Seeking the Next Generation
In Illumina sequencing, this modification to a nucleotide allows the addition of each nucleotide fluorophore to be viewed one at a time.
What is a reversible terminator?
This enzyme synthesizes DNA using RNA as a template.
What is reverse transcriptase?
This type of device enables separation of individual cells into droplets with beads.
What is a micro-fluidic device?
This type of plot can be used to visualize the quartile distribution of transcripts between different microarray or RNAseq experiments.
What is a boxplot?
In performing clustering, the main goal is to maximize this between genes that are grouped within a single cluster.
What is similarity?
Although this instrument produces longer read length than any other next-generation sequencer, its sequencing reads contain high error rates that can limit its use.
What is Pacific Biosciences?
The entire complement of all transcripts produced within an organism including all cell types, tissues and in response to the environment.
What is a transcriptome?
This type of plot is used to visualize similarities among single cell transcriptomes.
What is a t-SNE plot?
This distribution best approximates RNAseq data.
What is negative binomial?
Similarity in gene expression is calculated and determined based on a type of this.
What is a distance metric?
Production of clusters with Illumina sequencing uses this process.
What is bridge amplification?
A color-scale graphical representation used to represent the levels of many different transcripts across many different treatments or conditions.
What is a heatmap?
This defines the number of genes expressed in an individual cell.
What is a unique molecular identifier?
This property of a transcript is taken into account when normalizing read count within an RNAseq experiment.
What is cDNA length?
A similarity measure in which genes with similar expression patterns, rather than expression magnitude, are grouped together.
What is Pearson correlation?
This aspect of DNA synthesis is utilized in both Illumina and Pacific Biosciences sequencing and is essential to DNA’s primary structure.
What is “formation of a phosphodiester linkage”?
This type of transcriptional processing is taken advantage of when synthesizing cDNA from RNA.
What is addition of a polyA tail?
Single cell RNA sequencing can be used to identify these new genes which can classify a new cell type.
What is a marker or reporter gene?
This type of statistical test can be used to detect differential expression between two treatments, but not any more than this.
What is a t-test?
A method of clustering in which one begins with a single gene, and successively joins the nearest clusters until all genes fit into a single "super cluster” or root.
What is agglomerative hierarchical clustering?
Unlike others of its kind, this enzyme aids in DNA sequencing by allowing fluorescence to be excited and detected in real time.
What is a “pause” polymerase?
This type of molecule can be used to determine the function of a long non-coding RNA.
What is an siRNA?
This property of an mRNA is also a disadvantage when it comes to sequencing complex RNAs within a single cell.
What is the 3’ end?
Normalization methods are used to ensure similar variation between experiments so that this can be carried out.
What is “detection of differentially expressed genes”?
A method in performing data analysis in which there is no specification by the user to identify a certain pattern; rather, the data tells the user which patterns are found. This method occurs with most clustering approaches.
What is unsupervised?