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Single-Cell and Spatial Genomics Platform

Established in 2019, CTG offers a dynamic, state-of-the-art platform for single-cell sequencing to users. The aim is to provide expertise, accessibility, proximity and service to researchers in need of single-cell genomics.

General guidelines

Consultations and Service Projects, as well as a Booking Schedule are available in iLab (see “How to start a project”)

Gentle sample isolation is essential to prevent bias against vulnerable cell types while fast isolation is desirable to reduce degradation of nucleic acids.

Thus, prior to initiating a project at the Single-Cell Genomics Platform, users are asked to thoroughly evaluate a cell or nucleus isolation strategy suitable for their target tissue and research question. Users are also strongly encouraged to evaluate their sample quality (e.g. RNA integrity) prior to submitting single-cell genomics work at the facility.

Once a project is accepted by the Single-Cell Genomics Platform, users must follow sample preparation and delivery instructions provided by the platform.

Available services

scTranscriptomics

  • Single-cell Gene Expression (3´GEX) library preparation (10x Genomics, v3.1, scmRNAseq)
    • CITE-Seq
    • Hashing
    • CRISPR Screen
  • Single-cell Immune Profiling library preparation (10x Genomics, v2, scVDJ)
    • Full-length TCR/BCR sequences
    • Feature Barcode
  • Single-cell Multiome ATAC + Gene Expression (10x Genomics, scMultiome)

scTranscriptomics (fixed cells/nuclei)

  • Single-cell Gene Expression Flex Profiling (10x Genomics, v.1, Flex, custom probe design)
    • Cell Surface Protein
  • Evercode™ WT (Parse Bioscience, Parse)

scEpigenomics

  • Single-cell ATAC-seq library preparation (10x Genomics, v2,  scATAC)
  • Single-cell Multiome ATAC + Gene Expression (10x Genomics, scMultiome

Cell isolation

  • High precision cell isolation of sparse biological samples using CellenOne F1.4.

Spatial transcriptomics

Equipment

  • 10x Genomics Chromium Controller
  • 10x Genomics Chromium X
  • 10x Genomics Visium CytAssist
  • Scienion CellenOne F1.4  
  • Nexcelom Cellaca Mx
  • Illumina Sequencer NovaSeq 6000, NextSeq 2000, NovaSeq X Plus

Applications under development

  • Single-cell proteomics using the proteochip on the CellenOne F1.4.
  • Customization of existing 10x Genomics applications (e.g. DogmaSeq, viral barcode capturing, integration with long-read technology using Oxford Nanopore).

If you are interested in collaborating with us for our protocols under development, or if you have a suggestion for the implementation or development of a novel method, please contact Julia Bräunig (singlecell [dot] ctgservice [at] med [dot] lu [dot] se (singlecell[dot]ctgservice[at]med[dot]lu[dot]se)).

 

Requests for service/consults:

Link to iLab

Contact Information

E-Mail

ctg_service [at] med [dot] lu [dot] se

singlecell [dot] ctgservice [at] med [dot] lu [dot] se

Phone

+46 73 075 3563

+46 73 096 8048

Address

BMC - Biomedical Centre D14

Klinikgatan 32

221 85 Lund