Genomics Research Platform

Genomics Research Platform

Last update: 4th July 2024

If you have any queries please email the Genomics team at BRC.Genomics@gstt.nhs.uk

We are based on the 10th Floor in Guy's Hospital Tower Wing

New Services (July 2024)

Visium HD - We are very excited to share that we have now added Visium HD, whole transcriptome spatial discovery technology, to our portfolio.

This assay offers unbiased spatial insights at single-scale resolution with continuous coverage
offers unbiased spatial insights at single-scale resolution with continuous coverage
sequencing-based approach to generate spatial data compatible with FFPE tissues
probe-based chemistry and Visium CytAssist-enabled workflow

Contact Pawan Dhami on pawan.dhami@kcl.ac.uk for further information

New Equipment (Dec 2023)

Chromium iX– We have added the iX to our single cell genomics services. Chromium iX offers a cost-effective, high throughput single cell analysis for fixed samples (10x Genomics Flex assay). Please contact us to discuss projects requiring Flex workflow.
Visium CytAssist – Enables whole trancriptome spatial profiling. Please contact us to discuss your project requirements.

Using Genomics Research Platform Lab/Services

Please carefully read the 10th floor access and lab requirements below.

10th floor access for users

Access is restricted on the 10th floor and entry to the floor is via main reception only (Tower wing main lifts B) - do not use any other doors to gain entry to the floor
Access currently limited to lab-based activities only
Genomics lab will remain open from 8am – 6pm, Monday to Friday, and entry to the lab is via the front door only
Users must make iLab bookings and only the person making the bookings should be working in the Genomics lab
Only users trained by Genomics Team are allowed to operate the instruments in the lab

When you are using the Genomics lab, you must:

bring and wear your own lab coat
follow lab safety rules
disinfect the equipment and work surfaces before and after use with 70% ethanol or Trigene

Please contact us at BRC.genomics@gstt.nhs.uk if you have any queries.

Normal Opening Times

The Genomics Lab is only accessible during office hours, 8am to 6pm Monday - Friday.

The Genomics Lab won't be accessible outside of these hours for the forseeable future.

Overview of Services

The R&D Department at the Guy's and St Thomas' NHS Foundation Trust (GSTT) runs a Genomics Research Platform Laboratory located on the 10th Floor of Tower Wing at Guy's Hospital in London. The GSTT Genomics Research Platform is equipped with state-of-the-art tools required for functional genomics and transcriptomics analyses using Illumina's next-generation sequencing. The facility is operated by highly trained staff and provides services to academic and clinical groups at Guy’s Hospital, Kings Health Partners, Kings College London, other Universities, Hospitals and Industry.

Equipped with NextSeq 2000, Nanopore GridION and MiSeq sequencers, the Genomics Research Platform Laboratory provides library preparation and sequencing services. We also provide, on an hourly rate, the use of specialised equipment such as Covaris, Eppendorf vacuum concentrator, Qubit, Agilent Bioanalyzer, Agilent Tapestation 4150 and Quantstudio 7 real time PCR machine. Training is given to enable the use of specialised equipment and users trained by the Genomics Research Platform Laboratory team are eligible to schedule equipment in the facility for their use. We also provide data analysis as a service for the majority of library types.

Please note that some library preparations are conducted as a service and others as a collaboration.

All projects will require authorships for Genomics team members contributing to your project.

List of our Library preparation and sequencing services

Whole Genome (high quality DNA input of 10pg-100ng)
Whole Exome using Agilent Sureselect exome panels - V7 and V8
Custom Capture using Agilent Sureselect panels
Stranded mRNA-Seq (RNA input >50ng)
RNA-Seq (non-stranded) from ultra-low RNA input (pg amounts)
Small RNA sequencing (50ng Total RNA with retained small RNA)
FFPE RNA library preparation and sequencing
Single cell mRNA (plate-based method): SMARTseqV4 assay
RNA-Seq directly from cells (from 2-100 cells) - automated assay
RNA-Seq directly from cell (upto 1000 cells) - manual assay
Custom Amplicon libraries (Please enquire)
Single cell 3' transcriptome profiling (with/without feature barcoding or cell hashing - TotalSeq-B) - 10x Genomics
Single cell 5' transcriptome profiling (with/without feature barcoding or cell hashing - TotalSeq-C) - 10x Genomics
Single cell Immune Profiling (with/without feature barcoding or cell hashing - TotalSeq-C) - 10x Genomics
Single cell Multiome, ATAC + gene expression - 10x Genomics
Single cell transcriptome profiling from fixed samples (Flex assay) - 10x Genomics
Visium Spatial gene expression from fresh frozen tissue samples
Visium CytAssist Spatial gene expression for FFPE samples
Visium CytAssist Spatial gene and protein expression for FFPE samples

Note: Please contact Pawan Dhami (pawan.dhami@kcl.ac.uk) to enquire about any library preparations/assays not listed above.

