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| Status |
Public on Feb 11, 2019 |
| Title |
TARGET-seq: novel method for single-cell mutational analysis and parallel RNA-sequencing [validation in cell lines; Figure 2 and Figure S3] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We developed TARGET-seq, a single-cell genotyping and RNA-seq method, which allows accurate detection of multiple mutations within single-cells from genomic and coding DNA in parallel with whole transcriptome analysis, providing a powerful tool to link transcriptional and genetic tumor heterogeneity. Single cell whole transcriptome analysis of JURKAT, SET2 and HSPCs using SMART-seq+, mRNA targeting (tSMARTseq) or TARGET-seq reveals very good correlations between methods.
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| Overall design |
Whole transcriptome analysis of single cells processed using SMART-seq+, mRNA targeting and TARGET-seq methods. We analyzed sequencing metrics, library quality and potential biases using TARGET-seq as compared to SMART-seq+ or mRNA targeting methods (tSMARTseq), in two different human cell lines (JURKAT and SET2) and primary HSPCs (Hematopoietic Stem and Progenitor Cells).
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| Contributor(s) |
Rodriguez-Meira A, Mead AJ |
| Citation(s) |
30765193 |
| |
| Submission date |
Oct 20, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Alba Rodriguez-Meira |
| Organization name |
University of Oxford
|
| Department |
Weatherall Institute of Molecular Medicine
|
| Street address |
John Radcliffe Hospital/Headley Way
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| City |
Oxford |
| ZIP/Postal code |
OX3 9DS |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (180)
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| This SubSeries is part of SuperSeries: |
| GSE105454 |
TARGET-seq: novel method for single-cell mutational analysis and parallel RNA-sequencing |
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| Relations |
| BioProject |
PRJNA415204 |
| SRA |
SRP120614 |
| SRA |
SRP167864 |
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