Schedule of HiTSeq 2023
July 25-26, 2023, Lyon, France
Keynote speakers
 |
Jan Korbel Head of Data Science European Molecular Biology Laboratory, Germany |
 |
Irene
Papatheodorou Team Leader European Bioinformatics Institute, UK |
July 25, 2023
| 10:30 | Welcome remarks | |
| 10:35 |
Keynote: Using single cell data to
understand disease and cell type differences across species Irene Papatheodorou, European Bioinformatics Institute |
|
| 11:30 |
Detecting Chromosomal Translocations using Augmented
Genome Sequence Graphs. Alister D'Costa, Philip Zuzarte, Michael Molnar, Tracy
Murphy, Mark Minden, Yun William Yu, Jared Simpson |
|
| 11:50 |
VeChat: Correcting errors in long reads using variation graphs. Xiao Luo, Xiongbin Kang, Alexander Schoenhuth | |
| 12:10 |
RawHash: Enabling Fast and Accurate Real-Time Analysis of Raw Nanopore Signals for Large Genomes. Can Firtina, Nika Mansouri Ghiasi, Joel Lindegger, Gagandeep Singh, Meryem Banu Cavlak, Haiyu Mao, Onur Mutlu | |
| 12:30 | Lunch break | |
| 13:40 |
ALLSTAR: Inference of ReliAble CausaL RuLes between Somatic MuTAtions and CanceR Phenotypes. Dario Simionato, Antonio Collesei, Federica Miglietta, Fabio Vandin | |
| 14:10 |
Estimate mutational signature exposure from sparse clinical sequencing data. Arnab Chakrabarti, Hiroshi Hamano, Lancelot Seillier, Kjong-Van Lehmann | |
| 14:30 |
PEKORA: High-Performance 3D Genome Reconstruction Using K-th Order Spearman's Rank Correlation Approximation. Yeremia Gunawan Adhisantoso, Jan Voges, Jörn Ostermann | |
| 14:50 |
Genetic interactions between translesion DNA synthesis enzymes in cancer. Aleix Bayona-Feliu, Marcos Moreno, Sergio Marín-Edo, Marcel McCullough, Miguel-Martín Álvarez, Fran Supek | |
| 15:10 |
Deep statistical modelling of nanopore sequencing translocation times reveals latent non-B DNA structures. Marjan Hosseini, Aaron Palmer, William Manka, Patrick GS Grady, Venkata Patchigolla, Jinbo Bi, Rachel O'Neill, Zhiyi Chi, Derek Aguiar | |
| 15:30 | Coffee break | |
| 16:00 |
SuperSampler: efficient scaled sketches for metagenomics and extensive genomics compositional analysis. Timothé Rouzé, Camille Marchet, Antoine Limasset | |
| 16:20 |
Locality-Preserving Minimal Perfect Hashing of K-Mers. Giulio Ermanno Pibiri, Yoshihiro Shibuya, Antoine Limasset | |
| 16:40 |
Building a Pangenome Alignment Index via Recursive Prefix-Free Parsing. Marco Oliva, Travis Gagie, Christina Boucher | |
| 17:00 |
Effects of Spaced k-mers on Alignment-Free Genotyping. Hartmut Häntze, Paul Horton | |
| 17:20 |
|
Seeding with Minimized Subsequence. Xiang Li, Qian Shi, Ke Chen, Mingfu Shao |
| 17:40 |
Scalable sequence database search using Partitioned Aggregated Bloom Comb-Trees. Camille Marchet, Antoine Limasset |
July 26, 2023
| 10:35 |
Keynote: Deciphering genomic
disease mechanisms via single-cell & single-molecule
sequencing Jan Korbel, European Molecular Biology Laboratory |
|
| 11:30 |
|
Coriolis: Enabling metagenomic classification on
lightweight mobile devices. Andrew Mikalsen,
Jaroslaw Zola |
| 11:50 |
|
Metabuli: sensitive and specific metagenomic
classification through a novel joint analysis of amino-acid
and DNA sequences. Jaebeom Kim, Martin Steinegger |
| 12:10 |
HaploDMF: viral haplotype reconstruction from long reads via deep matrix factorization. Dehan Cai, Jiayu Shang | |
| |
||
| 12:30 |
Lunch break |
|
| 13:50 |
SVJedi-graph: improving the genotyping of close and overlapping Structural Variants with long reads using a variation graph. Sandra Romain, Claire Lemaitre | |
| 14:10 |
Taxor: Fast and space-efficient taxonomic
classification of long reads. Jens-Uwe Ulrich, Bernhard Renard |
|
| 14:30 |
Leveraging Evolutionary
Constraints to Refine Somatic Variant Calls from Single-Cell
Sequencing Data. Gryte Satas, Matthew A. Myers,
Seongmin Choi, Sohrab Shah |
|
| 14:50 |
Themisto: a scalable colored k-mer index for
sensitive pseudoalignment against hundreds of thousands of
bacterial genomes. Jarno Alanko, Simon Puglisi,
Tommi Mäklin, Jaakko Vuohtoniemi, |
|
| 15:10 |
A multi-locus approach for accurate variant calling
in low-copy repeats using whole-genome sequencing.
Timofey Prodanov, Heinrich Heine University, Duesseldorf
40225, Germany, Germany Vikas Bansal |
|
| 15:30 |
Coffee break |
|
| 16:00 |
Variational Inference for Single-Cell Transcriptome
with DNA Barcoding Reconstructs Unobserved Cell States and
Differentiation Trajectories. Koichiro Majima,
Kodai Minoura, Yasuhiro Kojima, Teppei Shimamura |
|
| 16:20 |
GAN-based Data Augmentation for Transcriptomics:
Survey and Comparative Assessment. Alice Lacan,
Michele Sebag, Blaise Hanczar |
|
| 16:40 |
Visualizing Spatial Transcriptomics with U-CIE Color
Encoding. Mikaela Koutrouli, Radha Swaminathan,
Jeremy Edwards, Lars Juhl Jensen |
|
| 17:00 |
CellFromSpace: A versatile tool for spatial
transcriptomic data analysis through reference-free
deconvolution and guided cell type/activity annotation.
Corentin Thuilliez, Maria Eugenia Marques Da Costa, Nathalie Gaspar, Pierre Khneisser, Gael Moquin-Beaudry, Jean-Yves Scoazec, Antonin Marchais |
|
| 17:20 |
demuxSNP: supervised demultiplexing of scRNAseq data using cell hashing and SNPs. Michael P Lynch, Yufei Wang, Laurent Gatto, Aedin C Culhane | |
| 17:40 |
Foreign RNA spike-ins enable accurate allele-specific expression analysis at scale. Asia Mendelevich, Saumya Gupta, Aleksei Pakharev, Athanasios Teodosiadis, Andrey Mironov, Alexander Gimelbrant |