enrichment analysis using david

Enrichment analysis using DAVID

By NFU Biology Algorithm lab

Outline

• What is DAVID• DAVID Tools• Tools Demo–Functional Annotation–Gene Functional Classification–Gene ID Conversion

What is DAVID

• DAVID is a Bioinformatics Database, and it is also provides many tools to analysis the gene data.

DAVID Tools

DAVID Tools provides many function about1. Functional Annotation2. Gene Function Classification3. Gene ID Conversion4. Gene Name Batch Viewer5. NIAID Pathogen Annotation

Tools Demo

• Functional Annotation– Step1:Upload the Gene

list for DAVID from Start Analysis

Tools Demo

– Step2&3: Upload and select list type

• Upload list or file to DAVID

• Select Identifier and Gene List

Tools Demo

Tools Demo

The gene list number from users upload

Upload list file name

Choice what kind tools you want(ex: Functional Annotation Tool)

View and select annotation categories of your interests.下一頁有建議選擇

建議三種都下載儲存

Individual view report:Percentage (involved genes/total genes)Gene from your list Single Chart Report for ONLY this annotation category

Tools DemoAnnotation Summary Results

Tools DemoAnnotation Summary Results

• 建議如下：SelectGene-ontology (BP_1)pathways (5)

Tools DemoFunctional Annotation Clustering

Clustering options and stringency

The overall enrichment score for the group based on the EASE score of each term members. The higher, the more enriched.

Tools DemoFunctional Annotation Chart

Minimum number of genes for the corresponding term.

Maximum EASE Score/P-value

Original database/resource where the terms orient

Enriched terms associated with your gene list

Related term search

Modified Fisher Exact P-value, EASE Score. The smaller, the more enriched.

Tools DemoFunctional Annotation Table

Gene Name Annotation terms

Tools DemoGene Functional Classification Result

點選 進入 Gene Functional classification

Tools DemoGene Functional Classification Result

Group options and stringency

The higher, the more enriched.Group number

Tools DemoGene ID Conversion

點選 進入 Gene ID Conversion

Tools DemoGene ID Conversion

選擇想要轉換項目

Tools DemoGene ID Conversion使用者上傳的內容

轉換結果

PRODUCER BY NATIONAL FORMOSA UNIVERSITY BIOLOGY ALGORITHM LAB AT 2012/12

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