Below is an overview of the platforms at UCL Genomics.
- High Throughput Sequencing (NGS)
Illumina NextSeq 500
- Can perform a different range of sequencing methods – transcriptome, exome and targeted sequencing.
- Provides up to 400 million single reads per run and allows to sequence up to 24 samples in parallel.
- Read length is flexible based on the number of cycles performed
- Can generate single-end 75 bp, or paired-end 75 bp and paired-end 150 bp reads.
- One of the smallest Illumina instruments integrating cluster generation, sequencing and data analysis.
- Suitable for targeted gene sequencing, metagenomics, small genome sequencing, targeted gene expression, 16S amplicon sequencing.
- Provides up to 15 million single reads (version 2) or up to 50 million single reads (version 3) in a single run.
- Read lengths can range from single-end 36 bp up to paired-end 250 bp (v2) and paired-end 300 bp (v3) based on the experimental needs.
For genome and exome sequencing, please contact Deborah Hughes at the UCL Institute of Neurology facility.
- Microarray platforms
Illumina iScan with autoloader and Tecan Freedom Evo for complete automation
- For use with all high throughput projects using Illumina microarrays
- Can process thousands of samples for genotyping/methylation per week
Affymetrix GeneChip Microarray System
- Can be used for processing of all Affymetrix microarray portfolio - legacy projects only
- User to provide cRNA for hybridisation onto Affymetrix microarrays
- Sample Quality
UCL Genomics offers a wide range of instruments for sample Quality Control:
Thermo Scientific Nanodrop
Based on the detection of target-specific fluorescence and allows quick quantification of nucleic acids.
Good for: Checking the purity of nucleic acids and the presence of contaminants.
Qubit Fluorometric Quantitation
Accurately measures the concentrations of DNA, RNA and protein reported by a fluorescent dye bound to the sample.
Good for: Accurate quantification.
Agilent 2100 Bioanalyzer
Based on the Lab-on-a-Chip technology, allowing quantification and assessing quality of DNA, RNA and proteins. The Bioanalyser software provides the DNA or RNA Integrity Number (DIN or RIN) to aid quality assessment.
Good for: Quantification and assessing sample quality/integrity, separation and sizing.
Agilent 2200 TapeStation System
Allows automated sample processing for quick and reliable sample quality check using disposable Agilent ScreenTape, available for DNA, RNA and protein applications. The Tapestation provides information about the integrity of the samples generating a DNA or RNA Integrity Number.
Good for: Quantification and assessing sample quality/integrity.
UCL Genomics can perform QC on your samples or you can access this equipment independently. Please get in contact with Dr Paola Niola for further information.
- Laboratory Automation
The Hamilton Robotics STARlet liquid handling robot at UCL Genomics is used to automate protocols for large projects or routine applications such as sample normalisation or magnetic bead based clean ups (e.g. AMPure). Below are some of the protocols automated using the Hamilton STARlet.
- Kapa mRNA hyper protocols
- Nextera protocols
- Normalisation of libraries
- Tapestation plate set up
- NEB DNA Ultra
- Clontech SMARTer
- QUBIT set up
- Bisulphite conversion (for EPIC methylation microarrays)