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Everything about Spatial transcriptomics

Range of methods designed for assigning cell types

Spatial transcriptomics, or spatially resolved transcriptomics, is a method that captures positional context of transcriptional activity within intact tissue. The historical precursor to spatial transcriptomics is in situ hybridization, where the modernized omics terminology refers to the measurement of all the mRNA in a cell rather than select RNA targets. It comprises an important part of spatial biology. Wikipedia →

🧭 Start here: a 6-step reading path

  1. Read the overview: Spatial transcriptomicsA 5-minute orientation
  2. Skim a recent paper: Cell2location maps fine-grained cell types in spatial transcriptomicsInfluential work since 2022
  3. Pick up a classic book: Stem cell transcriptional networksThe most-reprinted book on the subject
  4. Read the landmark paper: Visualization and analysis of gene expression in tissue sections by spatial transcriptomicsCited 4,084 times
  5. Go sideways: Deterministic Barcoding in Tissue for Spatial Omics SequencingA closely related topic
  6. Go sideways: ATAC-seqA closely related topic

📖 Definitions

No dictionary entry for this exact phrase.

🗂️ The subject at a glance

  1. History
  2. Applications
  3. Microdissection
  4. Fluorescent in situ hybridization
  5. in situ sequencing
  6. in situ capture
  7. in silico construction

🏆 Landmark papers (most cited)

🆕 Influential since 2022

📚 Books worth reading

Ranked by number of editions on Open Library, a rough measure of how lasting a book is.

🔗 Related topics