A cell and its population of genes :. DNA forms double strands by a process called hybridization:

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Presentation transcript:

A cell and its population of genes :

DNA forms double strands by a process called hybridization:

Labeling

Hybridization

m109 oligo placenta complex

2 color fluoresent dye labeled mRNA

Affymetrix oligonucleotide arrays

Illumina bead arrays

Illumina flyer

SNP detection (slide from NCBI,

RNA-seq From: RNA-Seq: a revolutionary tool for transcriptomics Zhong Wang, Mark Gerstein & Michael Snyder Nature Reviews Genetics 10, 57-63

Estimation of gene expression from RNA-seq: RPKM values Number of reads which map per kilobase of exon per million mapped reads for each gene

Theoretical Bioinformatics Dr. Benedikt Brors

Two samples from the same kidney carcinoma

Cancer – normal comparison

Cancer-normal comparison: significance?

MA-plot: Minus vs. Average (Wikipedia)

Questions Differential genes between two conditions (e.g., healthy/diseased) Coexpressed genes: pathways, coregulation Genes characteristic for particular conditions (e.g., tumor staging)