Murray Patterson

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

Sequence-Based Nanobody-Antigen Binding Prediction.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

Enhancing t-SNE Performance for Biological Sequencing Data Through Kernel Selection.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

Efficient Sequence Embedding for SARS-CoV-2 Variants Classification.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

Hist2Vec: Kernel-Based Embeddings for Biological Sequence Classification.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

PDB2Vec: Using 3D Structural Information for Improved Protein Analysis.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

Unveiling the Robustness of Machine Learning Models in Classifying COVID-19 Spike Sequences.

[BibT_eX]

[DOI]

Pin-Yu Chen

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

A New Direction in Membranolytic Anticancer Peptides classification: Combining Spaced k-mers with Chaos Game Representation.

[BibT_eX]

[DOI]

Taslim Murad

Proceedings of the International Neural Network Society Workshop on Deep Learning Innovations and Applications, 2023

Empowering Pandemic Response with Federated Learning for Protein Sequence Data Analysis.

[BibT_eX]

[DOI]

Proceedings of the International Joint Conference on Neural Networks, 2023

PCD2Vec: A Poisson Correction Distance Based Approach for Viral Host Classification.

[BibT_eX]

[DOI]

Taslim Murad

Proceedings of the International Joint Conference on Neural Networks, 2023

T Cell Receptor Protein Sequences and Sparse Coding: A Novel Approach to Cancer Classification.

[BibT_eX]

[DOI]

Proceedings of the Neural Information Processing - 30th International Conference, 2023

When Biology has Chemistry: Solubility And Drug Subcategory Prediction using SMILES Strings.

[BibT_eX]

[DOI]

Proceedings of the First Tiny Papers Track at ICLR 2023, 2023

Robust Brain Age Estimation via Regression Models and MRI-Derived Features.

[BibT_eX]

[DOI]

Proceedings of the Advances in Computational Collective Intelligence, 2023

Counterfactually Guided Policy Transfer in Clinical Settings.

[BibT_eX]

[DOI]

Proceedings of the Conference on Health, Inference, and Learning, 2023

Circular Arc Length-Based Kernel Matrix For Protein Sequence Classification.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Big Data, 2023

2022

Efficient analysis of COVID-19 clinical data using machine learning models.

[BibT_eX]

[DOI]

Yijing Zhou

Cristian Navarro-Martinez

Medical Biol. Eng. Comput., 2022

Determining Significant Correlation Between Pairs of Extant Characters in a Small Parsimony Framework.

[BibT_eX]

[DOI]

Kaustubh Khandai

J. Comput. Biol., 2022

Benchmarking Machine Learning Robustness in Covid-19 Genome Sequence Classification.

[BibT_eX]

[DOI]

Bikram Sahoo

Alexander Zelikovskiy

Pin-Yu Chen

CoRR, 2022

PWM2Vec: An Efficient Embedding Approach for Viral Host Specification from Coronavirus Spike Sequences.

[BibT_eX]

[DOI]

CoRR, 2022

PSSM2Vec: A Compact Alignment-Free Embedding Approach for Coronavirus Spike Sequence Classification.

[BibT_eX]

[DOI]

Taslim Murad

Proceedings of the Neural Information Processing - 29th International Conference, 2022

Spike2Signal: Classifying Coronavirus Spike Sequences with Deep Learning.

[BibT_eX]

[DOI]

Proceedings of the Eighth IEEE International Conference on Big Data Computing Service and Applications, 2022

Informative Initialization and Kernel Selection Improves t-SNE for Biological Sequences.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Big Data, 2022

Hashing2Vec: Fast Embedding Generation for SARS-CoV-2 Spike Sequence Classification.

[BibT_eX]

[DOI]

Proceedings of the Asian Conference on Machine Learning, 2022

2021

Effective Clustering for Single Cell Sequencing Cancer Data.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2021

From Alpha to Zeta: Identifying Variants and Subtypes of SARS-CoV-2 Via Clustering.

[BibT_eX]

[DOI]

J. Comput. Biol., 2021

Simpler and Faster Development of Tumor Phylogeny Pipelines.

[BibT_eX]

[DOI]

Lorenzo Lucarella

J. Comput. Biol., 2021

Classifying COVID-19 Spike Sequences from Geographic Location Using Deep Learning.

[BibT_eX]

[DOI]

Babatunde Bello

CoRR, 2021

Effective and scalable clustering of SARS-CoV-2 sequences.

[BibT_eX]

[DOI]

CoRR, 2021

Inferring cancer progression from Single-Cell Sequencing while allowing mutation losses.

[BibT_eX]

[DOI]

Bioinform., 2021

Robust Representation and Efficient Feature Selection Allows for Effective Clustering of SARS-CoV-2 Variants.

[BibT_eX]

[DOI]

Zahra Tayebi

Cristian Navarro-Martinez

Algorithms, 2021

Correlated Evolution in the Small Parsimony Framework.

