List of works - S. Cenk Sahinalp

Alu repeat discovery and characterization within human genomes

scientific article

An algorithmic analysis of the role of unequal crossover in alpha-satellite DNA evolution

scientific article published on 01 January 2002

Biomolecular network motif counting and discovery by color coding

scientific article

Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes

scientific article published on 15 May 2009

Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data

scientific article

Detection and characterization of novel sequence insertions using paired-end next-generation sequencing

scientific article

From sequence to molecular pathology, and a mechanism driving the neuroendocrine phenotype in prostate cancer

scientific article published on July 2012

Integrated genome and transcriptome sequencing identifies a novel form of hybrid and aggressive prostate cancer

scientific article published on 21 March 2012

Mirroring co-evolving trees in the light of their topologies

scientific article published on 6 March 2012

Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery

scientific article

Not all scale-free networks are born equal: the role of the seed graph in PPI network evolution

scientific article

Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies

scientific article published on July 2008

Personalized copy number and segmental duplication maps using next-generation sequencing.

scientific article

Protein-protein interaction network evaluation for identifying potential drug targets.

scientific article published in May 2010

Sensitive and fast mapping of di-base encoded reads

scientific article published on 21 December 2011

Simultaneous structural variation discovery among multiple paired-end sequenced genomes

scientific article published on 2 November 2011

The effect of insertions and deletions on wirings in protein-protein interaction networks: a large-scale study.

scientific article published in February 2009

Towards improved assessment of functional similarity in large-scale screens: a study on indel length

scientific article published on January 2010

deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data

scientific article

mrsFAST: a cache-oblivious algorithm for short-read mapping.

scientific article

smyRNA: a novel Ab initio ncRNA gene finder

scientific article

List of works by S. Cenk Sahinalp

Alu repeat discovery and characterization within human genomes

An algorithmic analysis of the role of unequal crossover in alpha-satellite DNA evolution

Biomolecular network motif counting and discovery by color coding

Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes

Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data

Detection and characterization of novel sequence insertions using paired-end next-generation sequencing

From sequence to molecular pathology, and a mechanism driving the neuroendocrine phenotype in prostate cancer

Integrated genome and transcriptome sequencing identifies a novel form of hybrid and aggressive prostate cancer

Mirroring co-evolving trees in the light of their topologies

Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery

Not all scale-free networks are born equal: the role of the seed graph in PPI network evolution

Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies

Personalized copy number and segmental duplication maps using next-generation sequencing.

Protein-protein interaction network evaluation for identifying potential drug targets.

Sensitive and fast mapping of di-base encoded reads

Simultaneous structural variation discovery among multiple paired-end sequenced genomes

The effect of insertions and deletions on wirings in protein-protein interaction networks: a large-scale study.

Towards improved assessment of functional similarity in large-scale screens: a study on indel length

deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data

mrsFAST: a cache-oblivious algorithm for short-read mapping.

smyRNA: a novel Ab initio ncRNA gene finder