4.5 Article

False discovery rate-controlled multiple testing for union null hypotheses: a knockoff-based approach

Related references

Note: Only part of the references are listed.
Article Statistics & Probability

POWERFUL KNOCKOFFS VIA MINIMIZING RECONSTRUCTABILITY

Asher Spector et al.

Summary: The study introduces a method that allows analysts to perform feature selection using almost any machine learning algorithm while controlling the expected proportion of false discoveries. They propose a new approach of generating knockoffs for improved power and demonstrate its efficiency, robustness, and performance superiority in Gaussian features. Through extensive simulations, they show that the new knockoffs often outperform the conventional ones used in feature selection.

ANNALS OF STATISTICS (2022)

Article Biology

A high-dimensional power analysis of the conditional randomization test and knockoffs

Wenshuo Wang et al.

Summary: In many scientific applications, researchers aim to relate a response variable to a set of potential explanatory variables and start by trying to identify variables that contribute to this relationship. This article analyzes the power of two recently proposed methods in a high-dimensional linear model, as well as their performance in practical applications.

BIOMETRIKA (2022)

Article Statistics & Probability

Metropolized Knockoff Sampling

Stephen Bates et al.

Summary: This article introduces the concept of Model-X knockoffs and techniques for knockoff generation, as well as how to use knockoffs to control false positives, speed up computations, and apply to challenging models.

JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION (2021)

Review Biochemistry & Molecular Biology

Diagnostic, prognostic, and therapeutic significance of long non-coding RNA MALAT1 in cancer

Bela Goyal et al.

Summary: MALAT1 is a widely studied lncRNA in cancer, playing an important role in tumorigenesis and development, localized in the periphery of nuclear speckles. Molecular tools have shown its diagnostic, prognostic, and therapeutic potential in various cancers.

BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER (2021)

Review Pharmacology & Pharmacy

Targeting post-translational histone modifying enzymes in glioblastoma

Elena Kunadis et al.

Summary: Glioblastoma is the most common primary brain tumor in adults, characterized by variable histopathology, aggressiveness, and poor clinical outcomes. Epigenetic modifications play a crucial role in GBM research, providing a potential for tumor classification and prognosis, as well as for drug targeting. Recent advances in glioma epigenetic research focus on histone modifications and the use of epigenetic therapy as a valid treatment option for glioblastoma.

PHARMACOLOGY & THERAPEUTICS (2021)

Article Mathematical & Computational Biology

Sequential knockoffs for continuous and categorical predictors: With application to a large psoriatic arthritis clinical trial pool

Matthias Kormaksson et al.

Summary: This paper introduces a Knockoffs framework for controlling the false discovery rate in variable selection and proposes a new algorithm and method, validated through extensive simulations. The findings have significant implications for medical practice and other fields where variable selection is crucial.

STATISTICS IN MEDICINE (2021)

Article Biochemical Research Methods

Mediation analysis for survival data with high-dimensional mediators

Haixiang Zhang et al.

Summary: In this study, a novel method is introduced to identify potential mediators in high-dimensional Cox regression, with successful control of false discovery rate through data dimension reduction and multiple-testing procedure. Application to DNA methylation markers in lung cancer patients reveals two potential mediating epigenetic markers.

BIOINFORMATICS (2021)

Review Multidisciplinary Sciences

Genome-wide association studies

Emil Uffelmann et al.

Summary: Genome-wide association studies (GWAS) involve testing hundreds of thousands of genetic variants to identify those associated with specific traits or diseases, with the number of associated variants expected to increase as sample sizes grow. The results of GWAS have various applications, including understanding the underlying biology of phenotypes, estimating heritability, predicting clinical risks, guiding drug development programs, and inferring causal relationships between risk factors and health outcomes.

NATURE REVIEWS METHODS PRIMERS (2021)

Article Statistics & Probability

Deep Knockoffs

Yaniv Romano et al.

JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION (2020)

Article Biochemical Research Methods

High-dimensional mediation analysis in survival models

Chengwen Luo et al.

PLoS Computational Biology (2020)

Article Statistics & Probability

ROBUST INFERENCE WITH KNOCKOFFS

Rina Foygel Barber et al.

ANNALS OF STATISTICS (2020)

Article Statistics & Probability

RELAXING THE ASSUMPTIONS OF KNOCKOFFS BY CONDITIONING

Dongming Huang et al.

ANNALS OF STATISTICS (2020)

Article Mathematics, Applied

A prototype knockoff filter for group selection with FDR control

Jiajie Chen et al.

INFORMATION AND INFERENCE-A JOURNAL OF THE IMA (2020)

Article Statistics & Probability

Nonparametric false discovery rate control for identifying simultaneous signals

Sihai Dave Zhao et al.

ELECTRONIC JOURNAL OF STATISTICS (2020)

Article Biology

Gene hunting with hidden Markov model knockoffs

M. Sesia et al.

BIOMETRIKA (2019)

Article Statistics & Probability

Signal classification for the integrative analysis of multiple sequences of large-scale multiple tests

Dongdong Xiang et al.

JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY (2019)

Article Statistics & Probability

A KNOCKOFF FILTER FOR HIGH-DIMENSIONAL SELECTIVE INFERENCE

Rina Foygel Barber et al.

ANNALS OF STATISTICS (2019)

Article Statistics & Probability

Deep latent variable models for generating knockoffs

Ying Liu et al.

Article Biochemical Research Methods

FWER and FDR control when testing multiple mediators

Joshua N. Sampson et al.

BIOINFORMATICS (2018)

Article Statistics & Probability

Panning for gold: model-X' knockoffs for high dimensional controlled variable selection

Emmanuel Candes et al.

JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY (2018)

Article Biochemical Research Methods

TCGA2STAT: simple TCGA data access for integrated statistical analysis in R

Ying-Wooi Wan et al.

BIOINFORMATICS (2016)

Article Clinical Neurology

Malignant Transformation of a Dysembryoplastic Neuroepithelial Tumor (DNET) Characterized by Genome-Wide Methylation Analysis

Dieter Henrik Heiland et al.

JOURNAL OF NEUROPATHOLOGY AND EXPERIMENTAL NEUROLOGY (2016)

Article Statistics & Probability

CONTROLLING THE FALSE DISCOVERY RATE VIA KNOCKOFFS

Rina Foygel Barber et al.

ANNALS OF STATISTICS (2015)

Article Statistics & Probability

REPLICABILITY ANALYSIS FOR GENOME-WIDE ASSOCIATION STUDIES

Ruth Heller et al.

ANNALS OF APPLIED STATISTICS (2014)

Article Multidisciplinary Sciences

Deciding whether follow-up studies have replicated findings in a preliminary large-scale omics study

Ruth Heller et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Multidisciplinary Sciences

Neuromolecular responses to social challenge: Common mechanisms across mouse, stickleback fish, and honey bee

Clare C. Rittschof et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Statistics & Probability

Discovering Findings That Replicate From a Primary Study of High Dimension to a Follow-Up Study

Marina Bogomolov et al.

JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION (2013)

Article Genetics & Heredity

Repeatability of published microarray gene expression analyses

John P. A. Ioannidis et al.

NATURE GENETICS (2009)

Article Statistics & Probability

Sure independence screening for ultrahigh dimensional feature space

Jianqing Fan et al.

JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY (2008)

Article Statistics & Probability

False discovery rate control with multivariate p-values

Zhiyi Chi

ELECTRONIC JOURNAL OF STATISTICS (2008)

Article Multidisciplinary Sciences

Replicating genotype-phenotype associations

Stephen J. Chanock et al.

NATURE (2007)