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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
GSE66357GSM1620347Illumina NextSeq 500Homo sapiensPS034_R2_0_102U87 human glioma cells
GSE66357GSM1620348Illumina NextSeq 500Homo sapiensPS034_R2_0_140U87 human glioma cells
GSE66357GSM1620349Illumina NextSeq 500Homo sapiensPS034_R2_0_142U87 human glioma cells
GSE66357GSM1620350Illumina NextSeq 500Homo sapiensPS034_R2_0_155U87 human glioma cells
GSE66357GSM1620351Illumina NextSeq 500Homo sapiensPS034_R2_0_187U87 human glioma cells
GSE66357GSM1620352Illumina NextSeq 500Homo sapiensPS034_R2_0_188U87 human glioma cells
GSE66357GSM1620353Illumina NextSeq 500Homo sapiensPS034_R2_0_237U87 human glioma cells
GSE66357GSM1620354Illumina NextSeq 500Homo sapiensPS034_R2_0_251U87 human glioma cells
GSE66357GSM1620355Illumina NextSeq 500Homo sapiensPS034_R2_0_254U87 human glioma cells
GSE66357GSM1620356Illumina NextSeq 500Homo sapiensPS034_R2_0_258U87 human glioma cells

Gene rank in U87 human glioma cells

Displaying 1-10 of 18975 results.
Rank orderGene SymbolEnsembl ID
1MIR4485
2MT-CO1ENSG00000198804
3MT-ND4ENSG00000198886
4NEAT1ENSG00000245532
5MT-CO3ENSG00000198938
6MT-CYBENSG00000198727
7GAPDHENSG00000111640
8MALAT1ENSG00000251562
9MT-ATP6ENSG00000198899
10MT-CO2ENSG00000198712