DNA Microarray Image Analysis - University of Illinois at Urbana ...
DNA Microarray Image Analysis - University of Illinois at Urbana ... DNA Microarray Image Analysis - University of Illinois at Urbana ...
Normalization • Normalization using control spots — insert spots of known intensities or genes of known expression level into a microarray slide • Normalization using regression analyses — within-slide normalization (location or scale), – (a) location global normalization (log(red/green) – normalization factor) – (b) location intensity dependent normalization (log(red/green) – normalization factor as a function of spot intensity), – (c) location within-print-tip-group normalization (log(red/green) – grid dependent normalization factor as a function of spot intensity) and – (d) scale normalization (modeling spread of various print-tip groups) — paired-slide normalization (dye-swap), — multiple slide normalization 82
83 MICROARRAY DATA FUSION, ANALYSIS AND VISUALIZATION
- Page 31 and 32: 31 Microarray Grid Alignment: Previ
- Page 33 and 34: Microarray Grid Alignment: Previous
- Page 35 and 36: 35 Grid Alignment Algorithm Overvie
- Page 37 and 38: Image Down-Sampling • Design of r
- Page 39 and 40: Vertical and Horizontal Line Score
- Page 41 and 42: Optional Regularity Enforcement •
- Page 43 and 44: Processing Multiple Grids Line Disc
- Page 45 and 46: Spot Size & Spot Density 45 •Radi
- Page 47 and 48: Missing Spots The fewer the spots i
- Page 49 and 50: Down-sampling •Experimental resul
- Page 51 and 52: Grid Alignment Properties Color Inv
- Page 53 and 54: Multiple Grids: Semi-Automated vs.
- Page 55 and 56: 55 MICROARRAY FOREGROUND SEPARATION
- Page 57 and 58: Foreground Separation Using Spatial
- Page 59 and 60: Foreground Separation Using Intensi
- Page 61 and 62: Foreground Separation From Multi-Ch
- Page 63 and 64: Step 1: Separating Spots from Backg
- Page 65 and 66: Goals and Objectives of Quality Ass
- Page 67 and 68: Quality Assessment: Spot Examples
- Page 69 and 70: Criteria for Assessing Morphologica
- Page 71 and 72: I2K Selecting Valid Pixels - SNR Me
- Page 73 and 74: I2K Selecting Valid Pixels - Topolo
- Page 75 and 76: 75 MICROARRAY DATA QUANTIFICATION A
- Page 77 and 78: Spot Descriptors • Volume of fore
- Page 79 and 80: Visualization of Spot Descriptors S
- Page 81: Normalization • Normalization usi
- Page 85 and 86: Visualization • Data: 3D cubes,di
- Page 87 and 88: Web-Based Documentation 87 http://a
83<br />
MICROARRAY DATA FUSION,<br />
ANALYSIS AND<br />
VISUALIZATION
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