Duygu Ucar

15 papers A* 1C 1Journal 8Unranked 4
YearRankTypeTitle / Venue / Authors
2021 J jnl
CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq data.
PLoS Comput. Biol.
Asa Thibodeau, Shubham Khetan, Alper Eroglu, Ryan Tewhey, Michael L. Stitzel, Duygu Ucar
2020 J jnl
V-SVA: an R Shiny application for detecting and annotating hidden sources of variation in single-cell RNA-seq data.
Bioinform.
Nathan Lawlor, Eladio J. Márquez, Donghyung Lee, Duygu Ucar
2016 J jnl
QuIN: A Web Server for Querying and Visualizing Chromatin Interaction Networks.
PLoS Comput. Biol.
Asa Thibodeau, Eladio J. Márquez, Oscar Luo, Yijun Ruan, Francesca Menghi, Dong-Guk Shin, Michael L. Stitzel, Paola Vera-Licona, Duygu Ucar
2010 — ch.
A Survey of Graph Mining Techniques for Biological Datasets.
Managing and Mining Graph Data
Srinivasan Parthasarathy, Shirish Tatikonda, Duygu Ucar
2010 J jnl
Discover regulatory DNA elements using chromatin signatures and artificial neural network.
Bioinform.
Hiram A. Firpi, Duygu Ucar, Kai Tan
2010 — conf
Markov clustering of protein interaction networks with improved balance and scalability.
BCB
Venu Satuluri, Srinivasan Parthasarathy, Duygu Ucar
2009 J jnl
An event-based framework for characterizing the evolutionary behavior of interaction graphs.
ACM Trans. Knowl. Discov. Data
Sitaram Asur, Srinivasan Parthasarathy, Duygu Ucar
2009 — conf
Mutual Information Based Extrinsic Similarity for Microarray Analysis.
BICoB
Duygu Ucar, Fatih Altiparmak, Hakan Ferhatosmanoglu, Srinivasan Parthasarathy
2009 J jnl
Predicting functionality of protein-DNA interactions by integrating diverse evidence.
Bioinform.
Duygu Ucar, Andreas Beyer, Srinivasan Parthasarathy, Christopher T. Workman
2007 J jnl
A spatio-temporal mining approach towards summarizing and analyzing protein folding trajectories.
Algorithms Mol. Biol.
Hui Yang, Srinivasan Parthasarathy, Duygu Ucar
2007 — conf
An ensemble framework for clustering protein-protein interaction networks.
ISMB/ECCB (Supplement of Bioinformatics)
Sitaram Asur, Duygu Ucar, Srinivasan Parthasarathy
2007 A* conf
An event-based framework for characterizing the evolutionary behavior of interaction graphs.
KDD
Sitaram Asur, Srinivasan Parthasarathy, Duygu Ucar
2007 J jnl
Construction of a reference gene association network from multiple profiling data: application to data analysis.
Bioinform.
Duygu Ucar, Isaac Neuhaus, Petra Ross-MacDonald, Charles Tilford, Srinivasan Parthasarathy, Nathan O. Siemers, Rui-Ru Ji
2006 — conf
Improving Functional Modularity in Protein-Protein Interactions Graphs Using Hub-Induced Subgraphs.
PKDD
Duygu Ucar, Sitaram Asur, Ümit V. Çatalyürek, Srinivasan Parthasarathy
2005 C conf
Effective Pre-Processing Strategies for Functional Clustering of a Protein-Protein Interactions Network.
BIBE
Duygu Ucar, Srinivasan Parthasarathy, Sitaram Asur, Chao Wang