Question

Papers on Paired Single Cell and Bulk RNAseq

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4.1 years ago

jrleary ▴ 210

My lab has paired bulk and single cell RNAseq for several tumor samples. We'd like to somehow use our single cell results (basically annotated clusters of cells w/ cell identities and differentially expressed genes, plus a malignant / normal cell label) to inform our bulk RNAseq analysis, but I'm somewhat lost on where to begin. I've been looking for papers on joining the data from the two technologies but I haven't found anything super useful yet. Any ideas / hints on where to start, or what papers I should be reading would be excellent.

RNA-Seq scRNA-seq • 1.9k views

ADD COMMENT • link updated 4.1 years ago by atgustin ▴ 10 • written 4.1 years ago by jrleary ▴ 210

score 1 · Answer 1 · 2020-03-25

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4.1 years ago

atgustin ▴ 10

Check out work by the Shalek Lab. He spoke at UW a few months back and gave a really great talk on single cell data; at the end he spent time discussing how modules from their single cell work inform analysis of the their bulk sequencing.

http://shaleklab.com/

ADD COMMENT • link 4.1 years ago by atgustin ▴ 10

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forgot to mention he has some good videos on youtube that could serve as an introduction

ADD REPLY • link 4.1 years ago by atgustin ▴ 10

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Is this the presentation to which you are referring? I can't find any UW videos with Dr. Shalek that are recent.

ADD REPLY • link 4.1 years ago by jrleary ▴ 210