SINGLE-CELL APPLICATIONS

ABOUT

 

When interested in cell-to-cell variation or spatial differences in expression patterns, the input quantities (or quality) drive the applications you may or may not apply.

We currently have the following applications in our portfolio :

We are setting up a single-cell omics core facility, with Prof. Dr. Kiavash Movahedi of the LMCT (Laboratory for Molecular & Cellular Therapy of the VUB) as technical/scientific director.

METHODOLOGY

 

These pages are currently under development.

Application-specific pages will appear in due time, but in the meantime do not hesitate to contact us in case of any questions.

More information on the the sequencing part (following the processing of the single cells) can be retrieved here :

 

INSTRUMENTS

The following devices are used for single-cell sequencing in our premises.

10x Genomics Controller

Microdroplet generator to partition single cells and to barcode RNA/DNA using the 10x Genomics Next GEM technology.

Illumina NovaSeq 6000

Our highest capacity short read sequencer. This device can generate reads up to 250 bp in length (on the SP flowcell) and generate up to 10B reads per flowcell (S4).

 

CERTIFICATES

Under validation
Under validation

DOWNLOADS

 

CONTACTS

 
pas14klein.jpg

BRIGHTcore general inquires

+32 (0)2 477 64 79 (sec)

UZ Brussel

BRIGHTcore

Laarbeeklaan 101

1090 Brussels

SAMPLE TYPES

 

We aim to keep te list with sample types updated. However, if you believe we offer this test on other sample types, of if you have a very specific sample type you'd like to evaluate : please contact the corresponding persons for either diagnostic or research purposes.

arrow&v
Tissue
Recipient
Quantity
Transport
Purpose / Extract
Cells of various tissue origins
Microtube* with cells on lysis buffer
> 5 million cells
Dry ice
RNA
Cells of various tissue origins
Microtube* with cell pellet or on lysis buffer
> 5 million cells
Dry ice
DNA

* Microtube can be  a either a cryovial or eppendorf tube (0,5 ; 1,5 or 2 ml). Please consider the quality of the tube used (nuclease free ; free of RNA/DNA ; sterile ; LoBind) according to application needed.  

 

DELIVERABLES

Below, you can find the type of data files that can be retrieved for this test.

If you require more information or need a more custom output, please consult our Bioinformatics page.

Deliverable
Description
Research or diagnostic
Run folder
The complete run folder can be transferred if it concerns a run reservation (private run)
RUO (on request)
Raw data - fast5 file
Raw data file generated by Oxford NanoPore sequencers
RUO (on request)
Raw data - bam file
Binary data file containing the aligned reads
RUO (on request)
Raw data - fastq file
Data file containing the raw (unaligned) reads
RUO (on request)
 

PLAN EXPERIMENT

Please get clearance from your local ethical committee and/or register your samples with a biobank

To set experiments up with us, please follow the steps below.

Get in touch

Explain your project, so we can assist you to find the best solution.

Expect questions like :

  1. What type of sample would you like to analyze?

  2. Will you handle the RNA extraction (please know : BRIGHTcore doesn't handle human pathogens)?

  3. In which elution buffer did you elute your RNA (we prefer nuclease free water)?

  4. How many samples would you like to process?

  5. How fast do you need the results (TAT) and/or do we need to expedite?

  6. If you deviate from our sample types, are there test samples available?

  7. Do you require bioinformatics support or are our standard deliverables ok?

  8. ...

Call Center Headset

1

Request quotation

Once you know which experiment you want to set up, fill out the 'Quote request' form, with the essential details of your project :

  1. Coordinates of the person to whom to address the quotation

  2. Which type of test you'd like to set up

  3. Do you require bioinformatics support?

  4. Do we need to expedite (comes at extra cost)?

  5. ...

Image by Andre Taissin

2

Submit your samples

Once you agree with our terms (quote / TAT / terms & conditions)  :

  1. Fill out our sample submission form

    1. Send it via email : contact us

    2. Print out the form and include it with your samples 

  2. Send your samples to us

    1. Adhere to the corresponding transport conditions listed under Sample types

    2. Label your tubes/plates correctly : see details here

    3. Please attach the 'verzendinstructies' (see downloads) on the shipping container (for RNA)

  3. Indicate if we can discard your samples​ after completion of project

Blood Samples

3

Your experiment starts

Now it is up to us... We will start your experiment as soon as possible. When expedited, we will start the experiment within 1 week​.​ For standard requests the turn-around-time (TAT) varies :

  1. In diagnostics :  5 workdays

  2. In research : 4 weeks (or otherwise agreed)

The research TAT is generally overestimated, but this extended timeframe allows us to : combine similar requests of multiple scientists and to repeat the experiment in case of issues. 

Please refrain from contacting us in case the pre-agreed TAT didn't expire yet.

Alarm Clock

4