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IEEE Transactions on Computational Biology and Bioinformatics|April 14, 2026
Optimal Reconstruction of Graph Evolution History Under Preferential Attachment ModelElena Kudret, Emre SeferJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|December 6, 2024
DRGAT: Predicting Drug Responses Via Diffusion-Based Graph Attention NetworkEmre SeferIEEE/ACM Transactions on Computational Biology and Bioinformatics|April 5, 2022
Biocode: A Data-Driven Procedure to Learn the Growth of Biological NetworksEmre SeferBMC Bioinformatics|April 13, 2022
A comparison of topologically associating domain callers over mammals at high resolutionEmre SeferBMC Genomics|April 10, 2022
ProbC: joint modeling of epigenome and transcriptome effects in 3D genomeEmre SeferScientific Reports|December 17, 2025
Analysis of chromatin structure reveals the connection between sQTLs and the splicing of distant genesBatuhan Eralp, Emre SeferIEEE Transactions on Computational Biology and Bioinformatics|November 17, 2025
GAT-HiC: Efficient Reconstruction of 3D Chromosome Structure via Residual Graph Attention Neural NetworksBeyza Kaya, Emre SeferKnowledge and Information Systems|November 9, 2016
Diffusion archeology for diffusion progression history reconstructionEmre Sefer, Carl KingsfordScientific Reports|October 29, 2025
Joint analysis of sQTL and Hi-C reveals spatial proximity between sQTLs and target genes in cancer tissuesBatuhan Eralp, Emre SeferBMC Cancer|May 20, 2024
Reference-free inferring of transcriptomic events in cancer cells on single-cell dataBatuhan Eralp, Emre SeferPageof 3