GENE PANELS

STHT - LYMFOID

DETAILS

 
Version :
Status :
Size :
Website :
3.1
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139 genes
Extra info :
Method :

Capture based panel, using the Roche KAPA HyperPlus kit and KAPA HyperChoice probes

CERTIFICATES

 
141-MED (UZ Brussel)
141-MED (UZ Brussel)

INSTRUMENTS

 
Illumina NovaSeq 6000
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).

DOWNLOADS

 
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Genelist STHT lymfoid

3.1

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STHT subpanels overview

3.1

CONTACT

 
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Secretariaat Medische Genetica

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

UZ Brussel

Centrum Medische Genetica

Laarbeeklaan 101

1090 Brussels

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Freya Vaeyens

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

UZ Brussel

Centrum Medische Genetica

Laarbeeklaan 101

1090 Brussels

SAMPLE TYPES

 

We aim to keep te list with sample types updated. However, if you believe we offer this gene panel 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.

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Tissue
Recipient
Quantity
Transport
Purpose / Extract
Blood
EDTA tube
10 ml (min. 3 ml)
Room temperature
DNA
DNA from various tissues
Microtube*
See test details/specifications
Room temperature
DNA
DNA from various tissues
Microtube* or 96 well plate
See test details/specifications
Room temperature
DNA
FFPE block of various tissues
Paraffin block (in cassette)
Representative block ; Tumor load preferentially >10% ; To be processed by our pathology department (microtome section needed)
Room temperature
DNA
FFPE section of various tissues
Microtube*
Min. 1x 10 µm section (up to 2 mm³ tissue) ; Tumor load preferentially >10%
Room temperature
DNA
Tissue of various origins
Cryovial containing stabilizer (eg. AllProtect) or tissue homogenized on lysis buffer
Application/tissue specific (contact us)
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

 

Which data files can be retrieved from us for this specific gene panel?

Deliverable
Description
Research or diagnostic
Called variants - vcf file
Text file containing all detected variants as compared to the relevant reference genome
Diagnostic / RUO
Clinical report
Diagnostic report generated by Clinical Geneticist/ Pathologist
Diagnostic
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)
Run folder
The complete run folder can be transferred if it concerns a run reservation (private run)
RUO (on request)
 

GENELIST

ABL1
ADA2
AIRE
ANK2
ARID1A
ARID1B
ARID2
ARPC1B
ATM
B2M
BCL2
BCL6
BCL7A
BTK
CARD11
CASP8
CASP10
CCND1
CCND2
CCND3
CD27
CD28
CD58
CD79A
CD79B
CDC27
CDK12
CDKN2A
CDKN2B
CDKN2C
CEBPA
CHEK1
CHEK2
CIITA
CREBBP (CBP)
CSF2RB
CSMD3
CTLA4
CXCR4
DDX3X
DICER1
DIS3
DNMT3A
DOCK8
DUSP2
EP300
EZH2
FANCL
FAS
FASLG
FAT3
FBXW7
FCGBP
FGFR1
FGFR2
FGFR3
FOXL2
H1-4 (HIST1H1E)
H3C2 (HIST1H3B)
H3C3 (HIST1H3C)
HRAS
HSPG2
HYDIN
ID3
IDH1
IDH2
IGLL5
IKZF1
IL4R
IRF4
IRF8
JAK2
JAK3
JUNB
KDM6B
KLF2
KMT2C
KMT2D (MLL2)
KRAS
LRBA
LRP1B
LTB
LZTR1
MAP2K2
MEF2B
MSC
MYC
MYD88
NFKB1
NFKB2
NFKBIA
NFKBIE
NOL9
NOTCH1
NOTCH2
NRAS
NSD2
NUTM1
PBRM1
PDCD1
PDGFRA
PIK3CD
PIK3R1
PIM1
PLCG1
PLCG2
PRDM1
PRF1
PRKAR1A
PTPRD
RET (MEN2)
RNF43
RPS15
RYR1
SF3B1
SGK1
SMARCA4
SOCS1
STARD9
STAT1
STAT3
STAT5B
STAT6
SYNE1
TBL1XR1
TCF3
TERC
TERT
TET2
TNFAIP3
TNFRSF13B
TNFRSF14
TP53
TPMT
TRAF3
TRRAP
UBR5
VAV1
XPO1