Boston, MA, USA
April 27 - 28, 2024


Saturday, April 27

8:30 - 9:15 am


9:15-9:30 am

Welcome and Instructions

9:30-10:30 am

Keynote Speaker: Devaki Bhaya
Title: Diversity, dynamics and defense in phototrophic microbial communities

10:30-10:45 am

Coffee break

Session: Phylogenetic Networks
Chair: Mukul Bansal

10:45 - 11:15 am

Statistically Consistent Estimation of Rooted and Unrooted Level-1 Phylogenetic Networks from SNP data
Tandy Warnow, Yasamin Tabatabaee and Steven Evans

11:15 - 11:45 am

Galled Perfect Transfer Networks
Alitzel López Sánchez and Manuel Lafond

12:00 - 1:30 pm

Lunch break

Session: Homology and Phylogenetic Reconstruction
Chair: Tandy Warnow

1:30 - 2:00 pm

Inferring Transcript Phylogenies from Transcript Ortholog Clusters
Wend Yam D. D. Ouedraogo and Aida Ouangraoua

2:00-2:30 pm

Gene-Adjacency-Based Phylogenetics under a Stochastic Gain-Loss Model
Yoav Dvir, Shelly Brezner and Sagi Snir

Session: Posters

2:30-3:30 pm

Flash Talks about Posters

  • An Improved Computational Approach for Detecting Partial Gene Transfer
  • Enhancing Functional Annotation and Classification of Toxins with VenOmiCS4BD
  • Identifying Rapidly Evolving Genes in Coral Species to Better Understand Coral Bleaching
  • The Role of Epigenetic Regulation in the Evolution of Duplicate Genes
  • DCJ-indel Genome Evolution Beyond Parsimony
  • Perfect Transfer Networks under the Dollo Parsimony Model
  • Unraveling the DNA Methylation Landscape Associated with Gene Copy Number Variations
  • Integrative Variable Selection Method for Subgroup Analyses in Type 1 Diabetes Longitudinal Genomics Data
3:30-4:30 pm

Poster Session

Session: Tools for Evolution Reconstruction
Chair: Manuel Lafond

4:30 - 5:00 pm

Gene tree parsimony in the presence of gene duplication, loss, and incomplete lineage sorting
Prottoy Saha, Md. Shamiul Islam, Tasnim Rahman, Adiba Shaira, Kazi Noshin, Rezwana Reaz and Md. Shamsuzzoha Bayzid

5:00 - 5:30 pm

REvolutionH-tl : Reconstruction of Evolutionary Histories tool
José Antonio Ramírez-Rafael, Annachiara Korchmaros, Katia Avina-Padilla, Alitzel López-Sánchez, Andrea Arlette España-Tinajero, Peter F. Stadler and Maribel Hernandez-Rosales

5:30 - 6:00 pm

Assessing the potential of gene tree parsimony for microbial phylogenomics
Samson Weiner, Yutian Feng, J.Peter Gogarten and Mukul S. Bansal

Sunday, April 28

8:30 - 9:30 am


9:30 - 10:30 am

Keynote Speaker: Katja Nowick
Title: Comparative regulatory genomics: tools and insights into human evolution

10:30 - 10:45 am

Coffee break

Session: Genome Rearrangements
Chair: Alitzel López Sánchez

10:45 - 11:15 am

Maximum Alternating Balanced Cycle Decomposition and Applications in Sorting by Intergenic Operations Problems
Klairton Brito, Alexsandro Oliveira Alexandrino, Gabriel Siqueira, Andre Rodrigues Oliveira, Ulisses Dias and Zanoni Dias

11:15 - 11:45 am

On the Distribution of Synteny Blocks under a Neutral Model of Genome Dynamics,
Sagi Snir, Yuri Wolf, Shelly Brezner, Eugene Koonin and Mike Steel

11:45 - 12:15 pm

Sampling gene adjacencies and geodesic points of random genomes
Poly H. da Silva, Arash Jamshidpey and David Sankoff

12:30 - 1:30 pm

Lunch break (provided)

Session: Genome Evolution
Chair: Maribel Hernández-Rosales

1:30 - 2:00 pm

Transcription factors across the Escherichia coli pangenome: a 3D perspective
Gabriel Moreno-Hagelsieb

2:00 - 2:30 pm

Revisiting the effects of MDR1 Variants using computational approaches
Tal Gutman and Tamir Tuller

2:30 - 3:00 pm

Evidence of increased adaptation of Omicron SARS-CoV-2 codon to humans
Alma Davidson, Marina Parr, Franziska Totzeck, Alexander Churkin, Danny Barash, Dmitrij Frishman and Tamir Tuller

Session: Posters

3:00 - 3:30 pm

Flash Talks about Posters

  • Leveraging Single Cell Strategy for Detecting Heterogeneity in Immune Response for Type 1 Diabetes Risk and Clinical Trial Responder Status
  • Dissecting the Regulatory Landscapes: A Comparative Transcriptomic Analysis of TPMVd and PSTVd Infections
  • Transformer-Based Refinement of Pseudoknot Predictions in RNA Secondary Structures
  • Prophage Identification using Genomic Language Models
3:30 - 5:00 pm

Poster session & coffee break

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