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Lap Sum Chan

dblp:369/6436 · DBLP profile ↗
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1ranked-venue papers
1as first author
1since 2021 · last 2024
0000-0003-3206-9064ORCID · reported

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1 · 1 first-author · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 2 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › computational microbiology › microbiome analysis
differential abundance testing
0.812024
Zero is not absence: censoring-based differential abundance analysis for microbiome data · Bioinform. 2024
Bioinformatics and computational biology › computational microbiology
microbiome analysis
0.812024
Zero is not absence: censoring-based differential abundance analysis for microbiome data · Bioinform. 2024

Methods — techniques the papers use, named apart from their topics

survival analysis · 0.8cox proportional hazards model · 0.8censoring · 0.8
YearPublicationVenuePosition
2024 Zero is not absence: censoring-based differential abundance analysis for microbiome data
abstract
MOTIVATION: Microbiome data analysis faces the challenge of sparsity, with many entries recorded as zeros. In differential abundance analysis, the presence of excessive zeros in data violates distributional assumptions and creates ties, leading to an increased risk of type I errors and reduced statistical power. RESULTS: We developed a novel normalization method, called censoring-based analysis of microbiome proportions (CAMP), for microbiome data by treating zeros as censored observations, transforming raw read counts into tie-free time-to-event-like data. This enables the use of survival analysis techniques, like the Cox proportional hazards model, for differential abundance analysis. Extensive simulations demonstrate that CAMP achieves proper type I error control and high power. Applying CAMP to a human gut microbiome dataset, we identify 60 new differentially abundant taxa across geographic locations, showcasing its usefulness. CAMP overcomes sparsity challenges, enabling improved statistical analysis and providing valuable insights into microbiome data in various contexts. AVAILABILITY AND IMPLEMENTATION: The R package is available at https://github.com/lapsumchan/CAMP.
Lap Sum Chan, Gen Li 0004
Bioinform.1