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Photo of Duygu  Ucar, Ph.D.

Duygu Ucar, Ph.D.

Assistant Professor, Jackson Laboratory for Genomic Medicine
Academic Office Location:
Assistant Professor Epigenomics & Genomics
Jackson Laboratory for Genomic Medicine
10 Discovery Drive
Farmington, CT 06117
Phone: 860-856-2474
Email: Duygu.Ucar@jax.org
Website(s):

Genetics and Developmental Biology Graduate Program

Ucar Lab Page

Education
DegreeInstitutionMajor
B.S.Bilkent UniversityComputer Science
Ph.D.Ohio State UniversityComputer Science
OtherUniversity of Iowa, Internal Medicine DepartmentNSF Computing Innovation Fellow
OtherStanford UniversityGenetics

Awards
Name of Award/HonorAwarding Organization
Computing Innovation Postdoctoral FellowshipNational Science Foundation
Travel AwardInternational Society for Computational Biology Conference ISMB
Travel AwardSIAM Data Mining Conference SDM
Best Applications PaperACM Knowledge Discovery and Data Mining Conference, Sig-KDD
Travel AwardPure and Applied Mathematics IPAM Workshop, UCLA
Dean's HonorsBilkent University, Turkey
Full ScholarshipBilkent University, Turkey
Name & DescriptionCategoryRoleTypeScopeStart YearEnd Year
IEEE International Conference on Bioinformatics and Medicine (BIBM)Workshop/ConferenceExternalInternational2013
International Conference on Bioinformatics and Computational BiologyWorkshop/ConferenceExternalInternational2012
IEEE International Conference on Bioinformatics and Medicine (BIBM)Workshop/ConferenceExternalInternational2012
SIGKDD [Special Interest Group on Knowledge Discovery and Data Mining]Professional/Scientific OrganizationReviewer for Scientific ConferenceExternalInternational2011
BioKDD [International Workshop on Data Mining in Bioinformatics]Workshop/ConferenceReviewer for Scientific ConferencesExternalInternational2011
International Conference on Bioinformatics and Computational BiologyWorkshop/ConferenceExternalInternational2011
2nd ACM Conference on Bioinformatics and Computational Biology (ACM-BCB)Workshop/ConferenceExternalNational2011
IEEE International Conference on Bioinformatics and Medicine (BIBM)Workshop/ConferenceExternalInternational2011
17th ACM SigKDD Conference on Knowledge Discovery and Data Mining (KDD)Workshop/ConferenceExternalNational2011
10TH International Workshop on Data Mining in Bioinformatics (Bio-KDD)Workshop/ConferenceExternalInternational2011
National Science Foundation, 3 panels within the CISE [Computer & Information Science & Engineering] and BIO [Biological Sciences] directoratesProfessional/Scientific OrganizationReviewer, Scientific JournalExternalNational20102011
PLOS [Public Library of Sciences] Computational BiologyProfessional/Scientific OrganizationReviewer, Scientific JournalExternalInternational2010
BioinformaticsProfessional/Scientific OrganizationReviewer, Scientific JournalExternalNational20102011
Transactions on Knowledge and Data EngineeringProfessional/Scientific OrganizationReviewer, Scientific JournalExternalNational2010
BMC [Biomed Central] GenomicsProfessional/Scientific OrganizationReviewer, Scientific JournalExternalNational2010
SDM [SIAM International Conference on Data Mining]Professional/Scientific OrganizationReviewer for Scientific ConferencesExternalInternational2010
BiCoB [International Conference on Bioinformatics and Computational Biology]Workshop/ConferenceReviewer for Scientific ConferencesExternalInternational20102011
BIBM [International Conference on Bioinformatics and Medicine]Workshop/ConferenceReviewer for Scientific ConferencesExternalInternational20102011
ACM-BCB [International Conference on Bioinformatics and Computational Biology]Workshop/ConferenceReviewer for Scientific ConferencesExternalInternational20102011
International Conference on Bioinformatics and Computational BiologyWorkshop/ConferenceExternalInternational2010
IEEE International Conference on Bioinformatics and Medicine (BIBM)Workshop/ConferenceExternalInternational2010
BMC [Biomed Central] BioinformaticsProfessional/Scientific OrganizationReviewer, Scientific JournalExternalNational2008

