CS681 paper presentations

CS 681 Paper Presentations

Here are several recommendations for paper presentations. This page will be updated semi-regularly. You can select one of the papers below, or any other paper related to the course topics.

Assembly algorithms:

Cortex (Assigned to Murat İşbilen)
Assembly string graphs using FM-index (Assigned to Mecit Sarı)
SGA (Assigned to Fatma Balcı)
Velvet-SC
Ray (parallel assembly) (Assigned to Begüm Genç)

RNA folding and interactions

ExpaRNA
Sparse RNA folding (Assigned to Muhsin Can Orhan)
RNAPlex

Genomic Variation

He et al. CNVs in repeat regions
Delly (Assigned to Marzieh Rasekh)
ExomeCNV (Assigned to Can Fahrettin Koyuncu)
CONiFer (Assigned to Sami Arpa)

Misc

Analysis of Complete Genomics sequence data
Oscar Pastor et al. Model-based engineering applied to the interpretation of the human genome. In The evolution of conceptual modeling, Roland Kaschek and Lois Delcambre (Eds.). Springer-Verlag, Berlin, Heidelberg 306-330 (2011). (Assigned to Murat Açar)

others that you might be interested in.

Schedule

April 8: Fatma Balcı, Elif Dal
April 10: Aly Ezzat, Fahrettin Can Koyuncu, Sami Arpa, Marzieh Rasekh
April 15: Murat Açar, Begüm Genç, Mecit Sarı, Ozan Karsavuran
April 17: No class
April 24: Muhsin Can Orhan, Burçak Otlu Sarıtaş, Murat İşbilen, Huma Shehwana