Special Seminar on Bioinformatics
Time: Tuesday, 14, March 2017 at 12:15 Location: Auditorium TA101
Presenter: Babak Khalaj Professor of Electrical Engineering Sharif University of Technology https://scholar.google.com/citations?user=8HsoXAUAAAAJ
Title: Information Theoretic Views on Genome Processing
Abstract: In this talk, we will discuss how views from Information Theory can be adopted in Genomics to identify new bounds on the number of reads required to achieve given performance levels in downstream analysis. Along this path, a new read "termination" policy will be introduced to reduce the required the number of reads for a given coverage. Interestingly, we will show that the well-known Waterman-Lander bound can be broken under the new framework leading to much less number of reads required to achieve whole genome coverage. As another example, the case of DNA Pool sequencing will be presented where we investigate theoretic bounds on DNA fragment lengths to lower the tagging ratio or, in an extreme case, alleviate the need for tagging. Finally, a new alignment scheme, known as Meta-Aligner, will also be proposed that shows promising results in long read alignment.
All Welcome!
Kind regards, Nader
Dr Nader Aryamanesh Senior Postdoctoral Research Fellow Department of Ecology and Genetics FIN-90014 University of Oulu Finland Phone: +358 294 481 442 Mobile: +358 505298362 Email: Nader.Aryamanesh@oulu.fimailto:Nader.Aryamanesh@oulu.fi
________________________________ From: Nader Aryamaneshmailto:Nader.Aryamanesh@oulu.fi Sent: 27/02/2017 4:02 PM To: bco@lists.oulu.fimailto:bco@lists.oulu.fi; bioposti@lists.oulu.fimailto:bioposti@lists.oulu.fi; biolaitos@lists.oulu.fimailto:biolaitos@lists.oulu.fi Subject: Special Seminar on Bioinformatics 14.03.2017 @ 12:15
Special Seminar on Bioinformatics
Time: Tuesday, 14, March 2017 at 12:15 Location: Auditorium TA101
Presenter: Babak Khalaj Professor of Electrical Engineering Sharif University of Technology https://scholar.google.com/citations?user=8HsoXAUAAAAJ
Title: Information Theoretic Views on Genome Processing
Abstract: In this talk, we will discuss how views from Information Theory can be adopted in Genomics to identify new bounds on the number of reads required to achieve given performance levels in downstream analysis. Along this path, a new read "termination" policy will be introduced to reduce the required the number of reads for a given coverage. Interestingly, we will show that the well-known Waterman-Lander bound can be broken under the new framework leading to much less number of reads required to achieve whole genome coverage. As another example, the case of DNA Pool sequencing will be presented where we investigate theoretic bounds on DNA fragment lengths to lower the tagging ratio or, in an extreme case, alleviate the need for tagging. Finally, a new alignment scheme, known as Meta-Aligner, will also be proposed that shows promising results in long read alignment.
All Welcome!
Kind regards, Nader
Dr Nader Aryamanesh Senior Postdoctoral Research Fellow Department of Ecology and Genetics FIN-90014 University of Oulu Finland Phone: +358 294 481 442 Mobile: +358 505298362 Email: Nader.Aryamanesh@oulu.fimailto:Nader.Aryamanesh@oulu.fi
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Nader Aryamanesh