Article

FastMix: A Versatile Multi-Omics Data Integration Pipeline for Cell Type-Specific Biomarker Inference

2021-09-27

Abstract excerpt

We developed a novel analytic pipeline - FastMix - to integrate flow cytometry, bulk transcriptomics, and clinical covariates for statistical inference of cell type-specific gene expression signatures. FastMix addresses the “large p , small n ” problem via a carefully designed linear mixed effects model (LMER), which is applicable for both cross-sectional and longitudinal studies. With a novel moment-based estimat...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: ea8ec8a8-c391-5055-8506-a0a6a286cc29
DOI: 10.1101/2021.09.14.21263182

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

FastMix: A Versatile Multi-Omics Data Integration Pipeline for Cell Type-Specific Biomarker InferenceDOI 10.1101/2021.09.14.21263182Read

Robust identification of perturbed cell types in single-cell RNA-seq dataSemantic proximity Read

scTWAS: A powerful statistical framework for single-cell transcriptome-wide association studiesSemantic proximity Read

S-MiXcan: Inferring Cell-Type-Level Transcriptome-Wide Associations from Bulk Transcriptomics Using GWAS Summary StatisticsSemantic proximity Read

Dissecting heterogeneous cell populations across drug and disease conditions with PopAlignSemantic proximity Read

Milo2.0 unlocks population genetic analyses of cell state abundance using a count-based mixed modelSemantic proximity Read

Dissecting heterogeneous cell populations across drug and disease conditions with PopAlignSemantic proximity Read

A meta-analysis of immune-cell fractions at high resolution reveals novel associations with common phenotypes and health outcomes.Semantic proximity Read

A meta-analysis of immune cell fractions at high resolution reveals novel associations with common phenotypes and health outcomesSemantic proximity Read

dtangle: accurate and fast cell-type deconvolutionSemantic proximity Read

Decoding the human PBMC isonome: Isoform-level resolution with single-cell long-read transcriptomicsSemantic proximity Read

FuncDECODE Resolves Cell-Type-Specific Functional Heterogeneity across Biological States and Spatial ContextsSemantic proximity Read

Unravelling Immune Cell Signatures: CIBERSORTx-assisted Construction of Signature Matrix from Single-Cell DataSemantic proximity Read