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  U87 human glioma cells

Overall DesignA microfluidic device that pairs sequence-barcoded mRNA capture beads with individual cells was used to barcode cDNA from individual cells which was then pre-amplified by in vitro transcription in a pool and converted into an Illumina RNA-Seq library. Libraries were generated from ~600 individual cells in parallel and extensive analysis was done on 396 cells from the U87 and MCF10a cell lines and from ~500 individual cells with extensive analysis on 247 cells from the U87 and WI-38 cell lines. Sequencing was done on the 3'-end of the transcript molecules. The first read contains cell-identifying barcodes that were present on the capture bead and the second read contains a unique molecular identifier (UMI) barcode, a lane-identifying barcode, and then the sequence of the transcript.
SummarySingle cell transcriptomics has emerged as a powerful approach to dissecting phenotypic heterogeneity in complex, unsynchronized cellular populations. However, many important biological questions demand quantitative analysis of large numbers of individual cells. Hence, new tools are urgently needed for efficient, inexpensive, and parallel manipulation of RNA from individual cells. We report a simple microfluidic platform for trapping single cell lysates in sealed, picoliter microwells capable of “printing” RNA on glass or capturing RNA on polymer beads. To demonstrate the utility of our system for single cell transcriptomics, we developed a highly scalable technology for genome-wide, single cell RNA-Seq. The current implementation of our device is pipette-operated, profiles hundreds of individual cells in parallel with library preparation costs of ~$0.10-$0.20/cell, and includes five lanes for simultaneous experiments. We anticipate that this system will ultimately serve as a general platform for large-scale single cell transcriptomics, compatible with both imaging and sequencing readouts.type = Expression profiling by high throughput sequencing
Dataset viewGSE66357
PMID26047807

Samples in U87 human glioma cells

Displaying 1-10 of 138 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE66357GSM1620391Illumina NextSeq 500Homo sapiensPS034_R2_0_736U87 human glioma cells
GSE66357GSM1620392Illumina NextSeq 500Homo sapiensPS034_R2_0_737U87 human glioma cells
GSE66357GSM1620393Illumina NextSeq 500Homo sapiensPS034_R2_0_753U87 human glioma cells
GSE66357GSM1620394Illumina NextSeq 500Homo sapiensPS034_R2_0_760U87 human glioma cells
GSE66357GSM1620395Illumina NextSeq 500Homo sapiensPS034_R2_0_762U87 human glioma cells
GSE66357GSM1620396Illumina NextSeq 500Homo sapiensPS034_R2_0_763U87 human glioma cells
GSE66357GSM1620397Illumina NextSeq 500Homo sapiensPS034_R2_0_772U87 human glioma cells
GSE66357GSM1620398Illumina NextSeq 500Homo sapiensPS034_R2_0_776U87 human glioma cells
GSE66357GSM1620399Illumina NextSeq 500Homo sapiensPS034_R2_0_78U87 human glioma cells
GSE66357GSM1620400Illumina NextSeq 500Homo sapiensPS034_R2_0_796U87 human glioma cells

Gene rank in U87 human glioma cells

Displaying 111-120 of 18975 results.
Rank orderGene SymbolEnsembl ID
111HMGB1ENSG00000189403
112MTRNR2L8ENSG00000255823
113CAV1ENSG00000105974
114S100A2ENSG00000196754
115PGAM1ENSG00000171314
116RPL14ENSG00000188846
117NGFRAP1
118RANENSG00000132341
119ARPC1BENSG00000130429
120EIF1ENSG00000173812