Not accepting students for Lab Rotations at this time

Journal Articles

Book Chapters

  • A Survey of Graph Mining Techniques for Biological Datasets
    Srinivasan Parthasarathy, Shirish Tatikonda, and Duygu Ucar Managing and Mining Graph Data 547-580

Reviews

Title or AbstractTypeSponsor/EventDate/YearLocation
Search for an epigenetic cell identity signatureTalkSeoul National University2014SOUTH KOREA
An epigenetic biomarker for cell identityTalkCenter for Human Genetics Research2014Vanderbilt University Medical Center, Vanderbilt, TN
Epigenetic Pattern MiningTalkDepartment of Systems and Computational Biology2012Albert Einstein College of Medicine, Bronx, NY
Epigenetic Pattern MiningTalkJackson Laboratory2012Farmington, CT
Markov Clustering of Protein In- teraction Networks with Improved Balance and ScalabilityOtherACM Int’l Conference on Bioinformatics and Computational Biology, ACM-BCB2010Buffalo, NY
Supervised and Unsupervised Models to Analyze Human Epigenetic DataTalkIBM Computational Biology Group2010Yorktown Heights, NY
A Biclustering Algorithm to Explore Combinatorial Epigenetic CodeTalkHarvard Medical School2010Boston, MA
A Computational Model to Explore Combinatorial Epigenetic CodeTalkStanford Genetics Department2010Palo Alto, CA
A Computational Model to Explore Combinatorial Epigenetic CodeTalkThe University of Iowa, Computer Science Department2010Iowa City, IA
Constructing condition-dependent regulatory networks from diverse evidenceTalkTechnical University of Dresden, BIOTEC2010Dresden, GERMANY
Predicting Functionality of Protein-DNA Interactions by Integrating Diverse Evidence. The 17th Int’l Conference on Intelligent Systems for Molecular Biology, ISMBOtherISMB [Intelligent Systems for Molecular Biology2009Stockholm, SWEDEN
Mutual Information Based Extrinsic Similarity for Microarray AnalysisOtherBiCoB [Bioinformatics and Computational Biology]2009
Constructing and analyzing biological interaction networks for knowledge discoveryTalkBattelle Center for Mathematical Medicine2009The Research Institute at Nationwide Children’s Hospital, Columbus, OH
Constructing Biological Networks for Knowledge DiscoveryTalkNetherlands Cancer Institute2009Amsterdam, NETHERLANDS
Extraction and Analysis of Biological NetworksTalkSchool of Biomedical Engineering2009Drexel University, Philadelphia, PA
Data Mining Strategies for Information Extraction from Protein Interactions NetworksTalkStatistical and Applied Mathematical Sciences Institute2008Research Triangle Park, NC
Constructing, Mining, and Integrating Biological Networks for Knowledge DiscoveryTalkInformation and Communication Theory Group2008Delft University of Technology, Delft, NETHERLANDS
Investigating the use of Extrinsic Similarity Measures for Microarray AnalysisOtherBioKDD and SIGKDD2007
An Ensemble Framework for Clustering Protein-Protein Interaction NetworksOtherThe 15th Int’l Conference on Intelligent Systems for Molecular Biology ISMB2007
An Event-based Framework for Characterizing the Evolutionary Behavior of Interaction GraphsOtherThe 13th Int’l Conference on Knowledge Discovery and Data Mining, SIGKDD2007
Functional Modularity in Protein-Protein Interactions Graphs Using Hub-induced SubgraphsOtherThe 17th European Conf on Principles & Practice of Knowledge Discovery...2006Berlin, GERMANY
An Ensemble Approach for Clustering Scale-Free GraphsOtherThe LinkKDD workshop - 12th ACM Int’l Conference on Knowledge Discovery...2006Philadelphia, PA
Protein Folding Trajectories Analysis: Summarization, Folding Events Detection and Common Partial Folding Pathway IdentificationOther5th Int’l Workshop on Data Mining in Bioinformatics BioKDD held at 12th ACM2006
Construction of a Reference Gene Association Network from Multiple Profiling Data: Application to HIV gene expression datasetsTalkApplied Genomics Department Bristol Myers Squibb2006Hopewell, NJ
Effective Pre- processing Strategies for Functional Clustering of a Protein-Protein Interactions NetworkOtherThe 5th IEEE Symposium on Bioinformatics and Bioengineering, BIBE2005Minneapolis, MN