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Biological & Technical Variation in Single Cell Gene Expression Experiments

  • CG000170_TechNote_BiologicalandTechnicalVariationinSingleCell3'GeneExpressionExperiments_RevA_.pdf

    Technical Note, CG000170

    CG000170_TechNote_BiologicalandTechnicalVariationinSingleCell3'GeneExpressionExperiments_RevA_.pdf

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Technical Note - Biological & Technical Variation in Single Cell Gene Expression Experiments

The Chromium Single Cell 3′ v2 Reagent Kits protocol (Document CG00052) produces Single Cell 3′ short-read sequencer compatible libraries. Technical and biological variation may be present in the experiment design, and may impact data interpretation. Potential sources of technical variation include running a sample on two separate microfluidic chips or at different well positions on the same chip, and or technical variation introduced by sequencing libraries on separate Illumina flowcells or sequencing lanes. This Technical Note examines the potential sources of technical and biological variation and their effects on single cell gene expression. These factors need to be considered when designing an experiment to minimize bias and generate reliable single cell gene expression data.

FOR USE WITH

  • Chromium™ Single Cell 3’ Library & Gel Bead Kit v2, 16 rxns PN-120237
  • Chromium™ Single Cell 3’ Library & Gel Bead Kit v2, 4 rxns PN-120267
  • Chromium™ Single Cell A Chip Kit, 48 rxns PN-120236
  • Chromium™ Single Cell A Chip Kit, 16 rxns PN-1000009
  • Chromium™ i7 Multiplex Kit, 96 rxns PN-120262
Document Type
Technical Note

Last Modified
June 11, 2021