Program


Keynote speakers

See the list here

Selected contributions (Proceedings track)

  • Ghislain Durif, Laurent Modolo, Jeff E. Mold, Franck Picard and Sophie Lambert-Lacroix. Probabilistic Count Matrix Factorization for Single Cell Expression Data Analysis
  • Edouard Bonnet, Paweł Rzążewski and Florian Sikora. Designing RNA Secondary Structures is Hard
  • Franziska Görtler, Stefan Solbrig, Tilo Wettig, Peter J. Oefner, Rainer Spang and Michael Altenbuchinger. Loss-function learning for digital tissue deconvolution
  • Zhemin Zhou, Nina Luhmann, Nabil-Fareed Alikhan, Christopher Quince and Mark Achtman. Accurate Reconstruction of Microbial Strains Using Representative Reference Genomes
  • Ariya Shajii, Ibrahim Numanagić and Bonnie Berger. Latent variable model for aligning barcoded short-reads improves downstream analyses
  • Sebastien Roch and Kun-Chieh Wang. Circular Networks from Distorted Metrics
  • Shahab Sarmashghi, Kristine Bohmann, M. Thomas P. Gilbert, Vineet Bafna and Siavash Mirarab. Assembly-free and alignment-free barcoding from genome skims
  • Jochen Singer, Jack Kuipers, Katharina Jahn and Niko Beerenwinkel. SCIPhI: Single-cell mutation identification via phylogenetic inference
  • Cyril Galitzine, Pierre Jean Beltran, Ileana Cristea and Olga Vitek. Statistical inference of peroxisome dynamics
  • Anna Kuosmanen, Topi Paavilainen, Travis Gagie, Rayan Chikhi, Alexandru I. Tomescu and Veli Mäkinen. Using Minimum Path Cover to Boost Dynamic Programming on DAGs: Co-Linear Chaining Extended
  • Mikhail Kolmogorov, Jeffrey Yuan, Yu Lin and Pavel Pevzner. Assembly of Long Error-Prone Reads and Repeat Classification
  • Yaron Orenstein. Reverse de Bruijn: Utilizing Reverse Peptide Synthesis to Cover All Amino Acid k-mers
  • Tianming Zhou, Sheng Wang and Jinbo Xu. Deep learning reveals many more inter-protein residue-residue contacts than direct coupling analysis
  • Tyler Joseph and Itsik Pe’Er. Inference of population structure from ancient DNA
  • Anton Bankevich and Pavel Pevzner. Long Reads Enable Accurate Estimates Of Complexity Of Metagenomes
  • Ali Ebrahimpour Boroojeny, Akash Shrestha, Ali Sharifi-Zarchi, Suzanne Gallagher, S. Cenk Sahinalp and Hamidreza Chitsaz. GTED: Graph Traversal Edit Distance
  • Yuriy Sverchkov, Yi-Hsuan Ho, Audrey Gasch and Mark Craven. Context-Specific Nested Effects Models
  • Linh Huynh and Fereydoun Hormozdiari. Contribution of structural variation to genome structure: TAD fusion discovery and ranking
  • Naomi Yamada, William K.M. Lai, Nina Farrell, B. Franklin Pugh and Shaun Mahony. Characterizing protein-DNA binding event subtypes in ChIP-exo data
  • Shounak Chakraborty, Stefan Canzar, Tobias Marschall and Marcel H. Schulz. Chromatyping: Reconstructing nucleosome profiles from NOMe sequencing data
  • Sujun Li, Alex Decourcy and Haixu Tang. Constrained De Novo Sequencing of neo-Epitope Peptides using Tandem Mass Spectrometry
  • Dana Silverbush, Simona Cristea, Gali Yanovich, Tamar Geiger, Niko Beerenwinkel and Roded Sharan. ModulOmics: Integrating Multi-Omics Data to Identify Cancer Driver Modules
  • Prashant Pandey, Fatemeh Almodaresi, Michael A. Bender, Michael Ferdman, Rob Johnson and Rob Patro. Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index
  • Mehrdad Bakhtiari, Sharona Shleizer-Burko, Melissa Gymrek, Vikas Bansal and Vineet Bafna. Targeted Genotyping of Variable Number Tandem Repeats with adVNTR
  • Yang Yang, Quanquan Gu, Takayo Sasaki, Rachel O’neill, David Gilbert and Jian Ma. Continuous-trait probabilistic model for comparing multi-species functional genomic data
  • Sharma V. Thankachan, Chaitanya Aluru, Sriram P. Chockalingam and Srinivas Aluru. Algorithmic Framework for Approximate Matching Under Bounded Edits with Applications to Sequence Analysis
  • Stefan Hammer, Yann Ponty, Wei Wang and Sebastian Will. Fixed-Parameter Tractable Sampling for RNA Design with Multiple Target Structures
  • Yue Wu, Sriram Sankararaman and Eleazar Eskin. A unifying framework for summary statistics imputation
  • Salem Malikic, Katharina Jahn, Jack Kuipers, S. Cenk Sahinalp and Niko Beerenwinkel. Integrative inference of subclonal tumor evolution from single-cell and bulk sequencing data
  • Yijie Wang, Jan Hoinka, Piotr Swiderski and Teresa Przytycka. AptaBlocks: Accelerating the Design of RNA-based Drug Delivery Systems
  • Mark Leiserson, Jason Fan, Anthony Cannistra, Inbar Fried, Tim Lim, Thomas Schaffner, Mark Crovella and Benjamin Hescott. A Multi-Species Functional Embedding Integrating Sequence and Network Structure
  • Rebecca Sarto Basso, Dorit Hochbaum and Fabio Vandin. Efficient Algorithms to Discover Alterations with Complementary Functional Association in Cancer
  • Elior Rahmani, Regev Schweiger, Saharon Rosset, Sriram Sankararaman and Eran Halperin. Tensor Composition Analysis Detects Cell-Type Specific Associations in Epigenetic Studies
  • Tristan Bepler, Andrew Morin, Alex Noble, Julia Brasch, Lawrence Shapiro and Bonnie Berger. Positive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs
  • Gary Larson, Scott Schmidler and Jeffrey Thorne. Modeling Dependence in Evolutionary Inference for Proteins
  • Hyunghoon Cho, Bonnie Berger and Jian Peng. Generalizable visualization of mega-scale single-cell data
  • Yunan Luo, Jianzhu Ma, Yang Liu, Qing Ye, Trey Ideker and Jian Peng. Deciphering signaling specificity with deep neural networks
  • Antoine Soulé, Jean-Marc Steyaert and Jerome Waldispuhl. A nested 2-level cross-validation ensemble learning pipeline suggests a negative pressure against crosstalk snoRNA-mRNA interactions in Saccharomyces Cerevisae.