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  colon carcinoma HCT116

Overall Design109 single-cell human transcriptomes were analyzed in total; 96 using nanoliter volume sample processing on a microfluidic platform, Nextera library prep (biological replicates); 3 using the SMARTer cDNA synthesis kit, Nextera library prep (biological replicates); 3 using the Transplex cDNA synthesis kit, Nextera library prep (biological replicates); 7 using the Ovation Nugen cDNA synthesis kit (biological replicates) where 3 used Nextera library prep and 4 used NEBNext library prep. In addition, 4 bulk RNA samples were sequenced: bulk RNA generated using ~1 million pooled cells was used to make bulk libraries, 2 of which were made using SMARTer cDNA synthesis kit (technical replicates) and 2 made using Superscript RT kit with no amplification (technical replicates). All 4 bulk samples were made into libraries using Nextera.
SummaryWe generated single-cell transcriptomes from a large number of single cells using several commercially available platforms, in both microliter and nanoliter volumes, and compared performance between them. We benchmarked each method to conventional RNA-seq of the same sample using bulk total RNA, as well as to multiplexed qPCR, which is the current gold standard for quantitative single-cell gene expression analysis. In doing so, we were able to systematically evaluate the sensitivity, precision, and accuracy of various approaches to single-cell RNA-seq. Our results show that it is possible to use single-cell RNA-seq to perform quantitative transcriptome measurements of individual cells, that it is possible to obtain quantitative and accurate gene expression measurements with a relatively small number of sequencing reads, and that when such measurements are performed on large numbers of cells, one can recapitulate the bulk transcriptome complexity, and the distributions of gene expression levels found by single-cell qPCR.
Dataset viewGSE51254
PMID24141493

Samples in colon carcinoma HCT116

Displaying 71-80 of 109 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE51254GSM1241211Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 58colon carcinoma HCT116
GSE51254GSM1241212Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 59colon carcinoma HCT116
GSE51254GSM1241213Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 60colon carcinoma HCT116
GSE51254GSM1241214Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 61colon carcinoma HCT116
GSE51254GSM1241215Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 62colon carcinoma HCT116
GSE51254GSM1241216Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 63colon carcinoma HCT116
GSE51254GSM1241217Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 64colon carcinoma HCT116
GSE51254GSM1241218Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 65colon carcinoma HCT116
GSE51254GSM1241219Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 66colon carcinoma HCT116
GSE51254GSM1241220Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 67colon carcinoma HCT116

Gene rank in colon carcinoma HCT116

Displaying 20301-20310 of 20378 results.
Rank orderGene SymbolEnsembl ID
20301ADAM3AENSG00000197475
20302C8AENSG00000157131
20303MMP17ENSG00000198598
20304ABP1
20305SNX31ENSG00000174226
20306NLRP5ENSG00000171487
20307CYP27B1ENSG00000111012
20308LOC283089
20309RGS9ENSG00000108370
20310CALN1ENSG00000183166