Library clean up services on Pippin Prep (Please enquire)

Sequencing services are available on

1. NextSeq 2000

2. MiSeq

3. GridION X5 (please contact Pawan Dhami, pawan.dhami@kcl.ac.uk, to discuss projects for long read sequencing)

List of equipment available to customers for use (Training mandatory)

1. Covaris E220

2. Agilent Tapestation 4150

3. Agilent Bioanalyzer 2100

4. Qubit

5. Promega Glomax plate reader

6. Eppendorf vacuum concentrator

7. Pippin Prep

8. Quantstudio 7 (96- and 384-well plates)

For information on our services and prices email us at: BRC.Genomics@gstt.nhs.uk

Team Members

Head of Genomics Research Platform and Single Cell Laboratory : Dr. Pawan Dhami

Email: pawan.dhami@kcl.ac.uk

Phone: +44 2071887997

Senior Genomics Bioinformatician : Mr. Athul Menon Kallayil

Email: athul.menon@kcl.ac.uk

Phone: +44 2071883707

Technical Manager: Ms. Kathy Fung

Email: kathy.fung@kcl.ac.uk

Senior Genomics Technician: Mrs. Michelle Kleeman

Email: michelle.kleeman@kcl.ac.uk

Senior Genomics Technician: Vacant

Email:

Senior Genomics Technician: Mr. Carlos Jimenez Verdejo

Email: carlos.jimenez@kcl.ac.uk

Senior Genomics Technician: Ms. Iffat Rahman

Email: Iffat.2.rahman@kcl.ac.uk

Administrative Assistant: Ms. Hollie Bolt

Email: Hollie.Bolt@gstt.nhs.uk

Genomics Core email: BRC.Genomics@gstt.nhs.uk

Location and hours of operation

Hours

Location

Staff assistance: Mon to Fri, 9am to 5pm

Access: Mon to Fri, 8am to 6pm

The Genomics Research Platform Laboratory Guy's and St Thomas' NHS Foundation Trust

is located within the Advanced Therapies Centre, 10th Floor, Tower Wing, Guy's Hospital

London SE1 9RT

Links and Resources

Click here for other state of the art services accessible on a fee for service basis

Contacts

Name	Role	Phone	Email	Location
Mr. Athul Menon	Senior Genomics Bioinformatician	020 7188 3707 (office)	athul.menon@kcl.ac.uk	10th Floor, Tower Wing, Guy's Hospital
Ms. Hollie Bolt	Administrative Assistant	020 7188 3707 (office)	Hollie.Bolt@gstt.nhs.uk	10th Floor, Tower Wing, Guy's Hospital
Mrs. Michelle Kleeman	Senior Genomics Technician	020 718 87995 (Lab) or 020 7188 3707 (office)	michelle.kleeman@kcl.ac.uk	10th Floor, Tower Wing, Guy's Hospital
Dr. Pawan Dhami	Head of Genomics Research Platform and Single Cell Laboratory	020 71887997 (Office)	pawan.dhami@kcl.ac.uk	10th Floor, Tower Wing, Guy's Hospital
Ms. Kathy Fung	Senior Genomics Technician	020 7188 3707 (office)	kathy.fung@kcl.ac.uk	10th Floor, Tower Wing, Guy's Hospital
Mr. Carlos Jimenez Verdejo	Senior Genomics Technician	020 7188 3707 (office)	carlos.jimenez@kcl.ac.uk	10th Floor, Tower Wing, Guy's Hospital
Ms. Iffat Rahman	Senior Genomics Technician	020 7188 3707 (office)	iffat.2.rahman@kcl.ac.uk	10th Floor, Tower Wing, Guy's Hospital