[BibT_eX]

[DOI]

Brendan Smith

Rebecca Buonopane

S. Ashley Byun

Proceedings of the Bioinformatics Research and Applications - 17th International Symposium, 2021

A k-mer Based Approach for SARS-CoV-2 Variant Identification.

[BibT_eX]

[DOI]

Bikram Sahoo

Naimat Ullah

Alexander Zelikovskiy

Imdadullah Khan

Proceedings of the Bioinformatics Research and Applications - 17th International Symposium, 2021

Clustering SARS-CoV-2 Variants from Raw High-Throughput Sequencing Reads Data.

[BibT_eX]

[DOI]

Proceedings of the Computational Advances in Bio and Medical Sciences: 11th International Conference, 2021

Spike2Vec: An Efficient and Scalable Embedding Approach for COVID-19 Spike Sequences.

[BibT_eX]

[DOI]

Proceedings of the 2021 IEEE International Conference on Big Data (Big Data), 2021

2020

gpps: an ILP-based approach for inferring cancer progression with mutation losses from single cell data.

[BibT_eX]

[DOI]

Mauricio Soto Gomez

Murray D. Patterson

Iman Hajirasouliha

BMC Bioinform., 2020

Clustering Based Identification of SARS-CoV-2 Subtypes.

[BibT_eX]

[DOI]

Proceedings of the Computational Advances in Bio and Medical Sciences, 2020

2019

Overlap graphs and de Bruijn graphs: data structures for de novo genome assembly in the big data era.

[BibT_eX]

[DOI]

Quant. Biol., 2019

A Rearrangement Distance for Fully-Labelled Trees.

[BibT_eX]

[DOI]

Giulia Bernardini

Proceedings of the 30th Annual Symposium on Combinatorial Pattern Matching, 2019

2018

HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads.

[BibT_eX]

[DOI]

Stefano Beretta

Simone Zaccaria

BMC Bioinform., 2018

2017

Character-Based Phylogeny Construction and Its Application to Tumor Evolution.

[BibT_eX]

[DOI]

Raffaella Rizzi

Mauricio Soto Gomez

Proceedings of the Unveiling Dynamics and Complexity, 2017

2016

PWHATSHAP: efficient haplotyping for future generation sequencing.

[BibT_eX]

[DOI]

BMC Bioinform., 2016

2015

WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads.

[BibT_eX]

[DOI]

J. Comput. Biol., 2015

2014

WhatsHap: Haplotype Assembly for Future-Generation Sequencing Reads.

[BibT_eX]

[DOI]

Proceedings of the Research in Computational Molecular Biology, 2014

High-Performance Haplotype Assembly.

[BibT_eX]

[DOI]

Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2014

2013

Lateral gene transfer, rearrangement, reconciliation.

[BibT_eX]

[DOI]

BMC Bioinform., 2013

Mapping proteins in the presence of paralogs using units of coevolution.

[BibT_eX]

[DOI]

BMC Bioinform., 2013

Hypergraph Covering Problems Motivated by Genome Assembly Questions.

[BibT_eX]

[DOI]

Ashok Rajaraman

Proceedings of the Combinatorial Algorithms - 24th International Workshop, 2013

2012

Hardness results on the gapped consecutive-ones property problem.

[BibT_eX]

[DOI]

Discret. Appl. Math., 2012

Linearization of ancestral multichromosomal genomes.

[BibT_eX]

[DOI]

BMC Bioinform., 2012

2011

Consistency of Sequence-Based Gene Clusters.

[BibT_eX]

[DOI]

J. Comput. Biol., 2011

The Complexity of the Gapped Consecutive-Ones Property Problem for Matrices of Bounded Maximum Degree.

[BibT_eX]

[DOI]

J. Comput. Biol., 2011

Towards a Characterisation of the Generalised Cladistic Character Compatibility Problem for Non-branching Character Trees.

[BibT_eX]

[DOI]

Arvind Gupta

Proceedings of the Bioinformatics Research and Applications - 7th International Symposium, 2011

Tractability Results for the Consecutive-Ones Property with Multiplicity.

[BibT_eX]

[DOI]

Proceedings of the Combinatorial Pattern Matching - 22nd Annual Symposium, 2011

2010

Complexity of Finding Non-Planar Rectilinear Drawings of Graphs.

[BibT_eX]

[DOI]

Proceedings of the Graph Drawing - 18th International Symposium, 2010

2009

On the Gapped Consecutive-Ones Property.

[BibT_eX]

[DOI]

Electron. Notes Discret. Math., 2009

Hardness Results for the Gapped Consecutive-Ones Property

[BibT_eX]

[DOI]

CoRR, 2009

On the Generalised Character Compatibility Problem for Non-branching Character Trees.

[BibT_eX]

[DOI]