Simultaneous Profiling of Host Expression and Microbial Abundance by Spatial Meta-Transcriptome Sequencing

Abstract excerpt

We developed an analysis pipeline that can extract microbial sequences from Spatial Transcriptomic (ST) data and assign taxonomic labels, generating a spatial microbial abundance matrix in addition to the default host expression matrix, enabling simultaneous analysis of host expression and microbial distribution. We called the pipeline Spatial Meta-transcriptome (SMT) and applied it on both human and murine intest...

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• Cancer Research and Treatments
• Clostridium difficile and Clostridium perfringens research
• Gut microbiota and health
• Inflammatory Bowel Disease
• Orthopedic Infections and Treatments

Identifiers and source

Literature Corpus work

e0a851a0-4c96-5d61-9999-f737cbfaae31

DOI

10.1101/2022.08.04.502882