Author

Brian B. Nadel

University of California, Los AngelesORCID 0000-0002-9583-8169Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Genomics· 1 Pathology· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:deconvolution· 2 Research Focus:gene regulatory network inference· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Serghei ManguliD· 3 shared Barbara E. StrangeriD· 2 shared David Lopez· 2 shared Dennis J. MontoyaiD· 2 shared Feiyang MaiD· 2 shared Matteo A. PellegriniiD· 2 shared Meritxell OlivaiD· 2 shared Sarah Kim-HellmuthiD· 2 shared

Activity by Year

2017-2021 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 34 mutual co-author links

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3 shared papersBioinformatics

Serghei MangulORCID

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4 papers

Recent·Most cited

BioinformaticsBriefings in BioinformaticsPeer-reviewedJun 25, 2021

Systematic evaluation of transcriptomics-based deconvolution methods and references using thousands of clinical samples

Brian B. Nadel, Meritxell Oliva, Benjamin L. Shou…·Serghei Mangul

This study evaluates ten deconvolution tools on 4,000 clinical and synthetic samples, finding EPIC performs best on Framingham data and HPCA references are generally accurate.

26 citations

humanbulk RNA-seq

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BioinformaticsGigaSciencePeer-reviewedJan 29, 2021

The Gene Expression Deconvolution Interactive Tool (GEDIT): Accurate Cell Type Quantification from Gene Expression Data

Brian B. Nadel, David Lopez, Dennis J. Montoya…·Matteo A. Pellegrini

GEDIT estimates cell type abundances from gene expression data, outperforming existing tools across multiple platforms and tissue types.

59 citationstop 5%

humanmouse

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GenomicsSciencePeer-reviewedSep 10, 2020

Cell type specific genetic regulation of gene expression across human tissues

Sarah Kim-Hellmuth, François Aguet, Meritxell Oliva…·Abhiram S. Rao

The paper uses bulk RNA-seq data to estimate cell type abundances and identifies cell type interaction QTLs that provide finer resolution of tissue specificity than bulk cis-eQTLs.

550 citationstop 1%

humanbulk RNA-seq

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PathologybioRxivPreprintOct 4, 2017

A Novel Uropathogenic Escherichia Coli Genome (strain D3) and Comparative Analysis with Other Uropathogenic and Nonpathogenic Strains

Brian B. Nadel, Shawn J. Cokus, Marco Morselli…·Matteo Pellegrini

The paper sequences and analyzes the genome of a uropathogenic E. coli strain, identifying pathogenicity-associated genes and D3-specific transposable elements.

DOI 10.1101/197533

E. coliwhole-genome sequencing

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