10.5061/DRYAD.QB7R0D3
Salvador-Martínez, Irepan
University College London
Grillo, Marco
Institut de Génomique Fonctionnelle
Averof, Michalis
Institut de Génomique Fonctionnelle
Telford, Maximilian J.
University College London
Data from: Is it possible to reconstruct an accurate cell lineage using
CRISPR recorders?
Dryad
dataset
2019
Lineage tracing
Drosop
CRISPR recorders
2019-02-01T19:11:46Z
2019-02-01T19:11:46Z
en
https://doi.org/10.7554/elife.40292
765764903 bytes
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CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Cell lineages provide the framework for understanding how multicellular
organisms are built and how cell fates are decided during development.
Describing cell lineages in most organisms is challenging, given the
number of cells involved; even a fruit fly larva has ~50,000 cells and a
small mammal has more than 1 billion cells. Recently, the idea of using
CRISPR to induce mutations during development as heritable markers for
lineage reconstruction has been proposed and trialled by several groups.
While an attractive idea, its practical value depends on the accuracy of
the cell lineages that can be generated by this method. Here, we use
computer simulations to estimate the performance of this approach under
different conditions. Our simulations incorporate empirical data on
CRISPR-induced mutation frequencies in Drosophila. We show significant
impacts from multiple biological and technical parameters - variable cell
division rates, skewed mutational outcomes, target dropouts and different
mutation sequencing strategies. Our approach reveals the limitations of
recently published CRISPR recorders, and indicates how future
implementations can be optimised to produce accurate cell lineages.
Sequencing data to analyse the targeting efficiencies of different
sgRNA:target pairsThe zip file contains: 1) a README spreadsheet in
standard GEO format, with further informations about the data. 2) RAW DATA
folder, containing the raw FASTQ output of the sequencing run, as well as
a run report in PDF. 1) Six folders containing demultiplexed read for each
experimental condition (indicated by the folder name). Each folder
contains 11 files, corresponding to the 11 amplicons sequenced per
condition.Salvador-Martinez et al. 2018.zip