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Journal Articles
- 2024
[j11]Abdul Haluk Batur Gezici
, Emre Sefer:
Deep Transformer-Based Asset Price and Direction Prediction. IEEE Access 12: 24164-24178 (2024)- 2023
- [j10]Necla Nisa Soylu, Emre Sefer:
BERT2OME: Prediction of 2′-O-Methylation Modifications From RNA Sequence by Transformer Architecture Based on BERT. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 2177-2189 (2023) - 2022
- [j9]Emre Sefer:
A comparison of topologically associating domain callers over mammals at high resolution. BMC Bioinform. 23(1): 127 (2022) - [j8]Emre Sefer:
MOCMIN: convex inferring of modular low-rank contact networks over COVID diffusion data. Turkish J. Electr. Eng. Comput. Sci. 30(7): 2568-2585 (2022) - [j7]Emre Sefer:
BioCode: A Data-Driven Procedure to Learn the Growth of Biological Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 19(6): 3103-3113 (2022) - 2021
- [j6]Emre Sefer:
Hi-C interaction graph analysis reveals the impact of histone modifications in chromatin shape. Appl. Netw. Sci. 6(1): 54 (2021) - 2019
- [j5]Emre Sefer, Carl Kingsford:
Semi-nonparametric modeling of topological domain formation from epigenetic data. Algorithms Mol. Biol. 14(1): 4:1-4:11 (2019) - 2016
- [j4]Emre Sefer, Geet Duggal, Carl Kingsford:
Deconvolution of Ensemble Chromatin Interaction Data Reveals the Latent Mixing Structures in Cell Subpopulations. J. Comput. Biol. 23(6): 425-438 (2016) - [j3]Emre Sefer, Carl Kingsford:
Diffusion archeology for diffusion progression history reconstruction. Knowl. Inf. Syst. 49(2): 403-427 (2016) - 2013
- [j2]Geet Duggal, Rob Patro, Emre Sefer, Hao Wang, Darya Filippova, Samir Khuller, Carl Kingsford:
Resolving spatial inconsistencies in chromosome conformation measurements. Algorithms Mol. Biol. 8: 8 (2013) - 2012
- [j1]Rob Patro, Emre Sefer, Justin Malin, Guillaume Marçais, Saket Navlakha, Carl Kingsford:
Parsimonious reconstruction of network evolution. Algorithms Mol. Biol. 7: 25 (2012)
Conference and Workshop Papers
- 2023
- [c17]Emre Sefer, Samuel Gilmour:
Optimal Reconstruction of Graph Evolution Dynamics for Duplication-Based Models. COMPLEX NETWORKS (2) 2023: 470-483 - [c16]Betul Seyhan, Emre Sefer:
NFT Primary Sale Price and Secondary Sale Prediction via Deep Learning. ICAIF 2023: 116-123 - [c15]Gorkem Yencak, Emre Sefer:
SGD with Partial Hessian for Deep Recommendation System Optimization. ICDM (Workshops) 2023: 181-187 - 2022
- [c14]Tuna Tuncer, Uygar Kaya, Emre Sefer, Onur Alacam, Tugcan Hoser:
Asset Price and Direction Prediction via Deep 2D Transformer and Convolutional Neural Networks. ICAIF 2022: 79-86 - [c13]Ugur Dolu, Emre Sefer:
A Novel GBT-Based Approach for Cross-Channel Fraud Detection on Real-World Banking Transactions. AIAI (1) 2022: 73-84 - 2020
- [c12]Emre Sefer:
Joint Modeling of Histone Modifications in 3D Genome Shape Through Hi-C Interaction Graph. COMPLEX NETWORKS (2) 2020: 410-421 - 2016
- [c11]Emre Sefer, Ziv Bar-Joseph:
Shall We Dense? Comparing Design Strategies for Time Series Expression Experiments. RECOMB 2016: 244-245 - 2015
- [c10]Emre Sefer, Carl Kingsford:
Convex Risk Minimization to Infer Networks from probabilistic diffusion data at multiple scales. ICDE 2015: 663-674 - [c9]Emre Sefer, Geet Duggal, Carl Kingsford:
Deconvolution of Ensemble Chromatin Interaction Data Reveals the Latent Mixing Structures in Cell Subpopulations. RECOMB 2015: 293-308 - [c8]Emre Sefer, Carl Kingsford:
Semi-nonparametric Modeling of Topological Domain Formation from Epigenetic Data. WABI 2015: 148-161 - 2014
- [c7]Emre Sefer, Carl Kingsford:
Diffusion Archaeology for Diffusion Progression History Reconstruction. ICDM 2014: 530-539 - 2012
- [c6]Rob Patro, Geet Duggal, Emre Sefer, Hao Wang, Darya Filippova, Carl Kingsford:
The missing models: a data-driven approach for learning how networks grow. KDD 2012: 42-50 - [c5]Geet Duggal, Rob Patro, Emre Sefer, Hao Wang, Darya Filippova, Samir Khuller, Carl Kingsford:
Resolving Spatial Inconsistencies in Chromosome Conformation Data. WABI 2012: 288-300 - 2011
- [c4]Emre Sefer, Carl Kingsford:
Metric Labeling and Semi-metric Embedding for Protein Annotation Prediction. RECOMB 2011: 392-407 - [c3]Robert Gove, Nick Gramsky, Rose Kirby, Emre Sefer, Awalin Sopan, Cody Dunne, Ben Shneiderman, Meirav Taieb-Maimon:
NetVisia: Heat Map & Matrix Visualization of Dynamic Social Network Statistics & Content. SocialCom/PASSAT 2011: 19-26 - [c2]Rob Patro, Emre Sefer, Justin Malin, Guillaume Marçais, Saket Navlakha, Carl Kingsford:
Parsimonious Reconstruction of Network Evolution. WABI 2011: 237-249 - 2009
- [c1]Dana S. Nau, Ugur Kuter, Emre Sefer:
Thinking Ahead in Real-Time Search. ICAPS 2009
Coauthor Index
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