TitleLive single-cell laser tag
Data descriptionSingle-cell RNA-seq of 19 human retina cells
Doi10.1038/ncomms11636
Web-link of the paperhttps://www.nature.com/articles/ncomms11636
Data typescRNA-seq
DatabaseSequence Read Archive (SRA)
Accession numberSRP069088
URL of the datahttps://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP069088
Specieshuman
Tissueeye retina
Cell typeARPE-19
Number of cells19
Cell capture platformFluidigm C1
Library preparation protocolSMART-Seq
Unique molecular identifier (Y/N)NA
Spike-in (Y/N)Y
Full-length (Y/N)N
Brief summary of the scientific questionWe introduce cell labelling via photobleaching
(CLaP), a method that enables instant, specific tagging of individual cells based on a wide array of criteria such as shape, behaviour or positional information.

We show that the incorporated mark is stable, non-toxic,
retained for several days, and transferred by cell division but not to adjacent cells in culture.

To demonstrate the potential of CLaP for genomic applications, we combine CLaP with microfluidics-based single cell capture followed by transcriptome-wide next-generation sequencing.

Finally, we show that CLaP can also be exploited for inducing transient cell adhesion to substrates for microengineering cultures with spatially patterned cell types
Brief summary of the bioinformatics processingunsupervised hierarchical clustering of samples and PCA.
normalized (median of ratios), variance-stabilized
expression values were derived using DESeq2

Hierarchical clustering was performed using Pearson’s correlation as the distance metric and average linkage as
the agglomeration method.
CitationBinan, L., Mazzaferri, J., Choquet, K., Lorenzo, L. E., Wang, Y. C., Affar el, B., . . . Costantino, S. (2016). Live single-cell laser tag. Nat Commun, 7, 11636. doi:10.1038/ncomms11636
Web-link of the paperhttps://www.nature.com/articles/ncomms11636