| Session | Time | Speaker | Title | Full-Author List |
|---|---|---|---|---|
| Breakfast, poster setup, registration | 8:30 AM | |||
| Morning keynote | 9:00 AM | Pavel Pevzner | Towards complete genomics and metagenomics | |
| Session 1 (ML & statistical analysis) | 10:00 AM | Liliana Florea | Predicting Alu exonization in the human genome with a Deep Learning model | Zitong He and Liliana Florea |
| 10:15 AM | Justin Silverman | Scale Reliant Inference: with Applications to Sequence Count Data Analysis | Justin Silverman and Michelle Nixon | |
| Morning coffee break with posters | 10:30 AM | |||
| Session 2 (sketching) | 11:00 AM | Amatur Rahman | Compression algorithms for colored de Bruijn graphs | Amatur Rahman, Yoann Dufresne and Paul Medvedev |
| 11:15 AM | Shaopeng Liu | ERS-mer: a flexible-size seeding method for sequence comparison | Shaopeng Liu and David Koslicki | |
| 11:30 AM | Minh Hoang | Low density and high conservation pattern-aware sequence sketch | Quang Minh Hoang, Guillaume Marçais and Carl Kingsford | |
| 11:45 AM | Jason Fan | Fast and modular indexing of unitig-coherent metadata over spectrum preserving tilings in practice | Jason Fan, Giulio Ermanno Pibiri and Robert Patro | |
| Lunch break (lunch provided) and poster session | 12:00 PM | |||
| Session 3 (long-reads) | 1:30 PM | Alejandro Ortigas-Vasquez | How third-generation sequencing using high-fidelity long reads is changing the way we think about DNA viruses | Alejandro Ortigas-Vasquez and Moriah Szpara |
| 1:45 PM | Vikram Shivakumar | Sigmoni: efficient pangenome multi-classification of nanopore signal | Vikram Shivakumar, Omar Ahmed, Sam Kovaka, Mohsen Zakeri and Benjamin Langmead | |
| 2:00 PM | Mohsen Zakeri | Real-time nanopore adaptive sampling with move data structure | Mohsen Zakeri, Nathaniel Brown, Omar Ahmed, Travis Gagie and Ben Langmead | |
| 2:15 PM | Alex Sweeten | Mod.Plot: A Rapid and Interactive Visualization of Tandem Repeats | Alexander Sweeten, Adam Phillippy and Michael Schatz | |
| Afternoon coffee break with posters | 2:30 PM | |||
| Session 4 (transcriptomics) | 3:00 PM | Tasfia Zahin | Detection of Circular RNA through Bridging | Tasfia Zahin, Carl Zang and Mingfu Shao |
| 3:15 PM | Ilia Minkin | Quality assessment of human splice site annotation based on conservation in multiple species | Ilia Minkin and Steven Salzberg | |
| 3:30 PM | Qunhua Li | RETROFIT: Reference-free deconvolution of cell-type mixtures in spatial transcriptomics | Roopali Singh, Xi He, Adam Keebum Park, Ross Hardison, Xiang Zhu and Qunhua Li | |
| 3:45 PM | Yi Xing | Robust transcript analysis of long-read RNA-seq data | Yi Xing | |
| Afternoon keynote | 4:00 PM | Mona Singh | TBD | |
| Closing remarks | 5:00 PM |
The Center for Computational Biology and Bioinformatics at Penn State will host a one-day workshop on emerging methods for sequence analysis on May 24, 2023. The workshop will feature a mix of invited speakers and talks selected from submitted abstracts. We thank Mona Singh, Princeton University, and Pavel Pevzner, UC San Diego, for accepting our invitation as keynote speakers! Please register through this link. Registration is free.
We invite submissions of abstracts highlighting methodological innovation and summarizing experimental or theoretical results through EasyChair: https://easychair.org/conferences/?conf=wemsa23. Abstracts should be max. 250 words long and can be submitted until April 1st. We encourage submission of unpublished work. There is no formal review. After reading through all abstracts, the organizing committee will select abstracts for oral presentation. We invite authors of remaining abstracts to present their work in the form of a poster. If you have any questions, please email the organizers at wemsa23@psu.edu.
Submissions in the general scope of methods for biological sequence analysis will be considered. Topics of interest include, but are not limited to:
Note: if using adaptive technology and you require an accommodation, please instead submit your abstract by email to wemsa23@psu.edu.