GENE PANELS
SOLID TUMORS AND HAEMATOLOGICAL TUMORS (STHT)
DETAILS
CERTIFICATES
141-MED (UZ Brussel)
INSTRUMENTS
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
Genelist STHT
3
STHT subpanels overview
3.2
Verzendinstructies DNA stalen - NL
1
CONTACT
BRIGHTcore general inquires
+32 (0)2 477 64 79 (sec)
UZ Brussel
BRIGHTcore
Laarbeeklaan 101
1090 Brussels
SAMPLE TYPES
We aim to keep the list with sample types updated. However, if you believe we offer this gene panel on other sample types, or if you have a very specific sample type you'd like to evaluate : please contact the corresponding persons for either diagnostic or research purposes.
* 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.
Research portfolio
Blood > cfDNA/ctDNA
Streck Cell-Free DNA BCT
9 ml
Room temperature
Blood > DNA
EDTA tube
10 ml (min. 3 ml)
Room temperature
Cells of various tissue origins > DNA
Microtube* with cell pellet or on lysis buffer
> 5 million cells
Dry ice
DNA from various tissues > DNA
Microtube* or 96 well plate
See test details/specifications
Room temperature
FFPE block of various tissues > DNA
Paraffin block (in cassette)
Representative block ; Tumor load preferentially >10% ; To be processed by our pathology department (microtome section needed)
Room temperature
FFPE section of various tissues > DNA
Microtube*
Min. 1x 10 µm section (up to 2 mm³ tissue) ; Tumor load preferentially >10%
Room temperature
Plasma > cfDNA/ctDNA
DNA LoBind 5 ml tube
> 2ml
Dry ice
Tissue of various origins > DNA
Cryovial containing stabilizer (eg. AllProtect) or tissue homogenized on lysis buffer
Application/tissue specific (contact us)
Dry ice
Diagnostic portfolio
Blood > DNA
EDTA tube
10 ml (min. 3 ml)
Room temperature
DNA from various tissues > DNA
Microtube* or 96 well plate
See test details/specifications
Room temperature
FFPE block of various tissues > DNA
Paraffin block (in cassette)
Representative block ; Tumor load preferentially >10% ; To be processed by our pathology department (microtome section needed)
Room temperature
FFPE section of various tissues > DNA
Microtube*
Min. 1x 10 µm section (up to 2 mm³ tissue) ; Tumor load preferentially >10%
Room temperature
Tissue of various origins > DNA
Cryovial containing stabilizer (eg. AllProtect) or tissue homogenized on lysis buffer
Application/tissue specific (contact us)
Dry ice
Specific sample recommendations / requirements
No additional recommendation
Optimum : [Acceptable range (-)]
There are no specific recommendations in addition to those listed under the Sample Types
