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| Status |
Public on Jun 03, 2015 |
| Title |
Single-cell RNA sequencing of lung adenocarcinoma patient-derived cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
To address how intratumoral heterogeneity affects anti-cancer drug responses, we profiled transcriptomes of single cancer cells originating from lung adenocarcinoma patient-derived xenograft (PDX) tumors.
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| Overall design |
We performed single-cell RNA sequencing (scRNA-Seq) together with bulk sequencing by applying Smart-Seq protocol (Ramsköld et al., Nat Biotechnol 2012). Enrichment of cancer cells in PDX from primary tumor (LC-PT-45: bulk RNA-Seq, n=1) was identified by histopathological examination and genomic signatures. Tumor cell-enriched PDX cells (LC-PT-45: scRNA-Seq, n=34; bulk RNA-Seq, n=9) were analyzed, and additional batch (LC-Pt-45-Re: scRNA-Seq, n=43; bulk RNA-Seq, n=7) was obtained to check comparable results. H358 human lung cancer cells (scRNA-Seq, n=50; bulk RNA-Seq, n=1) were used as cell line controls. Another lung cancer PDX case (LC-MBT-15: scRNA-Seq, n=49; bulk RNA-Seq, n=7) was prepared to validate our analytical strategy applied in the LC-PT-45 case.
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| Contributor(s) |
Kim K, Lee HW, Lee H, Joo KM, Park W |
| Citation(s) |
26084335 |
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| Submission date |
May 31, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Kyu-Tae Kim |
| Organization name |
Samsung Medical Center
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| Department |
Samsung Genome Institute
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| Street address |
Irwon-Ro 81
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| City |
Seoul |
| ZIP/Postal code |
135-710 |
| Country |
South Korea |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (208)
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| Relations |
| BioProject |
PRJNA285793 |
| SRA |
SRP059035 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE69405_PROCESSED_GENE_TPM_ALL.txt.gz |
6.3 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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