GENE PANELS

STHT - BRAIN PANEL

DETAILS

 
Version :
Status :
Size :
Website :
3.1
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178 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 brain

3.1

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STHT subpanels overview

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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
ACVR1
AKT1
AKT2
AKT3
ALK
APC
AR
ARAF
ARID1A
ARID2
ATM
ATRX
AURKA
BAP1
BRAF
BRCA1
BRCA2
BRIP1
BTK
CCM2 (MGC4607)
CCND1
CCND2
CCND3
CCNE1
CDH1
CDK4
CDK6
CDKN2A
CDKN2B
CHEK2
CIC
CRBN
CREBBP (CBP)
CRKL
CSF1R
CTNNB1
DAXX
DDR2
DNMT3A
EGFR
EGR1
EP300
EPHA3
ERBB2
ERBB3
ERBB4
ERCC2
ERG
ESR1
ESR2
EZH2
FBXW7
FGF3
FGFR1
FGFR2
FGFR3
FGFR4
FLT3
FOXO1
FUBP1
GATA3
GNA11
GNAQ
GNAS
H1-2 (HIST1H1C)
H1-5 (HIST1H1B)
H3-3A (H3F3A)
H3-3B (H3F3B)
HRAS
IDH1
IDH2
IGF1R
IL7R
JAK1
JAK2
JAK3
KCNG1
KDM5A
KDM5C
KDM6A
KDR
KIT
KLF4
KMT2C
KRAS
KRIT1
LRRK2
LTB
MAP2K1
MAP2K2
MAP2K4
MAPK1
MAPK3
MAX
MCL1
MDM2
MDM4
MED12
MEN1
MET
MITF
MLH1
MRE11 (MRE11A)
MSH2
MSH6
MTOR
MYC
MYCN
NBN
NF1
NF2
NKX2-1
NOTCH1
NOTCH2
NOTCH3
NRAS
NTRK1
NTRK2
NTRK3
NUTM1
PAK1
PALB2
PBRM1
PDCD10
PDGFRA
PHOX2B
PIK3CA
PIK3CB
PIK3R1
PMS1 (MLH2)
PMS2 (MLH4)
POLD1
POLE
POLR2A
PTCH1
PTEN
PTPN11
RAB35
RAC1
RAD50
RAD51
RAD51B
RAD51C
RAD51D
RAF1 (CRAF)
RB1
RET (MEN2)
RHOA
RNF43
ROBO1
ROBO2
SETD2
SF3B1
SLIT2
SMAD4 (MADH4)
SMARCA4
SMO
SPOP
SRC
STAG2
STK11
SUFU
SUZ12
SYK
TERT
TET2
TGFBR2
TP53
TRAF7
TSC1
TSC2
TSHR
U2AF1
USP13
VHL
WT1
XRCC2