Research

Methods for inferring and utilizing enhancer-promoter networks

Methods for the Analysis of Multiomic and Single-cell Data

Integration of Gene Expression and DNA Methylation Data Across Different Experiments

Genomic analysis of the spatial organization of the genome and its effect on cell type-specific p53 transcriptional responses

Methods for efficient analysis of large sequencing experiments

Personalized phylogeny-guided detection of driver genes based on point mutations and copy number changes in the cancer genome

Dataset-adaptive minimizer order reduces memory usage in k-mer counting

A Machine Learning Model for Predicting Deterioration of COVID-19 Inpatients

Improving the efficiency of de Bruijn graph construction using compact universal hitting sets

Early detection of prostate gland and breast cancer risk based on routine check-up data using survival analysis trees for left-truncated and right-censored data

Cancer subtype identification using large-scale omics data analysis

Analysis of network-based module discovery algorithms from the perspective of biological enrichment

Non-Coding RNA Sequence Alignment by Molecular Sequence and Structure Properties

Personalized prioritization of driver genes

Models for Structural and Numerical Alterations in Cancer

Understanding of Developmental and Physiological Conditions of the Inner Ear using Transcriptome and Proteome Analysis

On reducing complexity of deep sequencing data analysis

3-D genomic interactions and their relation to gene expression

Using large-scale high-throughput data for enhancer-promoter network inference

Reconstructing cancer karyotypes from paired-end reads and copy number data

Novel methods for integrative analysis of heterogeneous large scale biomedical data

Unsupervised characterization of human brain networks that are involved in emotional processing and regulation

Discovering motifs using high-throughput in vitro data

Post-silicon test optimization using methods from bioinformatics

Using differential co-expression for dissecting biological processes and revealing disease specific gene regulation.

Modeling and Analysis of Perturbations in Gene Regulatory Networks.

Prior Knowledge Integration of Gene Networks Data into Gene Expression Analysis.

Computational Problems in Genome Rearrangements: from Evolution to Cancer.

Topology-Free Querying of Protein Interaction Networks.

Discovering motifs in large genomic datasets.

Network-based algorithms for analysis of heterogeneous biomedical data.

Discovery of motifs involved in transcriptional regulation.

Feature selection methods for classification of gene expression profiles.

Computational analysis of molecular networks: modeling and reconstruction

A probabilistic model for the evolution of promoters

Genome-wide dissection of cellular responses to DNA double-strand breaks using integrated analysis of expression microarrays and bioinformatics

Methods and tools in computational human genetics

The Influence of Chromatin Modifiers on Transcription

The characteristics, regulation and evolution of human alternatively spliced exons

Development of Bioinformatics Methods for Analysis of Functional Genomics Data and Their Application to the Study of DNA Damage Responses

Computational Problems in Modern Human Genetics

Computational Analysis of Transcriptional Programs: Function and Evolution

The Bicluster Graph Editing Problem

Combinatorial Algorithms for Genome Rearrangements and DNA Oligonucleotide Arrays

Tools for Analysis and Visualization of Gene Expression Data Obtained Using Microarrays

Computational Resolution and Tagging of Perfect Phylogeny Haplotypes

A Correction to the Theory of Sorting Genomes by Reversals and Translocations

The Degenerate Primer Design Problem

Designing Multi-Route Synthesis in Combinatorial Chemistry - Complexity and Algorithms

Algorithmic Problems in Graph Theory and Molecular Biology

Algorithmic Methods for Reconstruction of Biological Sequences, Gene Orders and Maps

Development of a Bioinformatic Tool for Interactive Study of Protein-Protein Interactions

Graph Modification Problems and their Applications to Genomic Research

Computational Expansion of Genetic Networks

Analysis of Oligonucleotide Array Data: Clone Preselection and Hybridization Models

Complexity and Approximation of Some Graph Modification Problems

Algorithms for Physical Mapping with Non-Unique Probes

Graph Algorithms for DNA Physical Mapping with Noisy Data

Efficient Algorithms for Constructing and Employing Variable-Length Markov Models of Language

Interval Graphs with Metric Constraints

Efficient Algorithms for the Minimum Cost Flow Problem with Multiple Arcs

A Primal-Dual Path Following Algorithm for Linear Programming with Box-Type Constraints