Chunhua Weng

Summary

Affiliation: Columbia University
Country: USA

Publications

  1. pmc Hidden in plain sight: bias towards sick patients when sampling patients with sufficient electronic health record data for research
    Alexander Rusanov
    Department of Biomedical Informatics, Columbia University, New York, NY, USA
    BMC Med Inform Decis Mak 14:51. 2014
  2. pmc Feasibility of feature-based indexing, clustering, and search of clinical trials. A case study of breast cancer trials from ClinicalTrials.gov
    M R Boland
    Chunhua Weng, PhD, Florence Irving Assistant Professor, Department of Biomedical Informatics, Columbia University, 622 W 168th Street, VC 5 New York, NY 10032 USA, E mail
    Methods Inf Med 52:382-94. 2013
  3. pmc An Integrated Model for Patient Care and Clinical Trials (IMPACT) to support clinical research visit scheduling workflow for future learning health systems
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    J Biomed Inform 46:642-52. 2013
  4. pmc Using EHRs to integrate research with patient care: promises and challenges
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, New York 10032, USA
    J Am Med Inform Assoc 19:684-7. 2012
  5. pmc Formal representation of eligibility criteria: a literature review
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    J Biomed Inform 43:451-67. 2010
  6. pmc EliXR: an approach to eligibility criteria extraction and representation
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, New York 10032, USA
    J Am Med Inform Assoc 18:i116-24. 2011
  7. pmc Extracting temporal constraints from clinical research eligibility criteria using conditional random fields
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University in the City of New York, NY, USA
    AMIA Annu Symp Proc 2011:843-52. 2011
  8. pmc Dynamic categorization of clinical research eligibility criteria by hierarchical clustering
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
    J Biomed Inform 44:927-35. 2011
  9. pmc A real-time screening alert improves patient recruitment efficiency
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    AMIA Annu Symp Proc 2011:1489-98. 2011
  10. pmc A human-computer collaborative approach to identifying common data elements in clinical trial eligibility criteria
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
    J Biomed Inform 46:33-9. 2013

