Equipment
Instrument List
The Chromium Controller instrument performs the integral first step in constructing 10x Genomics single cell NGS libraries by creating the emulsion bubbles in which single cells are isolated and individually tagged with a unique 16nt barcode. Current applications include 3′ Single cell RNA-seq, 5′ single cell RNA-seq with or without additional VDJ immune profiling (B cell or T cell) and cell surface feature barcoding libraries (allowing more than one individual sample to be multiplexed into a single library, thus saving on reagent and prep costs), ATAC-seq, and cell surface protein to RNA transcript association analysis (same workflow as the previously mentioned feature barcode multiplexing strategy). Up to 10,000 cells can be captured per library, allowing for deep profiling of complex cell populations. This instrument is core operated only.
The NextSeq 2000 is Illumina’s latest advancement in Next Generation Sequencing (NGS) benchtop instrumentation. It operates the P2 patterned flow cell which has an output of 400 Million reads per run, similar to the High Output flow cell of the NextSeq 500 for a similar run time. The same instrument is engineered to run the P3 flow cell with an output of 1 Billion reads (300 Gb) per run or 2.5X the capacity of our previous NextSeq 500 instrument. The P3 yields a number of clusters that is between the High-End NovaSeq 6000’s SP and S1 flow cells.
More information can be found on the Planning an NGS Experiment page.
Applications
- Whole-genome resequencing
- Targeted resequencing, including exome panels and custom enrichment panels (100s kb–Mbs)
- Whole-genome de novo sequencing
- Sequencing of bisulfite-treated DNA (Methyl-Seq)
- RNA sequencing (RNA-Seq), including mRNA sequencing and total RNA sequencing (coding and noncoding)
- Genotyping by sequencing
- Nucleosome positioning and chromatin structure studies
- ChIP-Seq: studying sequence-specific protein–RNA interactions
- Sequencing of ancient DNA samples
- Single-cell applications including RNA-Seq, VDJ, Cell surface expression, ATAC-seq
- Linked long-read applications
The miSeq desktop sequencer allows access to more focused applications such as microbiome sequencing (bacterial and fungal), amplicon sequencing, metagenomics, and small genome sequencing, starting with 10ng of DNA. New MiSeq reagents enable up to 25 million sequencing reads and 2×300 bp read lengths.
The QIAcuity is a nanoplate-based system which seamlessly integrates a standard dPCR workflow of partitioning, thermocycling and imaging into a walk-away automated platform with minimal hands-on time.The QIAcuity system makes absolute quantification accessible, affordable and easy for all laboratories. The walk-away automation integrates and streamlines the entire digital PCR workflow into single instrument with minimal hands-on time. It is also easy to adapt your current qPCR assays to the QIAcuity Digital PCR System. No change in plate handling is required when coming from qPCR, assuring fast assay setup and quick results in under 2 hours.
The QIAcuity Digital PCR System will deliver precise and multiplexed quantification results for all molecular applications including but not limited to the following research areas:
- -Rare mutation detection
- -Copy number variation analysis
- -Gene expression analysis
- -NGS library quantification
- -Pathogen detection
- -Genotyping
- -miRNA research
The QuantStudio 6 performs both SYBR Green and TaqMan qPCR. Real-time quantitative PCR (qPCR) is a highly sensitive and specific method for SNP genotyping and for amplifying, detecting and quantitating target transcripts. The QuantStudio 6-Flex enables detection as small as 1.5-fold changes in singleplex reactions and with 10 logs dynamic range. It can also be used to identify new variants quickly and accurately with high resolution melt.
The Agilent 4200 TapeStation system is an automated electrophoresis tool for assessing size, quality, and concentration of up to 96 DNA or RNA samples per run. This instrument is commonly used to QC RNA prior to RNAseq library prep and to QC finished NGS libraries. The core currently stocks a variety of kits for analyzing RNA and DNA of both high and low concentrations. This instrument is both Core and user operated, but requires user training before use.
The Agilent Bioanalyzer uses a microfluidic chip to perform similar analyses to the TapeStation. This instrument is currently only available for special request runs of a type that are not supported by the Agilent TapeStation. Please inquire.
