Alice C. McHardy

Affiliations:
  • Helmholtz Centre for Infection Research, Braunschweig, Germany
  • Heinrich Heine University Düsseldorf, Department of Computer Science, Germany (former)
  • Max Planck Institute for Informatics (MPII), Saarbrücken, Germany (former)


According to our database1, Alice C. McHardy authored at least 24 papers between 2004 and 2023.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

Legend:

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PhD thesis 
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Links

Online presence:

On csauthors.net:

Bibliography

2023
GO Bench: shared hub for universal benchmarking of machine learning-based protein functional annotations.
Bioinform., February, 2023

Neural Architecture Search for Genomic Sequence Data.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2023

2022
TripletProt: Deep Representation Learning of Proteins Based On Siamese Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Scelestial: Fast and accurate single-cell lineage tree inference based on a Steiner tree approximation algorithm.
PLoS Comput. Biol., 2022

2021
EpitopeVec: linear epitope prediction using deep protein sequence embeddings.
Bioinform., 2021

Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research.
Briefings Bioinform., 2021

Evaluating assembly and variant calling software for strain-resolved analysis of large DNA viruses.
Briefings Bioinform., 2021

2020
Phylogeographic reconstruction using air transportation data and its application to the 2009 H1N1 influenza A pandemic.
PLoS Comput. Biol., 2020

2019
12 Grand Challenges in Single-Cell Data Science.
PeerJ Prepr., 2019

DiTaxa: nucleotide-pair encoding of 16S rRNA for host phenotype and biomarker detection.
Bioinform., 2019

2018
MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples.
Bioinform., 2018

2017
A probabilistic model to recover individual genomes from metagenomes.
PeerJ Comput. Sci., 2017

EDEN: evolutionary dynamics within environments.
Bioinform., 2017

2016
<i>Snowball</i>: strain aware gene assembly of metagenomes.
Bioinform., 2016

Denoising DNA deep sequencing data - high-throughput sequencing errors and their correction.
Briefings Bioinform., 2016

2015
How to Grow a Computational Biology Lab.
PLoS Comput. Biol., 2015

Functional overlap of the <i>Arabidopsis</i> leaf and root microbiota.
Nat., 2015

<i>Taxator-tk</i>: precise taxonomic assignment of metagenomes by fast approximation of evolutionary neighborhoods.
Bioinform., 2015

2014
RidgeRace: ridge regression for continuous ancestral character estimation on phylogenetic trees.
Bioinform., 2014

2012
Inference of Genotype-Phenotype Relationships in the Antigenic Evolution of Human Influenza A (H3N2) Viruses.
PLoS Comput. Biol., 2012

Taxonomic binning of metagenome samples generated by next-generation sequencing technologies.
Briefings Bioinform., 2012

2011
Allele dynamics plots for the study of evolutionary dynamics in viral populations.
Nucleic Acids Res., 2011

Inferring functional modules of protein families with probabilistic topic models.
BMC Bioinform., 2011

2004
Development of joint application strategies for two microbial gene finders.
Bioinform., 2004


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