Collaborators

Detail Information

Publications30

  1. pmc Hidden in plain sight: bias towards sick patients when sampling patients with sufficient electronic health record data for research
    Alexander Rusanov
    Department of Biomedical Informatics, Columbia University, New York, NY, USA
    BMC Med Inform Decis Mak 14:51. 2014
    ..To demonstrate that subject selection based on sufficient laboratory results and medication orders in electronic health records can be biased towards sick patients...
  2. pmc Feasibility of feature-based indexing, clustering, and search of clinical trials. A case study of breast cancer trials from ClinicalTrials.gov
    M R Boland
    Chunhua Weng, PhD, Florence Irving Assistant Professor, Department of Biomedical Informatics, Columbia University, 622 W 168th Street, VC 5 New York, NY 10032 USA, E mail
    Methods Inf Med 52:382-94. 2013
    ..To find relevant clinical trials, patients often search online; however, they often encounter a significant barrier due to the large number of trials and in-effective indexing methods for reducing the trial search space...
  3. pmc An Integrated Model for Patient Care and Clinical Trials (IMPACT) to support clinical research visit scheduling workflow for future learning health systems
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    J Biomed Inform 46:642-52. 2013
    ..Our future work includes comparing the effectiveness of IMPACT with that of existing scheduling solutions on the market and conducting field tests to formally assess user adoption. ..
  4. pmc Using EHRs to integrate research with patient care: promises and challenges
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, New York 10032, USA
    J Am Med Inform Assoc 19:684-7. 2012
    ..Increased alignment of policies that regulate the clinical and research use of EHRs could help fulfill the vision of more efficiently obtaining clinical research evidence to improve human health...
  5. pmc Formal representation of eligibility criteria: a literature review
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    J Biomed Inform 43:451-67. 2010
    ..We discuss the implications of our findings for standardization efforts toward knowledge representation for sharable and computable eligibility criteria...
  6. pmc EliXR: an approach to eligibility criteria extraction and representation
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, New York 10032, USA
    J Am Med Inform Assoc 18:i116-24. 2011
    ..To develop a semantic representation for clinical research eligibility criteria to automate semistructured information extraction from eligibility criteria text...
  7. pmc Extracting temporal constraints from clinical research eligibility criteria using conditional random fields
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University in the City of New York, NY, USA
    AMIA Annu Symp Proc 2011:843-52. 2011
    ..We illustrate the application of temporal extraction with the use cases of question answering and free-text criteria querying...
  8. pmc Dynamic categorization of clinical research eligibility criteria by hierarchical clustering
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
    J Biomed Inform 44:927-35. 2011
    ..To semi-automatically induce semantic categories of eligibility criteria from text and to automatically classify eligibility criteria based on their semantic similarity...
  9. pmc A real-time screening alert improves patient recruitment efficiency
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    AMIA Annu Symp Proc 2011:1489-98. 2011
    ..We conclude that the automatic prescreening alert improves screening efficiency and is an effective aid to clinical research coordinators...
  10. pmc A human-computer collaborative approach to identifying common data elements in clinical trial eligibility criteria
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
    J Biomed Inform 46:33-9. 2013
    ..To identify Common Data Elements (CDEs) in eligibility criteria of multiple clinical trials studying the same disease using a human-computer collaborative approach...
  11. pmc Electronic screening improves efficiency in clinical trial recruitment
    Samir R Thadani
    Department of Medicine, Columbia University Medical Center, New York Presbyterian Hospital, New York, NY 10032, USA
    J Am Med Inform Assoc 16:869-73. 2009
    ....
  12. pmc Identifying interdisciplinary research priorities to prevent and treat pediatric obesity in New York City
    Dympna Gallagher
    Department of Medicine, New York Obesity Nutrition Research Center, St Luke s Roosevelt Hospital, New York, USA
    Clin Transl Sci 3:172-7. 2010
    ....
  13. pmc Defining a comprehensive verotype using electronic health records for personalized medicine
    Mary Regina Boland
    Department of Biomedical Informatics, Columbia University, New York, New York, USA
    J Am Med Inform Assoc 20:e232-8. 2013
    ....
  14. pmc An initial log analysis of usage patterns on a research networking system
    Mary Regina Boland
    The Irving Institute for Clinical and Translational Research, Columbia University, New York, New York, USA
    Clin Transl Sci 5:340-7. 2012
    ..0 seconds vs. 34.2 seconds). Usage patterns vary by user role, e.g., faculty performed more informational queries than administrators, which implies role-specific user support is needed for RNSs...
  15. pmc Similarity-based disease risk assessment for personal genomes: proof of concept
    Jung Hoon Woo
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    AMIA Annu Symp Proc 2011:1524-31. 2011
    ..For demonstration, we showed the feasibility of assessing the disease risks in one personal genome and discussed related methodology issues...
  16. ncbi request reprint User-centered semantic harmonization: a case study
    Chunhua Weng
    Department of Biomedical Informatics, University of Pittsburgh, UPMC Shadyside Cancer Pavilion Suit 301, 5150 Centre Avenue, Pittsburgh, PA 15232, USA
    J Biomed Inform 40:353-64. 2007
    ....
