ABCD
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Numbers for Poster Session AuthorsTitle
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April 14, 2023Seq-1Armaghan Sarvar, Lauren Coombe, René Warren and Inanc BirolGenome misassembly detection using Stash: A data structure based on stochastic tile hashing
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Seq-2Vikram Shivakumar, Omar Ahmed, Sam Kovaka, Mohsen Zakeri and Ben LangmeadSigmoni: efficient pangenome multi-classification of nanopore signal
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Seq-3Damla Senol Cali, Konstantinos Kanellopoulos, Joel Lindegger, Zülal Bingöl, Gurpreet Singh Kalsi, Ziyi Zuo, Can Firtina, Meryem Banu Cavlak, Jeremie S. Kim, Nika Mansouri Ghiasi, Gagandeep Singh, Juan Gómez Luna, Nour Almadhoun Alserr, Mohammed Alser, Sreenivas Subramoney, Can Alkan, Saugata Ghose and Onur MutluSeGraM: A Universal Hardware Accelerator for Genomic Sequence-to-Graph and Sequence-to-Sequence Mapping
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Seq-4Parham Kazemi, Hamid Mohamadi, Justin Chu, Lauren Coombe, Rene L Warren and Inanc BirolntHits: streaming through raw sequencing data to profile and filter k-mers with selected multiplicities
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Seq-5Ecem İlgün, Ömer Yavuz Öztürk, Klea Zambaku, Juan Gómez Luna, Mohammed Alser, Ricardo Roman-Brenes, Can Alkan and The Biopim ProjectCharacterization of Alignment and Search Algorithms for Short Read, Long Read, and Graph Mappers
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Seq-6Dmitry Antipov, Shilpa Garg, Adam Phillippy and Sergey KorenIntegrating Hi-C sequencing data in verkko for gapless haplotype-resolved assembly
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Seq-7Zhenxian Zheng, Junhao Su, Tak-Wah Lam and Ruibang LuoClairS: Accurate haplotype-aware long-read somatic variant calling using deep learning-based synthetic data learning
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Seq-8Klea Zambaku, Ricardo Roman-Brenes, Ömer Yavuz Öztürk, Can Alkan and Inanç BirolCopy number estimation using Counting Bloom Filters in de novo assembled genomes
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Seq-9Katharine Jenike, Sam Kovaka, Matthias Benoit, Srividya Ramakrishnan, Shujun Ou, James Saterlee, Stephan Hwang, Iacopo Gentile, Anat Hendelman, Michael Passalacqua, Xingang Wang, Michael Alonge, Hamsini Suresh, Ryan Santos, Blaine Fitzgerald, Gina Robitaille, Edeline Gagnon, Melissa Kramer, Sara Goodwin, W. Richard McCombie, Jaime Prohens, Tiina E. Särkinen, Amy Frary, Jesse Gillis, Joyce Van Eck, Ben Langmead, Zachary B. Lippman and Michael C. SchatzPanagram: Alignment-free and interactive pan-genome visualization
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Seq-10Rene Warren, Michael J Allison, M. Louie Lopez, Neha Acharya-Patel, Lauren Coombe, Cecilia L. Yang, Caren C Helbing and Inanc BirolUnikseq: unique region identification in genome sequences using a k-mer approach, to empower environmental DNA assay designs and comparative genomics studies
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Seq-11Ghanshyam Chandra and Chirag JainMinichain: A new method for pangenome graph construction
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Seq-12Anna Lisiecka and Norbert DojerALIBI2: improved linearization of pangenome graphs
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Seq-13Alexander Sweeten, Adam Phillippy and Michael SchatzMod.Plot: A Rapid and Interactive Visualization of Tandem Repeats
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Seq-14Sam Kovaka, Paul W. Hook, Vikram Shivakumar, Katharine M. Jenike, Luke Morina, Roham Razaghi, Winston Timp and Michael C. SchatzNanopore signal alignment, analysis, and visualization with Uncalled4
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Seq-15Sina Barazandeh, Mahmud Sami Aydin, Berke Ucar, Can Alkan and Inanc BirolUsing Minimizer Interarrival Distances for Read-Until Human Read Detection from Blood Samples Sequenced by Oxford Nanopore
