Author
Nicholas R. Waters
Memorial Sloan Kettering Cancer CenterORCID 0000-0002-9035-2143Unclaimed ORCID profile · follow to get notified of new preprints
Biology Disciplines
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2018-2026 · peak 2/yrCo-Author Collaboration Network
10 top collaborators · 21 mutual co-author links7 papers
Recent·Most cited
- BioinformaticsbioRxivPreprint
Correlating High-dimensional longitudinal microbial features with time-varying outcomes with FLORAL
Teng Fei, Victoria Donovan, Tyler Funnell…·Jonathan U. Peled
The paper introduces FLORAL, a method for analyzing longitudinal microbiome data to identify biomarkers associated with time-varying outcomes, showing improved sensitivity and FDR control in simulations and real-world applications.
1 citation - BioinformaticsCell Reports MethodsPeer-reviewed
Enhanced Feature Selection for Microbiome Data using FLORAL: Scalable Log-ratio Lasso Regression
Teng Fei, Tyler Funnell, Nicholas R. Waters…·Marcel R.M. van den Brink
FLORAL improves microbial feature selection for microbiome data by addressing survival endpoints, longitudinal samples, and sequencing biases, showing better false-positive control and sensitivity in simulations and real data.
17 citationstop 3% - Systems BiologybioRxivPreprint
A compilation of fecal microbiome shotgun metagenomics from hospitalized patients undergoing hematopoietic cell transplantation
Jinyuan Yan, Chen Liao, Bradford P. Taylor…·João B. Xavier
The paper compiles shotgun metagenomic data from stool samples of hospitalized hematopoietic cell transplant patients to enhance microbiome analysis beyond taxonomic composition.
3 citations - BioinformaticsbioRxivPreprint
Mining underutilized whole-genome sequencing projects to improve 16S rRNA databases
Ben Nolan, Florence Abram, Fiona Brennan…·Nicholas R. Waters
The paper improves 16S rRNA databases by reassembling whole-genome sequencing data to generate high-quality sequences, enhancing taxonomic classification accuracy.
DOI 10.1101/2021.01.01.425045 - BioinformaticsAccess MicrobiologyPeer-reviewed
Easily phylotyping E. coli via the EzClermont web app and command-line tool.
Nicholas R. Waters, Florence Abram, Fiona Brennan…·Leighton Pritchard
The paper implements an in silico Clermont PCR method for E. coli phylotyping as a web app and command-line tool.
143 citationstop 1% - BioinformaticsNucleic Acids ResearchPeer-reviewed
riboSeed: leveraging prokaryotic genomic architecture to assemble across ribosomal regions
Nicholas R. Waters, Florence Abram, Fiona Brennan…·Leighton Pritchard
riboSeed improves bacterial genome assembly by leveraging conserved ribosomal operon flanking regions to bridge contigs and aid genome closure.