Skip to content

No-amplification non-tagging CAGE (nAnT-iCAGE)

Definition
AI-generated

nAnT-iCAGE is a cap-trapping CAGE library protocol for Illumina sequencing that omits PCR amplification and restriction-based shortening steps used in earlier CAGE versions, aiming for less biased genome-wide mapping of capped RNA 5′ ends to transcription start sites.

Topics
Sequencing and omics tech
Synonyms
nAnT iCAGE
Related
Cap Analysis of Gene Expression (CAGE-seq) Functional Annotation of the Mammalian Genome (FANTOM) Transcription Start Site (TSS)

Why it matters in GWAS

Promoter-level interpretation of noncoding associations benefits from high-confidence TSS maps; nAnT-iCAGE-style libraries are often treated as a stringent reference for cap-trapped CAGE when comparing atlas data, QC, or annotation pipelines built from 5′-end signal.

Example usage

"We compared SLIC-CAGE peaks to an nAnT-iCAGE reference library prepared with 5 µg total RNA."

Cap Analysis of Gene Expression (CAGE-seq) Functional Annotation of the Mammalian Genome (FANTOM) Transcription Start Site (TSS)
Related-term network

Click any node to open that term page.

Node order. The current term is first. Next come every page linked from Related terms, in the same top-to-bottom order as that list. Then new terms appear in two-hop layers: for each of those direct neighbors (in that same order), their related terms are appended if not already listed. A third pass does the same for two-hop nodes. The walk stops when a fixed maximum number of nodes is reached.

References

  • Murata M, et al. (2014). Detecting expressed genes using CAGE. Methods Mol Biol. https://doi.org/10.1007/978-1-4939-0805-9_7 (PMID: 24927836)
  • Haberle V, et al. (2018). SLIC-CAGE: high-resolution transcription start site mapping using nanogram-levels of total RNA. Genome Res. https://doi.org/10.1101/gr.235937.118
← Nanopore Sequencing Narrow-Sense Heritability →

Last updated (UTC · Git history)