Course Content
Introduction to Microarray Analysis & R
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Introduction to ArrayExpress – Getting Started With MicroArray Analysis
09:56
Introduction to BioConductor – Installating MicroArray Packages
05:06
Getting Started with R Studio Project for MicroArray Analysis
04:51
Downloading MicroArray Raw Data from ArrayExpress
04:19
Creating Raw Intensities MicroArray Data Structure and Log2 Transformation
14:41
Quality Control & Normalization
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Principle Component Analysis of Raw Expression Dataset
15:44
Box Plot Visualization of Raw Intesnity Data to Interpret the Median Intensities of the Samples
03:11
ArrayQualityMetrics – Automated Quality Control for Microarray Datasets
05:38
Robust Multi-Array Summarization and Background Correction of the Raw MicroArray Data
03:47
Relative Log Expression Analysis and Visualization
08:57
Normalization of Raw Intesnities Values
04:36
Heatmap Visualization of the Normalized Gene Expression Values
11:52
Intensity-based Filtration of Low-Intensity Transcripts
06:19
Filtering out the Genes that are Above Threshold
06:02
Annotating the Probe IDs with Gene Symbols and Names
04:19
Removal of the Probe IDs that Match to Multiple Genes
04:04
Excluding Probe IDs with Multiple Mappings from the ExpressionSet
04:39
Differential Expression Analysis
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LIMMA – Data Preparation for Linear Modelling
11:49
Factors Prepartion
10:26
Analysis of Gene Expression Levels of a Single Gene Among Different Conditions
11:60
Applying t-test to Find if Genes are Differentially Expression
06:51
LIMMA – Applying Linear Model on a Single Gene Expression Data
05:34
LIMMA – Applying Linear Model for Differential Gene Expression Analysis
11:38
Extraction of Differentially Expressed Genes from the Fitted Linear Model
03:35
Setting a Threshold for Differentially Expressed Genes
04:17
Volcano Plot – Visualization of the Genes that are Differentially Expressed
04:36
Downstream Functional Enrichment Analysis Using enrichR – Gene Ontology & KEGG Pathways Analysis
08:44
MicroArray Analysis
Exercise Files
Types of Microarrays.pdf
Size: 379.89 KB
How is Illumina BeadChip different from Affymetrix and Agilent.pdf
Size: 284.85 KB
Introduction to ArrayExpress – Getting Started With MicroArray Analysis.pptx
Size: 5.07 MB
Introduction to ArrayExpress – Getting Started With MicroArray Analysis.pdf
Size: 103.17 KB
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