  17. pmc Unsupervised mining of frequent tags for clinical eligibility text indexing
    Riccardo Miotto
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    J Biomed Inform 46:1145-51. 2013
    ..Overall, unsupervised mining of frequent tags from clinical text leads to an effective semantic index for the clinical eligibility documents and promotes their computational reuse. ..
  18. ncbi request reprint Towards symbiosis in knowledge representation and natural language processing for structuring clinical practice guidelines
    Chunhua Weng
    Department of Biomedical Informatics, Columbia University, New York, New York
    Stud Health Technol Inform 201:461-9. 2014
    ..Then we discuss the strengths and limitations of interweaving KA and NLP for KR purposes and important considerations for achieving the symbiosis of KR and NLP for structuring CPGs to achieve evidence-based clinical practice. ..
  19. pmc Design and evaluation of a bacterial clinical infectious diseases ontology
    Claire L Gordon
    Department of Biomedical Informatics, Columbia University, New York Division of Infectious Diseases, Department of Medicine, Columbia University, New York Department of Medicine, University of Melbourne, Melbourne, Australia
    AMIA Annu Symp Proc 2013:502-11. 2013
    ..Domain expert evaluation using the "laddering" technique, ontology visualization, and clinical notes and scenarios, confirmed the correctness and potential usefulness of BCIDO. ..
  20. pmc Defining and measuring completeness of electronic health records for secondary use
    Nicole G Weiskopf
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States Electronic address
    J Biomed Inform 46:830-6. 2013
    ..We conclude that the concept of completeness in EHR is contextual. We urge data consumers to be explicit in how they define a complete record and transparent about the limitations of their data. ..
  21. pmc A method for probing disease relatedness using common clinical eligibility criteria
    Mary Regina Boland
    Department of Biomedical Informatics, Columbia University, New York, NY, USA
    Stud Health Technol Inform 192:481-5. 2013
    ..These observations confirm the value of using clinical trial eligibility criteria for identifying disease relatedness. We further discuss the implications of CEFs for standardizing clinical trial eligibility criteria through reuse. ..
  22. pmc A centralized research data repository enhances retrospective outcomes research capacity: a case report
    Gregory William Hruby
    Department of Urology, College of Physicians and Surgeons, Columbia University, New York, NY 10032, USA
    J Am Med Inform Assoc 20:563-7. 2013
    ..Implementing a CRDR appears to be effective in enhancing the outcomes research capacity for one academic department...
  23. pmc Discovering medical conditions associated with periodontitis using linked electronic health records
    Mary Regina Boland
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
    J Clin Periodontol 40:474-82. 2013
    ..To use linked electronic medical and dental records to discover associations between periodontitis and medical conditions independent of a priori hypotheses...
  24. pmc Semi-Automatically Inducing Semantic Classes of Clinical Research Eligibility Criteria Using UMLS and Hierarchical Clustering
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University, New York, NY 10032
    AMIA Annu Symp Proc 2010:487-91. 2010
    ..8%, 88.0%, and 87.7% respectively. Our induced classes well aligned with 16 out of 17 eligibility criteria classes defined by the BRIDGE model. We discuss the potential of this method and our future work...
  25. pmc Sick patients have more data: the non-random completeness of electronic health records
    Nicole G Weiskopf
    Columbia University, New York, NY
    AMIA Annu Symp Proc 2013:1472-7. 2013
    ....
  26. pmc eTACTS: a method for dynamically filtering clinical trial search results
    Riccardo Miotto
    Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
    J Biomed Inform 46:1060-7. 2013
    ..Information overload is a significant problem facing online clinical trial searchers. We present eTACTS, a novel interactive retrieval framework using common eligibility tags to dynamically filter clinical trial search results...
  27. pmc Modeling prognostic factors in resectable pancreatic adenocarcinomas
    Taxiarchis Botsis
    Department of Biomedical Informatics, Columbia University, 10032 New York, USA
    Cancer Inform 7:281-91. 2010
    ..The accurate prognosis for patients with resectable pancreatic adenocarcinomas requires the incorporation of more factors than those included in AJCC TNM system...
  28. pmc Corpus-based Approach to Creating a Semantic Lexicon for Clinical Research Eligibility Criteria from UMLS
    Zhihui Luo
    Department of Biomedical Informatics, Columbia University
    AMIA Summits Transl Sci Proc 2010:26-30. 2010
    ..The lexicon covered 95.95% UMLS-recognizable terms in our corpus. A total of 20 UMLS semantic types, representing about 17% of all the distinct semantic types assigned to corpus lexemes, covered about 80% of the vocabulary of our corpus...
  29. pmc A review of auditing methods applied to the content of controlled biomedical terminologies
    Xinxin Zhu
    Department of Biomedical Informatics, Columbia University, 622 West 168th Street, VC 5, New York, NY 10032, USA
    J Biomed Inform 42:413-25. 2009
    ..We also identify which terminologies have been audited with the methods and provide examples to illustrate each part of the framework...
  30. pmc Beta-2 adrenoceptor genotype and progress in term and late preterm active labor
    Russell S Miller
    Division of Maternal Fetal Medicine, Department of Obstetrics and Gynecology, Columbia University Medical Center, New York, NY 10032, USA
    Am J Obstet Gynecol 205:137.e1-7. 2011
    ..We sought to evaluate whether beta-2 adrenoceptor (β2AR) genotype at a functional polymorphic site encoding for amino acid residue 16 influences rate of cervical dilatation in term and late preterm active labor...