Modeling persistent trends in distributions

DOI10.1080/01621459.2017.1341412MaRDI QIDQ4559709zbMATH OpenOpenAlexWikidataFDO

Authors Jonas Müller, David K. Gifford, Tommi S. Jaakkola

Publication date 4 December 2018

Published in Journal of the American Statistical Association (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1511.04486, http://europepmc.org/articles/pmc6428438

zbMATH Keywords

quantile regressionWasserstein distancepool adjacent violators algorithmbatch effectsingle cell RNA-seq

Mathematics Subject Classification ID

Nonparametric regression and quantile regression (62G08) Applications of statistics to biology and medical sciences; meta analysis (62P10)

Abstract: We present a nonparametric framework to model a short sequence of probability distributions that vary both due to underlying effects of sequential progression and confounding noise. To distinguish between these two types of variation and estimate the sequential-progression effects, our approach leverages an assumption that these effects follow a persistent trend. This work is motivated by the recent rise of single-cell RNA-sequencing experiments over a brief time course, which aim to identify genes relevant to the progression of a particular biological process across diverse cell populations. While classical statistical tools focus on scalar-response regression or order-agnostic differences between distributions, it is desirable in this setting to consider both the full distributions as well as the structure imposed by their ordering. We introduce a new regression model for ordinal covariates where responses are univariate distributions and the underlying relationship reflects consistent changes in the distributions over increasing levels of the covariate. This concept is formalized as a "trend" in distributions, which we define as an evolution that is linear under the Wasserstein metric. Implemented via a fast alternating projections algorithm, our method exhibits numerous strengths in simulations and analyses of single-cell gene expression data.

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Cites work

• scientific article; zbMATH DE number 5708571 (Why is no real title available?)
• scientific article; zbMATH DE number 3973706 (Why is no real title available?)
• Comparing the continuous representation of time-series expression profiles to identify differentially expressed genes
• Correctness of Kruskal's algorithms for monotone regression with ties
• Estimation of conditional densities and sensitivity measures in nonlinear dynamical systems
• Methods for Estimating a Conditional Distribution Function
• Noncrossing quantile regression curve estimation
• Permutation tests. A practical guide to resampling methods for testing hypotheses
• Quantile Estimation in Dependent Sequences
• Resampling-based multiple testing for microarray data analysis (With comments)
• Small-Sample Quantile Estimators in a Large Nonparametric Model
• The bootstrap: To smooth or not to smooth?

Cited in

(1)

• Dynamic Trends in Distributions

Describes a project that uses

Uses Software

• ConsensusPathDB
• RUVseq

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