Data Retrieval:

Database Description

Description of Library construction

Download Raw Data

EST Retrieval from Database (Not available)

Lettuce Genetic Map raw data and marker scores

Data Analysis:

Contig Assembly Viewer

Lettuce Genetic Map Viewer

Sequence Retrieval by Keywords (Not available)

Search Arabidopsis BLAST results
by At**** numbers

Sequence Manipulation Suite

DNA Sequence Translation in six frames

Software & Scripts:

Python Contig Viewer

Python BLAST info viewer

GenoPlayer

SNP/INDEL discovery pipeline
detailed description how to find SNP/INDEL candidates in EST CAP3 assembly

Codon Usage Pipeline

DNA Six Frame Translation (batch run)

GenBank Parser

BLAST Parser

Genetic Map 2D Plot (CheckMatrix)
powerful visualization tool to validate genetic maps

Table Manipulation/Transformation scripts

Graphical Data Presentations:

Conserved Ortholog Set (COS) Markers candidates (dataset derived by year 2002)

• Raw data: Lettuce - Sunflower - Tomato - Corn COS candidates (dataset derived by year 2002)

Conserved Ortholog Set (COS) Markers candidates [lettuce, sunflower, tomato, soybean, maize and rice] (dataset derived by year 2003)

• Raw data: Lettuce - Sunflower - Tomato - Soybean - Maize - Rice COS candidates (dataset derived by year 2003)

Graphical representation of BLAST search against Arabidopsis genome:

• nucleotide level (blastN):
  
  
  
• protein level (blastX):
  

Validation, Visualization, and Web Presentation of EST Collection

MS Excel templates for genetic mapping

Overview of Genetic Mapping Pipeline at CGPDB and future directions

Graphical Snapshots:

Contig Assembly Viewer

Lettuce Genetic Map Viewer

Access to raw map data and marker scores

Conserved Ortholog Set (COS) Markers candidates [lettuce, sunflower, tomato, soybean, maize and rice] (dataset derived by year 2003)

SNP/INDEL discovery pipeline

Genetic Map 2D Plot (CheckMatrix)