Duygu Ucar

Publication Activity (10 Years)

Years Active: 2005-2021
Publications (10 Years): 3

Top Topics

Interaction Networks

Mass Spectrometry

Protein Protein Interaction Networks

Top Venues

PLoS Comput. Biol.

Publications

Asa Thibodeau, Shubham Khetan, Alper Eroglu, Ryan Tewhey, Michael L. Stitzel, Duygu Ucar
CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq data. PLoS Comput. Biol. 17 (12) (2021)
Nathan Lawlor, Eladio J. Márquez, Donghyung Lee, Duygu Ucar
V-SVA: an R Shiny application for detecting and annotating hidden sources of variation in single-cell RNA-seq data. Bioinform. 36 (11) (2020)
Asa Thibodeau, Eladio J. Márquez, Oscar Luo, Yijun Ruan, Francesca Menghi, Dong-Guk Shin, Michael L. Stitzel, Paola Vera-Licona, Duygu Ucar
QuIN: A Web Server for Querying and Visualizing Chromatin Interaction Networks. PLoS Comput. Biol. 12 (6) (2016)
Venu Satuluri, Srinivasan Parthasarathy, Duygu Ucar
Markov clustering of protein interaction networks with improved balance and scalability. BCB (2010)
Hiram A. Firpi, Duygu Ucar, Kai Tan
Discover regulatory DNA elements using chromatin signatures and artificial neural network. Bioinform. 26 (13) (2010)
Duygu Ucar, Fatih Altiparmak, Hakan Ferhatosmanoglu, Srinivasan Parthasarathy
Mutual Information Based Extrinsic Similarity for Microarray Analysis. BICoB (2009)
Sitaram Asur, Srinivasan Parthasarathy, Duygu Ucar
An event-based framework for characterizing the evolutionary behavior of interaction graphs. ACM Trans. Knowl. Discov. Data 3 (4) (2009)
Duygu Ucar, Andreas Beyer, Srinivasan Parthasarathy, Christopher T. Workman
Predicting functionality of protein-DNA interactions by integrating diverse evidence. Bioinform. 25 (12) (2009)
Sitaram Asur, Duygu Ucar, Srinivasan Parthasarathy
An ensemble framework for clustering protein-protein interaction networks. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Hui Yang, Srinivasan Parthasarathy, Duygu Ucar
A spatio-temporal mining approach towards summarizing and analyzing protein folding trajectories. Algorithms Mol. Biol. 2 (2007)
Sitaram Asur, Srinivasan Parthasarathy, Duygu Ucar
An event-based framework for characterizing the evolutionary behavior of interaction graphs. KDD (2007)
Duygu Ucar, Isaac Neuhaus, Petra Ross-MacDonald, Charles Tilford, Srinivasan Parthasarathy, Nathan O. Siemers, Rui-Ru Ji
Construction of a reference gene association network from multiple profiling data: application to data analysis. Bioinform. 23 (20) (2007)
Duygu Ucar, Sitaram Asur, Ümit V. Çatalyürek, Srinivasan Parthasarathy
Improving Functional Modularity in Protein-Protein Interactions Graphs Using Hub-Induced Subgraphs. PKDD (2006)
Duygu Ucar, Srinivasan Parthasarathy, Sitaram Asur, Chao Wang
Effective Pre-Processing Strategies for Functional Clustering of a Protein-Protein Interactions Network. BIBE (2005)