Nanopublication: CoLoC-seq method for subcellular RNA localisation
type: Nanopublication
has assertion: assertion
has provenance: provenance
has publication info: pubinfo
type: AIDA-Sentence
about: CoLoC-seq probes the global topology of organelle transcriptomes
text: CoLoC-seq is a novel subcellular transcriptomics approach that uses enzymatic kinetics to distinguish genuine organellar resident RNAs from surface-attached contaminants.
type: ExampleNanopub
created: 2026-01-11T00:00:00Z
license: https://creativecommons.org/publicdomain/zero/1.0/
signed by: Tiado Kollender
created by: Tiado Kollender
comment: AIDA-based assertion about CoLoC-seq as a novel subcellular transcriptomics approach
was attributed to: Tiado Kollender

CoLoC-seq Kinetics Model
type: Thing
formula: f(A) = (1 - P0) * exp(-k'i * A) + P0
SIO_000211: P0
SIO_000211: k'i
comment: P0 represents protected RNA pool proportion; k'i represents digestion rate constant

CoLoC-seq
type: data_0957
type: Thing
has function: operation 3680
application area: Extracellular vesicle characterization
application area: Mitochondrial transcriptomics
application area: Organelle RNA localisation
description: Controlled Level of Contamination coupled to deep sequencing - a novel subcellular transcriptomics approach
SIO_000135: CoLoC-seq Kinetics Model
SIO_000135: Mock CoLoC-seq
comment: Leverages classical enzymatic kinetics to track depletion dynamics of transcripts using RNase gradients

Mock CoLoC-seq
type: Thing
description: Control experiment with detergent-permeabilized membranes to detect false positives
comment: Distinguishes genuine protection from intrinsic RNase resistance

CoLoC-seq probes the global topology of organelle transcriptomes
type: AcademicArticle
type: ScholarlyArticle
doi: 10.1093/nar/gkac1205
date published: 2023
is part of: Nucleic Acids Research

Nucleic Acids Research
type: Periodical
issn: 0305-1048

sig
has algorithm: RSA