Inhoudstabel methoden in het biomedisch onderzoek 3
DNA
DNA sequentiebepaling
1ste generatie sequentiebepaling
Maxim en Gilber t
Sange r se quencing
2de generatie sequentiebepaling (= short read next generation sequencing)
454/Roc he
Illumina
AB I-SOLiD
Ion t or rent
3e generatie sequentiebepaling (= long read next generation sequencing)
Sing le m olec ule re al- ti me seque nc ing (= S MRT) bv Pac Bio
Nanopore seque nc ing
Epigenetica sequentiebepaling
Bisulfi e t c onve rsie
Knippen met r estr icti e e nzyme s die me thylati e her ke nnen
Me DIP- seque nc ing
SMRT/ nanopor e seque nc ing
Single cell sequentiebepaling
Targ ete d am plifi c ati on and seque nc ing
WGA = sing le cell whole ge nome amplifi cati on
PC R, MALB AC (= Multi ple anne aling and looping based Am plifi c ati on) e n MDA (= Multi ple Displace me nt
Am plifi c ati on)
DNA genotyperen
Short tandem repeat genotypering
Micr osat ellit es
Minisate llit es
X/Y m erker s
Taqman genotypering
Microarrays
Illumina
Aff yme trix
DNA hybridiseren
FISH (= Fluorescent In Situ Hybridization)
CGH (= Comparative Genomic Hybridization)
SNP micro-arrays toegepast op CNVs
RNA
RNA micro-arrays
Spott ed arr ays bv glass slide arr ays
High density olig onuc le oti de m ic roar rays
RNA sequencing (BULK)
Short-read RNA (cDNA) sequencing
Long-read cDNA en direct RNA sequencing
3 r d gener ati on se quencing
, Single Cell RNA sequencing
Dr ople t seque ncing (= Drop- se q) bv 10 X genom ic s
CITE-se q (= Cellular Inde xing of T ranscr iptome s and Epit opes by se quencing
Spatial transcriptomics
In Situ Hybridization
Seq-FISH (S eque nti al Sing le Molec ule FIS H = sm FISH)
MERF IS H (Multi ple x Err or Robust FIS H)
In Situ Sequencing (ISS)
In Situ Capturing
Eiwitten
Eiwit sequentiebepaling
Edman degradatie
Eiwit sequentiebepaling via massa spectrometrie
MALDI- TOF
MS /MS
Proteoomanalyse
BULK-analyse
Untargeted
Bott om-up
Top-down
Targeted
MS -base d
SOMAme r aptame r- base d protein arr ay
Differentiële proteomics
2D-DIGE
SIL AC
IC AT
ITRAC
Next generation proteomics
Sing le m olec ule fl uor esce nce gebasee rd op F RET
Sing le m olec ule fl uor esce nce gebasee rd op Edm an degr adati e
Nanopore seque nc ing base d on change s in curre nt
Nanopore seque nc ing base d on tr ansloc ati on of pr ot ein imm obiliz ed t o at om ic forc e micr oscope ti p
Single cell proteomics
Sing le ce ll Weste rns
Fluore sc ence fl ow- cytomet ry
CyTOF (m ass cytomet ry)
EL ISPOT/ siMOA/ MAC S Chip
Pr ox im it y exte nsion assay
Spatial proteomics
Micr odisse cti e
High c ontent micr oscopy and ite ritati ve AB ne odepositi on (MILAN)
Im ag ing Mass Cytomet ry
Barcode d anti body-based im ag ing
MS -Im ag ing
DNA
DNA sequentiebepaling
1ste generatie sequentiebepaling
Maxim en Gilber t
Sange r se quencing
2de generatie sequentiebepaling (= short read next generation sequencing)
454/Roc he
Illumina
AB I-SOLiD
Ion t or rent
3e generatie sequentiebepaling (= long read next generation sequencing)
Sing le m olec ule re al- ti me seque nc ing (= S MRT) bv Pac Bio
Nanopore seque nc ing
Epigenetica sequentiebepaling
Bisulfi e t c onve rsie
Knippen met r estr icti e e nzyme s die me thylati e her ke nnen
Me DIP- seque nc ing
SMRT/ nanopor e seque nc ing
Single cell sequentiebepaling
Targ ete d am plifi c ati on and seque nc ing
WGA = sing le cell whole ge nome amplifi cati on
PC R, MALB AC (= Multi ple anne aling and looping based Am plifi c ati on) e n MDA (= Multi ple Displace me nt
Am plifi c ati on)
DNA genotyperen
Short tandem repeat genotypering
Micr osat ellit es
Minisate llit es
X/Y m erker s
Taqman genotypering
Microarrays
Illumina
Aff yme trix
DNA hybridiseren
FISH (= Fluorescent In Situ Hybridization)
CGH (= Comparative Genomic Hybridization)
SNP micro-arrays toegepast op CNVs
RNA
RNA micro-arrays
Spott ed arr ays bv glass slide arr ays
High density olig onuc le oti de m ic roar rays
RNA sequencing (BULK)
Short-read RNA (cDNA) sequencing
Long-read cDNA en direct RNA sequencing
3 r d gener ati on se quencing
, Single Cell RNA sequencing
Dr ople t seque ncing (= Drop- se q) bv 10 X genom ic s
CITE-se q (= Cellular Inde xing of T ranscr iptome s and Epit opes by se quencing
Spatial transcriptomics
In Situ Hybridization
Seq-FISH (S eque nti al Sing le Molec ule FIS H = sm FISH)
MERF IS H (Multi ple x Err or Robust FIS H)
In Situ Sequencing (ISS)
In Situ Capturing
Eiwitten
Eiwit sequentiebepaling
Edman degradatie
Eiwit sequentiebepaling via massa spectrometrie
MALDI- TOF
MS /MS
Proteoomanalyse
BULK-analyse
Untargeted
Bott om-up
Top-down
Targeted
MS -base d
SOMAme r aptame r- base d protein arr ay
Differentiële proteomics
2D-DIGE
SIL AC
IC AT
ITRAC
Next generation proteomics
Sing le m olec ule fl uor esce nce gebasee rd op F RET
Sing le m olec ule fl uor esce nce gebasee rd op Edm an degr adati e
Nanopore seque nc ing base d on change s in curre nt
Nanopore seque nc ing base d on tr ansloc ati on of pr ot ein imm obiliz ed t o at om ic forc e micr oscope ti p
Single cell proteomics
Sing le ce ll Weste rns
Fluore sc ence fl ow- cytomet ry
CyTOF (m ass cytomet ry)
EL ISPOT/ siMOA/ MAC S Chip
Pr ox im it y exte nsion assay
Spatial proteomics
Micr odisse cti e
High c ontent micr oscopy and ite ritati ve AB ne odepositi on (MILAN)
Im ag ing Mass Cytomet ry
Barcode d anti body-based im ag ing
MS -Im ag ing
