Author

Brian Craft

Broad InstituteORCID 0000-0003-3334-6983Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Assay:whole-genome sequencing· 2 Research Focus:batch correction / integration· 1 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1

Frequent Co-Authors

Jingchun ZhuiD· 3 shared Isidro Cortés‐CirianoiD· 2 shared Junjun ZhangiD· 2 shared Mary J. GoldmaniD· 2 shared Nuno A. FonsecaiD· 2 shared Peter J. ParkiD· 2 shared Qian XiangiD· 2 shared Adam Novak· 1 shared

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2016-2020 · peak 2/yr

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10 top collaborators · 37 mutual co-author links

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3 shared papersBioinformatics

Jingchun ZhuORCID

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3 papers

Recent·Most cited

BioinformaticsNature CommunicationsPeer-reviewedJul 7, 2020

A user's guide to the online resources for data exploration, visualization, and discovery for the Pan-Cancer Analysis of Whole Genomes project (PCAWG)

Mary J. Goldman, Junjun Zhang, Nuno A. Fonseca…·Miguél Vázquez

The paper provides a user guide to five online tools for exploring and visualizing PCAWG data, demonstrating their integration with external resources to enhance cancer genomics research.

43 citations

whole-genome sequencingbenchmark study

𝕏 PostBluesky

GenomicsNature CommunicationsPeer-reviewedFeb 5, 2020

Whole genome and RNA sequencing of 1,220 cancers reveals hundreds of genes deregulated by rearrangement of cis-regulatory elements

Yiqun Zhang, Fengju Chen, Nuno A. Fonseca…·Paul Alan Edwards

The paper identifies hundreds of genes deregulated by SVs in cancer, showing increased expression linked to SV breakpoints and enhancer elements.

77 citationstop 2%

humanwhole-genome sequencing

𝕏 PostBluesky

BioinformaticsbioRxivJul 7, 2016

Rapid and efficient analysis of 20,000 RNA-seq samples with Toil

John Vivian, Arjun Rao, Frank Austin Nothaft…·Benedict Paten

The paper demonstrates Toil's ability to efficiently process 20,000 RNA-seq samples to create a batch-effect-free meta-analysis across five datasets.

DOI 10.1038/nbt.3772

bulk RNA-seqexperimental assay

𝕏 PostBluesky