Program for Monday, January 13th: Talk View

PROGRAM FOR MONDAY, JANUARY 13TH: TALK VIEW

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View: with abstracts session overview

8:00

8:30

9:00

9:30

10:00

10:30

11:00

11:30

12:00

12:30

13:00

13:30

14:00

14:30

15:00

15:30

16:00

16:30

17:00

17:30

18:00

18:30

19:00

19:30

20:00

20:30

21:00

08:00-09:00 Breakfast (SCE Auditorium Lobby)

09:00-10:00 Keynote Talk (SCE Auditorium)

10:00-10:20 Coffee Break (SCE Auditorium Lobby)

10:20-10:40

A Benchmarking Study of Random Projections and Principal Components for Dimensionality Reduction Strategies in Single Cell

Mohamed Abdelnaby, Marmar Moussa

10:40-11:00

DuoHash: fast hashing of spaced seeds with application to spaced k-mers counting

Leonardo Gemin, Cinzia Pizzi, Matteo Comin

11:00-11:20

Haplotype-based Parallel PBWT for Biobank Scale Data

Kecong Tang, Ahsan Sanaullah, Degui Zhi, Shaojie Zhang

11:20-11:40

Fast and Succinct Compression of k-mer Sets with Plain Text Representation of Colored de Bruijn

Enrico Rossignolo, Matteo Comin

11:40-12:00

Phylodynamics Analysis of HIV Epidemic History in Belarus in 1987-2022

Alina Nemira, Pavel Skums, Alexander Kirpich

10:20-10:40

Benchmarking metagenomic software with the new CAMI web portal

Alice McHardy, Fernando Meyer, Gary Robertson

10:40-11:00

Model Selection for Sparse Microbial Network Inference using Variational Approximation

Shibu Yooseph

11:00-11:20

Mammo-Bench: A Large-scale Benchmark Dataset of Mammography Images

Gaurav Bhole, Suba Suseela, Nita Parekh

11:20-11:40

A rigorous benchmarking of methods for SARS-CoV-2 lineage abundance estimation in wastewater

Gordeev et.al

11:40-12:00

Personalized health and genomics libraries for the analysis of long-term effects in COVID-19

V. Dragos, V. Munteanu, M. Dimian, M. Covasa, S. Mangul, A. Lobiuc

12:00-13:20 Lunch (SCE Auditorium Lobby)

13:20-13:40

Evaluation of methods for estimating information entropy from limited sequence data

David S. Campo, Yury Khudyakov

13:40-14:00

From Reads to Enzymes: Exploring Enzymatic Potential in Metagenomes with DNA Language Models

Yana Bromberg, R. Prabakaran

14:00-14:20

Probabilistic Assembly and Uncertainty Quantification of Polyploid Haplotype Phase

Marjan Hosseini, Thomas Bergendahl, Ella Veiner, Tala Yasenpoor, Derek Aguiar

14:20-14:40

DCCNV: Enhanced Copy Number Variation Detection in Single-Cell Sequencing Using Diffusion Processes and Contrastive

Mostafa Karami, Bingjun Li, Samson Weiner, Sahand Hamzehei, Sheida Nabavi

14:40-15:00

Leveraging RNA LLMs for 3D Structure Prediction via Novel Data Augmentation

Sixiang Zhang, Harish Anand, Liming Cai

13:20-13:40

Nanopore metagenomics as a rapid diagnostic for emerging high-threat bacterial pathogens on environmental

Eric Bortz, Jeremy Buttler, Bryce Inman, Soren George-Nichol

13:40-14:00

AmpliconHunter: A Scalable Tool for Accurate Amplicon Prediction from Microbiome Samples using Degenerate

Rye Howard-Stone, Ion Mandoiu

14:00-14:20

Opening an icy black box: diversity and functioning of soil bacteria in Antarctica’s largest ice-free

Andrew Thompson, Byron Adams, Shibu Yooseph

14:20-14:40

Assessment of Host and Bacterial Depletion Methods to Enhance RNA Virus Detection by Next-Generation

Iryna Goraichuk, Erica Spackman, David Suarez

14:40-15:00

Earth Mover's Distance to recognize duplicate datasets in an automated molecular epidemiology system

Seth Sims, Yury Khudyakov, Alexander Zelikovsky

15:00-15:20 Coffee Break (SCE Auditorium Lobby)

15:20-15:40

Applying Genetic Algorithm with Saltations to MAX-3SAT

Ryan Alomair, Akshay Juyal, Hafsa Farooq, Daniel Novikov, Alex Zelikovsky

15:40-16:00

Nearest Neighbor CCP-Based Molecular Sequence Analysis

Sarwan Ali, Avais Jan, Prakash Chourasia, Bipin Koirala, Murray Patterson

16:00-16:20

DANCE: Deep Learning-Assisted Analysis of ProteiN Sequences Using Chaos Enhanced Kaleidoscopic

Taslim Murad, Prakash Chourasia, Sarwan Ali

16:20-16:40

Computing Gram Matrix for SMILES Strings using RDKFingerprint and Sinkhorn-Knopp Algorithm

Sarwan Ali, Haris Mansoor, Prakash Chourasia, Murray Patterson

16:40-17:00

Neuromorphic Spiking Neural Network Based Classification of COVID-19 Spike Sequences

Taslim Murad, Avais Jan, Prakash Chourasia, Sarwan Ali, Murray Patterson

15:20-15:40

DeepGOMeta: Functional Insights into Microbial Communities through Deep Learning

Rund Tawfiq, Kexin Niu, Maxat Kulmanov, Robert Hoehndorf

15:40-16:00

Assessing microbial genome representation across various reference databases: a comprehensive

Boldirev, Sharma, Aguma, Mangul, Alser, Zelikovsky, Munteanu

16:00-16:20

Innovative Tools and Strategies for Outbreak Preparedness: Integrating Environmental Microbiomes and Prospective Pathogen Collections in Hospital

Ahmed Moustafa

16:20-16:40

Hidden Markov Model Analysis of Genetic Linkage

Ezekiel A. Adeniyi, Murray Patterson, Alex Zelikovsky, Akshay Juyal

16:40-17:00

Epistatic Density of Viral Variants in Acute and Chronic HCV patients

Alina Nemira, Akshay Juyal, Alex Zelikovsky, Pavel Skums

18:00-21:00 Banquet (SCE Senate Salon)