIB.0000000000000754.

28.

HSP90 Inhibitor Geldanamycin as a Radiation Response Modificator in Human Blood Cells.

Stankova K, Savova G, Nikolov V, Boteva R.

Dose Response. 2015 May 4;13(1). pii: dose-response.14-039.Stankova. doi: 10.2203/dose-response.14-039.Stankova. eCollection 2015 Jan-Mar.

29.

The soluble receptor ST2 is positively associated with occupational exposure to radiation.

Katsarska O, Zaharieva E, Aneva N, Savova G, Stankova K, Boteva R.

Int J Radiat Biol. 2016;92(2):87-93. doi: 10.3109/09553002.2016.1115135. Epub 2015 Dec 3.

PMID:
26634771
30.

Multilayered temporal modeling for the clinical domain.

Lin C, Dligach D, Miller TA, Bethard S, Savova GK.

J Am Med Inform Assoc. 2016 Mar;23(2):387-95. doi: 10.1093/jamia/ocv113. Epub 2015 Oct 31.

31.

Identification of subjects with polycystic ovary syndrome using electronic health records.

Castro V, Shen Y, Yu S, Finan S, Pau CT, Gainer V, Keefe CC, Savova G, Murphy SN, Cai T, Welt CK.

Reprod Biol Endocrinol. 2015 Oct 29;13:116. doi: 10.1186/s12958-015-0115-z.

32.

Identification of Nonresponse to Treatment Using Narrative Data in an Electronic Health Record Inflammatory Bowel Disease Cohort.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Savova G, Churchill S, Karlson EW, Murphy SN, Liao KP, Kohane I.

Inflamm Bowel Dis. 2016 Jan;22(1):151-8. doi: 10.1097/MIB.0000000000000580.

33.

Methods to Develop an Electronic Medical Record Phenotype Algorithm to Compare the Risk of Coronary Artery Disease across 3 Chronic Disease Cohorts.

Liao KP, Ananthakrishnan AN, Kumar V, Xia Z, Cagan A, Gainer VS, Goryachev S, Chen P, Savova GK, Agniel D, Churchill S, Lee J, Murphy SN, Plenge RM, Szolovits P, Kohane I, Shaw SY, Karlson EW, Cai T.

PLoS One. 2015 Aug 24;10(8):e0136651. doi: 10.1371/journal.pone.0136651. eCollection 2015.

34.

An Introduction to Natural Language Processing: How You Can Get More From Those Electronic Notes You Are Generating.

Kimia AA, Savova G, Landschaft A, Harper MB.

Pediatr Emerg Care. 2015 Jul;31(7):536-41. doi: 10.1097/PEC.0000000000000484.

PMID:
26148107
35.

Development of phenotype algorithms using electronic medical records and incorporating natural language processing.

Liao KP, Cai T, Savova GK, Murphy SN, Karlson EW, Ananthakrishnan AN, Gainer VS, Shaw SY, Xia Z, Szolovits P, Churchill S, Kohane I.

BMJ. 2015 Apr 24;350:h1885. doi: 10.1136/bmj.h1885. No abstract available.

36.

Semi-supervised Learning for Phenotyping Tasks.

Dligach D, Miller T, Savova GK.

AMIA Annu Symp Proc. 2015 Nov 5;2015:502-11. eCollection 2015.

37.

Automatic identification of methotrexate-induced liver toxicity in patients with rheumatoid arthritis from the electronic medical record.

Lin C, Karlson EW, Dligach D, Ramirez MP, Miller TA, Mo H, Braggs NS, Cagan A, Gainer V, Denny JC, Savova GK.

J Am Med Inform Assoc. 2015 Apr;22(e1):e151-61. doi: 10.1136/amiajnl-2014-002642. Epub 2014 Oct 25.

38.

Evaluating the state of the art in disorder recognition and normalization of the clinical narrative.

Pradhan S, Elhadad N, South BR, Martinez D, Christensen L, Vogel A, Suominen H, Chapman WW, Savova G.

J Am Med Inform Assoc. 2015 Jan;22(1):143-54. doi: 10.1136/amiajnl-2013-002544. Epub 2014 Aug 21.

39.

Temporal Annotation in the Clinical Domain.

Styler WF 4th, Bethard S, Finan S, Palmer M, Pradhan S, de Groen PC, Erickson B, Miller T, Lin C, Savova G, Pustejovsky J.

Trans Assoc Comput Linguist. 2014 Apr;2:143-154.

40.

Using natural language processing to improve efficiency of manual chart abstraction in research: the case of breast cancer recurrence.

