NGI during Covid-19 outbreak

NGI is still up and running during the Covid-19 pandemic, but we are experiencing some limitations in terms of personnel and key reagents. Each NGI node is following its respective host university recommendations and will continue operation until further notice.

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Gene expression

Investigate transcription levels and isoforms, e.g. for studies of differential expression.

Sequence your total RNA and choose to perform an rRNA and/or globin RNA depletion. This procedure will allow to sequence long non-coding RNA and other non-polyadenylated RNAs, in addition to mRNAs. We offer this service using the Illumina TruSeq Stranded total RNA kit, as well as the Takara SMARTer Stranded Total RNA-Seq Kit (non-validated protocol) for low-input total RNA samples. Please note that NGI will normally not perform RNA extraction for users. Please contact us for discussions.

Illumina TruSeq Stranded mRNA

RNA sequencing of mRNAs selected through poly-A enrichment.

Illumina TruSeq Stranded total RNA (RiboZero)

RNA sequencing of all RNA in a sample after depletion of rRNA or another type of highly abundant RNA.

Illumina TruSeq Stranded RNA without selection or depletion

RNA sequencing of either all RNAs in a sample, or of a RNA sample depleted of for example rRNA by the user.

Ion Torrent sequencing

Ion Torrent semiconductor sequencing technology is as simple as it is fast.

Nanopore cDNA sequencing

Nanopore cDNA sequencing is able to sequence entire transcripts in one go, ideal for detecting isoforms and fusions events.

Nanopore Direct RNA sequencing

Nanopore direct RNA sequencing is able to sequence entire transcripts from native RNA, opening up opportunities to detect RNA modifications.

TaKaRa SMARTer pico RNA kit

The Takara SMARTer Stranded Total RNA-Seq Kit v2 - Pico Input Mammalian kit is specifically designed for very low input total RNA samples. It also works with degraded total RNA.

RNA-fusion analysis

Runs with illumina RNA-Seq data. Aligns to the reference genome, gives QC metrics, predicted gene fusions and finishes with graphically visualised reports.

RNA-seq analysis

Runs with illumina total RNA-sequencing data. Aligns to the reference genome, gives QC metrics and finishes with gene count matrices.