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Complementary Analyses

CTG works closely with the Center of Molecular Diagnostics (CMD) at the Division of Laboratory Medicine, Region Skåne, to facilitate clinical implementation of new diagnostic assays within healthcare. Therefore these analyses are also available.

Assay

Content

Sample
requirements

Library and sequencing
technology

Comment

Web page

Myeloid panel

15 full genes + 39 hotspots

50 ng DNA of
high quality
(FFPE not ok).

Amplicon sequencing on
 Illumina.

Sequencing of tumor and normal is recommended but not mandatory.

Illumina: Trusight-myeloid

Lymphoid panel

44 genes (not all exons), 58 kb in total.

50 ng DNA.
FFPE ok.

Amplicon sequencing on
Illumina.

 

NA

Solid cancer panel (Oncomine Focus)

35 genes for hotspot mutations, 18 genes for CNV and 23 fusion genes

>10 ng of DNA
(FFPE OK) and >10 ng of RNA.

Amplicon sequencing on
 ThermoFisher.

RNA is only used for fusion gene detection and can be omitted. Oncomine Comprehensive is available (similar but more comprehensive content).

Thermofisher:Oncomine-focus-assay

Whole Exome
sequencing

67 Mb covering all coding parts of the human genome as well as selected non-coding regions.

50 ng (FFPE OK).

Agilent Clinical Research Exome
v2 and Illumina. Typically >25M 2x150 bp reads for an average coverage of >100X.

Sequencing depth can be tailored based on research question (eg. Deeper sequencing to detect low frequency variants in tumours).

Agilent: Brochure

16S Sequencing

Microbiome sequencing of the V3-V4 region in 16s

Microbial
Genomic DNA
(>5 ng/µl in 10
mM Tris pH 8.5)

Amplicon sequencing on
Illumina.

  

Whole genome
sequence of
bacteria

Minimum 40x coverage

Microbial Genomic DNA
of good quality
 (>1 ng/µl)

Illumina sequencing
using Nextera XT library preparation

Genomes with a very high GC% is harder to sequence and might infer some extra cost

Illumina: Nextera-xt-dna

 

 

Page Manager:

Contact CTG:  

   Phone: +46706855137 
   E-mail: CTGservice [at] med [dot] lu [dot] se

Visiting Addresses:

   Medicon Village 404:B3                                BMC - Biomedical Centre
   Scheelevägen 2                                             Sölvegatan 23 B
         SE-223 81 Lund                                             SE - 221 85 Lund

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