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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 21-30 of 109 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE51254GSM1241161Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 8colon carcinoma HCT116
GSE51254GSM1241162Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 9colon carcinoma HCT116
GSE51254GSM1241163Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 10colon carcinoma HCT116
GSE51254GSM1241164Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 11colon carcinoma HCT116
GSE51254GSM1241165Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 12colon carcinoma HCT116
GSE51254GSM1241166Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 13colon carcinoma HCT116
GSE51254GSM1241167Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 14colon carcinoma HCT116
GSE51254GSM1241168Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 15colon carcinoma HCT116
GSE51254GSM1241169Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 16colon carcinoma HCT116
GSE51254GSM1241170Illumina HiSeq 2000Homo sapiensSingle Cell C1 Microfluidics 17colon carcinoma HCT116

Gene rank in colon carcinoma HCT116

Displaying 20321-20330 of 20378 results.
Rank orderGene SymbolEnsembl ID
20321MYH8ENSG00000133020
20322TYRP1ENSG00000107165
20323CYP2B7P1
20324KYENSG00000174611
20325ZNF134ENSG00000213762
20326NLRX1ENSG00000160703
20327OTUD7AENSG00000169918
20328KRTAP5-5ENSG00000185940
20329GATA3ENSG00000107485
20330FLJ46361