Carrell DS, Halgrim S, Tran DT, Buist DS, Chubak J, Chapman WW, Savova G.

Am J Epidemiol. 2014 Mar 15;179(6):749-58. doi: 10.1093/aje/kwt441. Epub 2014 Jan 30.

41.

Carrell et al. respond to "Observational research and the EHR".

Carrell DS, Halgrim S, Tran DT, Buist DS, Chubak J, Chapman WW, Savova G.

Am J Epidemiol. 2014 Mar 15;179(6):762-3. doi: 10.1093/aje/kwt444. Epub 2014 Jan 30. No abstract available.

42.

Developing a section labeler for clinical documents.

Haug PJ, Wu X, Ferraro JP, Savova GK, Huff SM, Chute CG.

AMIA Annu Symp Proc. 2014 Nov 14;2014:636-44. eCollection 2014.

43.

Modeling disease severity in multiple sclerosis using electronic health records.

Xia Z, Secor E, Chibnik LB, Bove RM, Cheng S, Chitnis T, Cagan A, Gainer VS, Chen PJ, Liao KP, Shaw SY, Ananthakrishnan AN, Szolovits P, Weiner HL, Karlson EW, Murphy SN, Savova GK, Cai T, Churchill SE, Plenge RM, Kohane IS, De Jager PL.

PLoS One. 2013 Nov 11;8(11):e78927. doi: 10.1371/journal.pone.0078927. eCollection 2013.

44.

Normalization and standardization of electronic health records for high-throughput phenotyping: the SHARPn consortium.

Pathak J, Bailey KR, Beebe CE, Bethard S, Carrell DC, Chen PJ, Dligach D, Endle CM, Hart LA, Haug PJ, Huff SM, Kaggal VC, Li D, Liu H, Marchant K, Masanz J, Miller T, Oniki TA, Palmer M, Peterson KJ, Rea S, Savova GK, Stancl CR, Sohn S, Solbrig HR, Suesse DB, Tao C, Taylor DP, Westberg L, Wu S, Zhuo N, Chute CG.

J Am Med Inform Assoc. 2013 Dec;20(e2):e341-8. doi: 10.1136/amiajnl-2013-001939. Epub 2013 Nov 4.

45.

Discovering body site and severity modifiers in clinical texts.

Dligach D, Bethard S, Becker L, Miller T, Savova GK.

J Am Med Inform Assoc. 2014 May-Jun;21(3):448-54. doi: 10.1136/amiajnl-2013-001766. Epub 2013 Oct 3.

46.

Improved de-identification of physician notes through integrative modeling of both public and private medical text.

McMurry AJ, Fitch B, Savova G, Kohane IS, Reis BY.

BMC Med Inform Decis Mak. 2013 Oct 2;13:112. doi: 10.1186/1472-6947-13-112.

47.

Automatic prediction of rheumatoid arthritis disease activity from the electronic medical records.

Lin C, Karlson EW, Canhao H, Miller TA, Dligach D, Chen PJ, Perez RN, Shen Y, Weinblatt ME, Shadick NA, Plenge RM, Savova GK.

PLoS One. 2013 Aug 16;8(8):e69932. doi: 10.1371/journal.pone.0069932. eCollection 2013.

48.

Normalization of plasma 25-hydroxy vitamin D is associated with reduced risk of surgery in Crohn's disease.

Ananthakrishnan AN, Cagan A, Gainer VS, Cai T, Cheng SC, Savova G, Chen P, Szolovits P, Xia Z, De Jager PL, Shaw SY, Churchill S, Karlson EW, Kohane I, Plenge RM, Murphy SN, Liao KP.

Inflamm Bowel Dis. 2013 Aug;19(9):1921-7. doi: 10.1097/MIB.0b013e3182902ad9.

49.

Formative evaluation of ontology learning methods for entity discovery by using existing ontologies as reference standards.

Liu K, Mitchell KJ, Chapman WW, Savova GK, Sioutos N, Rubin DL, Crowley RS.

Methods Inf Med. 2013;52(4):308-16. doi: 10.3414/ME12-01-0029. Epub 2013 May 13.

PMID:
23666409
50.

Improving case definition of Crohn's disease and ulcerative colitis in electronic medical records using natural language processing: a novel informatics approach.

Ananthakrishnan AN, Cai T, Savova G, Cheng SC, Chen P, Perez RG, Gainer VS, Murphy SN, Szolovits P, Xia Z, Shaw S, Churchill S, Karlson EW, Kohane I, Plenge RM, Liao KP.

Inflamm Bowel Dis. 2013 Jun;19(7):1411-20. doi: 10.1097/MIB.0b013e31828133fd.

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