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Illumina sequencers are capable of a wide array of applications: if adapters can be added to it, it can be sequenced. Below is a list of common applications.

Genome Sequencing (gDNA)

Leverage single- or paired-end reads for:

  • Single Nucleotide Variations from whole-genome and targeted resequencing
  • Copy Number Variations and chromosomal rearrangements
  • De novo sequencing and assembly

Targeted Exome Capture (Seq-cap)

The exome represents all the exons in the human genome (i.e., the transcribed region of the genome). Exome sequencing is an efficient strategy to selectively sequence the coding regions of the human genome to identify novel genes associated with rare and common disorders.

Whole Transcriptome Sequencing (mRNA-seq)

With RNA sequencing, you can characterize all transcriptional activity, coding and non-coding, in any organism without a priori assumptions. Illumina's unique combination of long and short reads, single and paired-end sequencing, strand specificity, and capacity for tens of millions to billions of reads per run allows you to

  • annotate coding SNPs
  • discover transcript isoforms
  • identify regulatory RNAs
  • characterize splice junctions
  • determine the relative abundance of transcripts

DNA-Protein Interactions (ChIP-seq)

Generate genome-wide profiles of DNA-protein interactions. Identify DNA fragments bound to:

  • Transcription factors
  • Histones
  • Polymerases

Small RNA Discovery and Analysis (smRNA-seq)

Discover and profile all forms of small non-coding RNA. No prior sequence or structure information is required.

  • Novel miRNAs
  • Differential expression
  • Sequence variants

DNA Methylation (Epi Capture)

Discover methylation variable positions (MVPs) across the whole genome by sequencing DNA from:

  • Methylation-sensitive restriction digests
  • Bisulfite conversion
  • Anti-methyl C precipitation