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About
President
Governance
Partner Institutions
Visit
People
Management
Faculty
Postdocs
Visiting Scholars
Staff
Administration
Academic Support
Research
Research Groups
Courses
Seminars
Join Us
Faculty
Postdocs
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Events
Conferences
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Forum
Life @ BIMSA
Accommodation
Transportation
Facilities
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News
News
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Qiuzhen College, Tsinghua University
Yau Mathematical Sciences Center, Tsinghua University (YMSC)
Tsinghua Sanya International  Mathematics Forum (TSIMF)
Shanghai Institute for Mathematics and  Interdisciplinary Sciences (SIMIS)
BIMSA > Seminar on Bioinformatics Alignment-free phylogenetics and population genetics
Alignment-free phylogenetics and population genetics
Organizer
Shing Toung Yau
Speaker
Mengcen Guan
Time
Monday, February 10, 2025 9:30 PM - 10:00 PM
Venue
Online
Abstract
Phylogenetics and population genetics are central disciplines in evolutionary biology. Both are based on comparative data, today usually DNA sequences. These have become so plentiful that alignment-free sequence comparison is of growing importance in the race between scientists and sequencing machines. In phylogenetics, efficient distance computation is the major contribution of alignment-free methods. A distance measure should reflect the number of substitutions per site, which underlies classical alignment-based phylogeny reconstruction. Alignment-free distance measures are either based on word counts or on match lengths, and I apply examples of both approaches to simulated and real data to assess their accuracy and efficiency. While phylogeny reconstruction is based on the number of substitutions, in population genetics, the distribution of mutations along a sequence is also considered. This distribution can be explored by match lengths, thus opening the prospect of alignment-free population genomics.
Beijing Institute of Mathematical Sciences and Applications
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