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Cell Information

  MCF10a human breast cancer 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

Samples in MCF10a human breast cancer cells

Displaying 1-10 of 102 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE66357GSM1620647Illumina NextSeq 500Homo sapiensPS034_R2_4_363MCF10a human breast cancer cells
GSE66357GSM1620648Illumina NextSeq 500Homo sapiensPS034_R2_4_374MCF10a human breast cancer cells
GSE66357GSM1620649Illumina NextSeq 500Homo sapiensPS034_R2_4_379MCF10a human breast cancer cells
GSE66357GSM1620650Illumina NextSeq 500Homo sapiensPS034_R2_4_381MCF10a human breast cancer cells
GSE66357GSM1620651Illumina NextSeq 500Homo sapiensPS034_R2_4_384MCF10a human breast cancer cells
GSE66357GSM1620652Illumina NextSeq 500Homo sapiensPS034_R2_4_396MCF10a human breast cancer cells
GSE66357GSM1620653Illumina NextSeq 500Homo sapiensPS034_R2_4_404MCF10a human breast cancer cells
GSE66357GSM1620654Illumina NextSeq 500Homo sapiensPS034_R2_4_407MCF10a human breast cancer cells
GSE66357GSM1620655Illumina NextSeq 500Homo sapiensPS034_R2_4_425MCF10a human breast cancer cells
GSE66357GSM1620656Illumina NextSeq 500Homo sapiensPS034_R2_4_43MCF10a human breast cancer cells

Gene rank in MCF10a human breast cancer cells

Displaying 18951-18960 of 18975 results.
Rank orderGene SymbolEnsembl ID