Biomarker changes associated with the development of...
Transcript of Biomarker changes associated with the development of...
BiopsyBiospecimen
HistopathologicDiagnosis
morphology
cell type
Immunohisto-chemistry
FISH
differentiation
mitotic activity
tumor grade
Prognostic and Predictive Markers
Estrogen Receptor
ProgesteroneReceptor
HER2/neu
Ki-67
Perou et al., Nature 2000. PMID: 10963602Sorlie et al., Proc Natl Acad Sci 2001. PMID: 11553815
Parker et al., J Clin Oncol 2009. PMID: 19204204
PAM50: qRT-PCR assay for 50 genes to assign intrinsic subtypes using FFPE samples
Rosen’s Breast Pathology, 4th ed. Chapter 45.IHC: Immunohistochemistry
Tang et al., Arch Pathol Lab med 2016. PMID: 27472239IHC: Immunohistochemistry
Polley MYet al., JNCI 2013. PMID: 24203987 Elmore JG et al., JAMA 2015. PMID: 25781441
HistopathologicDiagnosis
morphology
cell type
Immunohisto-chemistry
FISH
differentiation
mitotic activity
tumor grade
Diagnostic BiopsyBiospecimen
Prognostic and Predictive Markers
Estrogen Receptor
ProgesteroneReceptor
HER2/neu
Ki-67
Molecular Analyses
Microarray / qRT-PCR
WGS / WES
RNA-sequencing
Next-Generation Sequencing (NGS) allows us to detect all classes of genomic alterations
Siimon R et al. Nature Reviews Drug Discovery. 2013. PMID: 23629504
TCGA., Nature 2012. PMID: 23000897
Burrell RA et al., Nature 2013. PMID: 24048066Burrell RA et al., Nature 2013. PMID: 24048066
Chung et al. In Revision
Carter et al., Nature Biotechnology 2012.
Roth et al., Nature Methods 2014.
Jiao et al., BMC Bioinformatics 2014.
Gerlinger et al., N Eng J Med 2012.Zhang et al., Science 2014.Bruin et al., Science 2014.
low throughput
low sensitivity
Navin NE, Genome Res. 2015. PMID: 26430160Wang Y & Navin NE, Molecular Cell 2015. PMID 26000845
Navin NE., Genome Res. 2015. PMID: 26430160
Tissue
single-cell RNA-seq
ISHlandmark gene expression
reference database
Combined analysis
Spatial Resolution
Tissue
Single-cell or regionalGenomic Analysis
HistopathologicEvaluation
HistopathologicDiagnosis
morphology
cell type
Immunohisto-chemistry
FISH
differentiation
mitotic activity
tumor grade
Diagnostic BiopsyBiospecimen
Prognostic and Predictive Markers
Estrogen Receptor
ProgesteroneReceptor
HER2/neu
Ki-67
Molecular Analyses
Microarray / qRT-PCR
WGS / WES
RNA-sequencing
Single-cell or target regionsequencing
Wang Y & Navin NE, Molecular Cell 2015. PMID 26000845
Kim SS, Kwon SH, Han W, Lee HB. In submission.
breast cancer
leukemia
isolation of single cell from
immunofluorescent cells
s = subclonal frequency, n = number of single cells
SNU Lab of Breast Cancer Biology (LBCB)Dong-Young NohWonshik HanHyeong-Gon MoonMinju Lee
SNU Biophonics and Nano Engineering LabSunghoon KwonSung-Sik KimChungwon Lee
Celemics Inc.