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 / Hematologist | 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) |
PLAN EXPERIMENT
GENELIST
ABL1
ABRAXAS1 (FAM175A)
ACD
ACVR1
ADA2
AIRE
AKT1
AKT2
AKT3
ALK
ANK2
ANKRD26
ANTXR1
ANTXR2
APC
AR
ARAF
ARID1A
ARID1B
ARID2
ARPC1B
ASXL1
ATM
ATR
ATRX
AURKA
AXIN1
B2M
BAP1
BARD1
BCL2
BCL6
BCL7A
BCOR
BLM
BMPR1A
BRAF
BRCA1
BRCA2
BRIP1
BTK
CALR
CARD11
CASP8
CASP10
CBL
CCM2 (MGC4607)
CCND1
CCND2
CCND3
CCNE1
CD27
CD28
CD58
CD79A
CD79B
CDC27
CDH1
CDK4
CDK6
CDK12
CDKN2A
CDKN2B
CDKN2C
CEBPA
CHEK1
CHEK2
CIC
CIITA
COL2A1
CRBN
CREBBP (CBP)
CRKL
CSF1R
CSF2RB
CSF3R
CSMD3
CTLA4
CTNNB1
CUL4B
CXCR4
CYLD
CYSLTR2
DAXX
DCC
DDR1
DDR2
DDX3X
DDX41
DELEC1 (DEC1)
DICER1
DIS3
DKC1
DLC1
DMD
DNMT3A
DOCK8
DPH3
DPYD
DUSP2
EED
EGFR
EGLN1
EGLN2
EGR1
EIF1AX
ENG
EP300
EPAS1 (HIF2A)
EPCAM
EPHA3
ERBB2
ERBB3
ERBB4
ERCC2
ERG
ESR1
ESR2
ETV6
EXT1
EXT2
EZH2
FANCA
FANCC
FANCD2
FANCE
FANCF
FANCG
FANCL
FAS
FASLG
FAT1
FAT3
FAU
FBXW7
FCGBP
FGF3
FGFR1
FGFR2
FGFR3
FGFR4
FH
FLCN
FLT3
FLT4
FOXL2
FOXO1
FUBP1
GAB2
GATA1
GATA2
GATA3
GFI1B
GLMN
GNA11
GNAQ
GNAS
H1-2 (HIST1H1C)
H1-4 (HIST1H1E)
H1-5 (HIST1H1B)
H3-3A (H3F3A)
H3-3B (H3F3B)
H3C2 (HIST1H3B)
H3C3 (HIST1H3C)
HRAS
HSPG2
HYDIN
ID3
IDH1
IDH2
IGF1R
IGLL5
IKZF1
IL4R
IL7R
IRF4
IRF8
JAK1
JAK2
JAK3
JUNB
KCNG1
KDM5A
KDM5C
KDM6A
KDM6B
KDR
KEAP1
KIF1B
KIT
KLF2
KLF4
KMT2A
KMT2C
KMT2D (MLL2)
KRAS
KRIT1
LATS1
LATS2
LEMD3
LRBA
LRP1B
LRRK2
LSAMP
LTB
LYST
LZTR1
MAP2K1
MAP2K2
MAP2K4
MAP3K8
MAPK1
MAPK3
MAX
MC1R
MCL1
MDH2
MDM2
MDM4
MED12
MEF2B
MEN1
MET
MITF
MLH1
MPL
MRE11 (MRE11A)
MSC
MSH2
MSH6
MTOR
MUTYH
MYB
MYC
MYCN
MYD88
MYH9
MYOD1
NBEAL2
NBN
NF1
NF2
NFKB1
NFKB2
NFKBIA
NFKBIE
NKX2-1
NOL9
NOTCH1
NOTCH2
NOTCH3
NPM1
NRAS
NSD2
NTRK1
NTRK2
NTRK3
NUTM1
PAK1
PALB2
PAX8
PBRM1
PDCD1
PDCD10
PDGFRA
PDGFRB
PHOX2B
PIK3CA
PIK3CB
PIK3CD
PIK3R1
PIM1
PLCB4
PLCG1
PLCG2
PMS1 (MLH2)
PMS2 (MLH4)
POLD1
POLE
POLR2A
POT1
PPM1D
PPP2R2A
PPP6C
PRDM1
PRF1
PRKAR1A
PRKD2
PTCH1
PTEN
PTPN11
PTPRD
RAB35
RAC1
RAD50
RAD51
RAD51B
RAD51C
RAD51D
RAD54L
RAF1 (CRAF)
RASAL1
RB1
RET (MEN2)
RHOA
RICTOR
RNF43
ROBO1
ROBO2
ROS1
RPS15
RUNX1
RYR1
SDHA
SDHAF2
SDHB
SDHC
SDHD
SETBP1
SETD2
SF3B1
SGK1
SLC25A11
SLC29A3
SLIT2
SMAD4 (MADH4)
SMARCA4
SMARCB1
SMO
SOCS1
SPEN
SPOP
SRC
SRSF2
STAG2
STARD9
STARD13
STAT1
STAT3
STAT5B
STAT6
STK11
SUFU
SUZ12
SYK
SYNE1
TBL1XR1
TCF3
TEK
TENT5C (FAM46C)
TERC
TERF2IP
TERT
TET2
TGFBR2
TMEM127
TNFAIP3
TNFRSF13B
TNFRSF14
TP53
TPMT
TRAF3
TRAF7
TRRAP
TSC1
TSC2
TSHR
U2AF1
UBR5
UGT1A1
USP13
VAV1
VHL
WAS (XLN/XLT)
WT1
WWOX
XPO1
XRCC2
YEATS2
ZRSR2