HiTSeq 2019

Keynote speakers

Angela Brooks
Angela Brooks
Assistant Professor
University of California, Santa Cruz, United States




Bjarni Halldorsson
Bjarni V. Halldórsson
Associate Professor
Reykjavik University, Iceland



Steven Salzberg
Steven Salzberg
Professor
Johns Hopkins University, United States







July 25, 2021

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Sydney
Title & Authors
11:00 13:00 07:00 04:00 19:00 21:00 Dynamic adaptive sampling during nanopore sequencing and assembly using Bayesian experimental design. Lukas Weilguny, Nicola De Maio and Nick Goldman.
11:20 13:20 07:20 04:20 19:20 21:20 Topology-based sparsification of graph annotations. Daniel Danciu, Mikhail Karasikov, Harun Mustafa, Andre Kahles and Gunnar Ratsch.
11:40 13:40 07:40 04:40 19:40 21:40 Cuttlefish: fast, parallel, and low-memory compaction of de Bruijn graphs from large-scale genome collections. Jamshed Khan and Rob Patro.
12:00 14:00 08:00 05:00 20:00 22:00 Constructing small genome graphs via string compression. Yutong Qiu and Carl Kingsford.







12:20 14:20 08:20 05:20 20:20 22:20 Break







12:40 14:40 08:40 05:40 20:40 22:40 CentromereArchitect: inference and analysis of the architecture of centromeres. Tatiana Dvorkina, Olga Kunyavskaya, Andrey V. Bzikadze, Ivan Alexandrov and Pavel A. Pevzner.
13:00 15:00 09:00 06:00 21:00 23:00 The statistics of kmers from a sequence undergoing a simple mutation process without spurious matches. Antonio Blanca, Robert S. Harris, David Koslicki and Paul Medvedev.
13:20 15:20 09:20 06:20 21:20 23:20 Long reads capture simultaneous enhancer-promoter methylation status for cell-type deconvolution. Sapir Margalit, Yotam Abramson, Hila Sharim, Zohar Manber, Surajit Bhattacharya, Yi-Wen Chen, Eric Vilain, Hayk Barseghyan, Ran Elkon, Roded Sharan and Yuval Ebenstein.
13:40 15:40 09:40 06:40 21:40 23:40 Practical selection of representative sets of RNA-seq samples using a hierarchical approach. Laura Tung and Carl Kingsford.







14:00 16:00 10:00 07:00 22:00 00:00 Break







14:20 16:20 10:20 07:20 22:20 00:20 Keynote: Angela Brooks
Toward high-throughput and full-length characterization of transcript isoforms, including their function.

July 26, 2021

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Title
11:00 13:00 07:00 04:00 19:00 21:00 Keynote: Bjarni V. Halldórsson
Population scale analysis of human sequence data
12:00 14:00 08:00 05:00 20:00 22:00 Co-linear chaining with overlaps and gap costs. Chirag Jain, Daniel Gibney and Sharma V. Thankachan.







12:20 14:20 08:20 05:20 20:20 22:20 Break







12:40 14:40 08:40 05:40 20:40 22:40 Sequence-specific minimizers via polar sets. Hongyu Zheng, Carl Kingsford and Guillaume Marcais.
13:00 15:00 09:00 06:00 21:00 23:00 Real-time mapping of nanopore raw signals. Haowen Zhang, Haoran Li, Chirag Jain, Haoyu Cheng, Kin Fai Au, Heng Li and Srinivas Aluru.
13:20 15:20 09:20 06:20 21:20 23:20 Strobemers: an alternative to k-mers for sequence comparison. Kristoffer Sahlin.
13:40 15:40 09:40 06:40 21:40 23:40 Efficient linked-read barcode mapping without read alignment. Richard Lüpken and Birte Kehr.







14:00 16:00 10:00 07:00 22:00 00:00 Break







14:20 16:20 10:20 07:20 22:20 00:20 doubletD: detecting doublets in single-cell DNA sequencing data. Leah Weber, Palash Sashittal and Mohammed El-Kebir.
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00:40
ACE: explaining single-cell cluster from an adversarial perspective. Yang Lu, Timothy Yu, Giancarlo Bonora and William Noble.
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SAILER: scalable and accurate invariant representation learning for single-cell ATACseq processing and integration. Yingxin Cao, Laiyi Fu, Jie Wu, Qin Ke Peng, Qing Nie, Jing Zhang and Xiaohui Xie.

July 27, 2021

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Title
11:00 13:00 07:00 04:00 19:00 21:00 Comparative genome analysis using sample-specific string detection in accurate long reads. Parsoa Khorsand, Luca Denti, Paola Bonizzoni, Rayan Chikhi and Fereydoun Hormozdiari.
11:20 13:20 07:20 04:20 19:20 21:20 Polishing copy number variant calls on exome equencing data via deep learning. Furkan Ozden, Can Alkan and A. Ercument Cicek,
11:40 13:40 07:40 04:40 19:40 21:40 Robust and accurate estimation of paralog-specific copy number for duplicated genes using whole-genome sequencing. Timofey Prodanov and Vikas Bansal.
12:00 14:00 08:00 05:00 20:00 22:00 phasebook: haplotype-aware de novo assembly of diploid genomes from long reads. Xiao Luo, Xiongbin Kang and Alexander Schönhuth.







12:20 14:20 08:20 05:20 20:20 22:20 Break







12:40 14:40 08:40 05:40 20:40 22:40 Victor: full-length de novo viral haplotype reconstruction from noisy long reads. Xiao Luo, Xiongbin Kang and Alexander Schönhuth.
13:00 15:00 09:00 06:00 21:00 23:00 BinSPreader: refine binning results for fuller MAG reconstruction. Yury Kamenev, Roman Kruglikov, Ivan Tolstoganov and Anton Korobeynikov.
13:20 15:20 09:20 06:20 21:20 23:20 Haplotype-based membership inference from summary genomic data. Diyue Bu, Xiaofeng Wang and Haixu Tang.
13:40 15:40 09:40 06:40 21:40 23:40 Biological discovery and consumer genomics databases activate latent privacy risk in functional genomics data. Zhiqiang Hu and Steven Brenner.







14:00 16:00 10:00 07:00 22:00 00:00 Break







14:20 16:20 10:20 07:20 22:20 00:20 Keynote: Steven Salzberg
The perils of contamination in genome databases