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Seq-16Karel Sedlar, Petra Polakovicova and Ralf ZimmerImproving Functional Annotation of Bacterial Genomes with COGtools
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April 15, 2023Seq-17William Yashar, Garth Kong, Jake Vancampen, Brittany Curtiss, Daniel Coleman, Lucia Carbone, Galip Yardimci, Julia Maxson and Theodore BraunGoPeaks: histone modification peak calling for CUT&Tag
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Seq-18Alex Lederer, Lorenzo Talamanca, Colas Droin, Maxine Leonardi, Irina Khven, Hugo Carvalho, Felix Naef and Gioele La MannoA probabilistic framework for parametrizing RNA velocity fields with manifold-consistent cell cycle dynamics
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Seq-19Serghei Mangul, Mohammad Vahed, Nicholas Darci-Maher, Kerui Peng, Jaqueline Brito, JungHyun Jung, Anushka Rajesh, Andrew Smith, Reid F. Thompson, Casey Greene, Jonathan Jacobs, Dat Duong and Eleazar EskinA comprehensive analysis of the reusability of public omics data across 3.8 million research publications
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Seq-20Reza Abbasi-AslMachine learning enabled pattern discovery in large-scale spatial gene expression datasets
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Seq-21Yu-Ning Huang, Anushka Rajesh, Ram Ayyala, Aditya Sarkar, Ruiwei Guo, Irina Nakashidze, Shirley Monge, Dottie Yu, Qiushi Peng, Grace Scheg, Khooshbu Kantibhai Patel, Tejasvene Ramesh, Anushka Yadav, Fangyun Liu, Jay Himanshu Mehta and Serghei MangulThe systematic assessment of completeness of public metadata accompanying omics studies
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Seq-22Aurora Maurizio, Anna Sofia Tascini and Marco Jacopo MorelliSurfR: Surfing the cells' surfaceome
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Seq-23Fangyun Liu, Brian Nadel, Pelin Icer Baykal and Serghei MangulEvaluating the Robustness and Reproducibility of RNA-Seq Quantification Tools
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Seq-24Leah Weber, Derek Reiman, Mohammed El-Kebir and Aly KhanTRIBAL: Tree inference of B cell clonal lineages
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Seq-25Ram Ayyala, Dottie Yu, Sergey Knyazev and Serghei MangulRigorous Benchmarking of HLA Callers for RNA-seq Data
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Seq-26Serghei MangulRNA-Seq-based methods are able to effectively capture the clonotypes and estimate the diversity of TCR repertoires in T cell rich tissues and certain repertoires
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Seq-27Yu-Ning Huang, Yiting Meng, Naresh Amrat Patel, Jay Himanshu Mehta, Brittney Hua, Marina Fayzullina, Houda Alachkar and Serghei MangulAssessing the completeness of immunogenetics databases across diverse populations
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Seq-28Ahmet Cemal Alıcıoğlu, Mahmud Sami Aydın and Can AlkanPairwise sequence alignment with block and character edit operations
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Seq-29Thomas Krannich, Stephan Fuchs and Sophie KöndgenDetection of large tandem duplications in HMPV isolates
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Seq-30Kamila Marszałek, Michał B. Kowalski, Andrzej Ossowski, Rafał Płoski, Renata Zbieć Piekarska, Paweł P. Łabaj and Wojciech BranickiPredicting the origin of soil samples - performance evaluation of a new targeted High-Throughput Sequencing metagenomic tool.
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Seq-31Viorel Munteanu, Khooshbu Kantibhai Patel, Nitesh Kumar Sharma, Sergey Knyazev and Serghei MangulA rigorous benchmarking of methods for SARS-CoV-2 lineage abundance estimation in wastewater
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Seq-32Hamdiye Uzuner and Johannes KösterOrthanq: orthogonal evidence based haplotype quantification
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Seq-33Junhao Su, Tak-Wah Lam and Ruibang LuoClusterV: Accurate Detection of HIV Quasispecies and Drug Resistance Mutations using ONT Sequencing Data
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