“The Genomics Facility provides state-of-the-art facilities for high-throughput genomic research using high-throughput sequencing and single-cell technologies.”

The portfolio of services can be found here.

Advice and technical support for Genomics research projects

We provide specialised advice from experimental design through to publication for genomic projects and offer full technical support and training for a broad range of applications including ChIP-seq, RNA-seq, whole genome and exome re-sequencing, targeted re-sequencing, methylome analysis, amplicon sequencing, small RNA-seq and single cell RNA- and ATAC-seq. The facility runs regular technical workshops and training on the latest genomics applications and is an active member of the London Genomics Network.

High throughput Illumina short-read sequencing and Nanopore long-read sequencing

The facility runs an NGS library preparation and sequencing service with fast turnaround time and high quality data generation using Illumina HiSeq2500, Nextseq500 and Miseq sequencers. We also support long read sequencing projects on the Oxford Nanopore MinION and Flongle devices. Data management, sequence alignment and downstream analyses are performed by the LMS Bioinformatics Core team.

Single-cell Genomics and automation

The facility offers a single-cell analysis service on the 10X Genomics Chromium and Fluidigm C1 systems as well as the Biomark HD for digital PCR. We support all applications including single-cell RNA-seq, single-cell ATAC-seq and Feature barcoding. We use the Mosquito HV liquid handler to miniaturise library preparation for single cell work using nanolitre volumes and we are continuously developing new methodologies to enable large-scale single cell projects at a reasonable cost.

shRNA Library clone picking service

The Facility hosts the GIPZ Lentiviral™ short hairpin RNA libraries for mouse and human genomes and pick clones targeting genes of interest on demand.

Open access equipment

The Facility provides open access to specific equipment like Covaris shearing for sequencing library preparation, Bioanalyser and Tapestation for RNA and DNA quality assessment, Nanodrop and Qubit for nucleic acid quantification, Fluidigm AccessArray system for high throughput amplicon generation, Biomek Fx for large scale 96- and 384-well liquid handling and real-time qPCR machines (QuantStudio7).

Contact

Dr Laurence Game (Facility Head), Mr Ivan Andrew (Lab Manager), Mrs Jaspreet Haywood (Research Assistant)

Selected Publications

Saint M, Bertaux F, Tang W, Sun XM, Game L, Köferle A, Bähler J, Shahrezaei V, Marguerat S.  (2019) Single-cell imaging and RNA sequencing reveal patterns of gene expression heterogeneity during fission yeast growth and adaptation. Nat Microbiol. 4(3):480-491

Webster P, Dawes JC, Dewchand H, Takacs K, Iadarola B, Bolt BJ, Caceres JJ, Kaczor J, Dharmalingam G, Dore M, Game L, Adejumo T, Elliott J, Naresh K, Karimi M, Rekopoulou K, Tan G, Paccanaro A, Uren AG.  (2018)  Subclonal mutation selection in mouse lymphomagenesis identifies known cancer loci and suggests novel candidates.  Nat Commun. 9(1):2649

Beagrie RA, Scialdone A, Schueler M, Kraemer DC, Chotalia M, Xie SQ, Barbieri M, de Santiago I, Lavitas LM, Branco MR, Fraser J, Dostie J, Game L, Dillon N, Edwards PA, Nicodemi M, Pombo A. (2017) Complex multi-enhancer contacts captured by genome architecture mapping. Nature 534; 519-524. doi:10.1038/nature21411