This page summarizes the methods and data available from the Comai lab
TILLING and High throughput sequencing
- Illumina library construction with amplicons, or any input DNA
- Bioinformatics pipeline for mutation discovery
Custom barcoding for Illumina and Illumina barcoded reads pipeline
- Barcoded Data Preparation Tools
- Custom barcoded Illumina adapters
Genotyping and Mutation Discovery
- a Genotyping by Sequencing method
- BWA-DoAll, a package for batch library processing and alignment
- Tools for Mpileup generation and parsing
- MAPS: a Mutation Detection and Genotyping tool
Exome capture: genotyping and mutation discovery
Discover CNV in genome (a Matt Porter and Korf lab collaboration)
Heterosis
Polyploidy
- RIL map of the Col-0 x Warschau population
- Arabidopsis arenosa genomic information
- Karyotypes of trisomic and translocated trisomic. [1] Dataset
- Bin-by-sam, a karyotyping tool
- Detailed run directions and examples can be found here.
Functional genomics of plant polyploids: NSF DBI 0733857
- ABC data page
Protein Family Data Files
REVOLUTA legacy data
Funding
This page and the connected tools are funded by:
- NSF Plant Genome grant DBI-0733857 (Functional Genomics of Polyploids)
- NSF Plant Genome grant DBI-0924025. Heterosis Challenge Grant (HCG):The Regulatory Disruption Hypothesis for Heterosis
- NSF Plant Genome grant DBI-0822383 (“TILLING by Sequencing”)
- National Institutes of Health R01 GM076103-01A1 (Dosage dependent regulation in hybridization) to LC.