Help : Help Index

FAQ: Frequently Asked Questions

Search Help: Search the help pages for the database

A Microarray Database Introduction

• Database Accounts and Access
• Registration
• Navigating SMD web-site
• Working with files in UNIX
• Data File Formats
• Scheduled Downtime
• Office Hours
• Help with Publication
• Table Specifications

Entering Data

• Experiment Entry
  • Individual Experiment Entry
  • Batch Experiment Entry
• Experiment Deletion
• Normalization
  • Normalization based on a Genelist
• Replacing the image of an array

Organizing Your Data

• Creating and Using Arraylists and Result Set Lists
• Creating and Using Experiment Sets
• Creating and Using Genelists
• Entering and Using Protocols
• Annotating Experiments
• Entering Procedural Annotation

Searches

• Using the Basic Search
• Using the Advanced Results Search
• Search Using Gene Names

Data Retrieval and Analysis

• Data Selection for Analysis
• Data Analysis and Clustering
• The Repository
• Data Analysis Using SVD
• GO::TermFinder
• Compare Two Experiments
• Data Analysis Methods
• Data File Formats
• Job Queue and the Job Manager
• Q-score calculation
• MEEBO/HEEBO quality plots
• Synthetic Genes
• SMD Tools
• SMD Web Services
• Ontology Web Services

Tutorials:

• Data Analysis Tutorial
  • Download Powerpoint File
  • Watch Streaming Video
• An Introduction to the Database
  • Download Powerpoint File
  • Watch Streaming Video
• Repository tools
  • Download Powerpoint File
• Publishing data from SMD
  • Download Powerpoint File
• Using H/Meebo arrays in SMD
  • Download Powerpoint File

Glossary: Definitions for frequently used terms

Table Specifications: Schema of the microarray database

Please send comments or questions to: array@genome.stanford.edu