
Dassanayake Lab
COMPARATIVE
FUNCTIONAL
EVOLUTIONARY
GENOMICS
Data and tools generated in our group
Genome Assembly and Annotation
Schrenkiella parvula Version 2.0 (Apr. 2014) (formerly Thellungiella parvula or Eutrema parvula)
Genome assembly: Genome sequence (fasta)
Genome annotation: CDS (fasta),
Notes on the update:
- Genome contig/scaffolds and gene models renamed reflecting the chromosome model.
- Redundant genome contig/scaffolds were removed.
Schrenkiella parvula Version 1.0 (Aug. 2011) (Dassanayake et al., 2011)
Genome assembly: Genome sequence (fasta)
Genome annotation: CDS (fasta)
RNAseq and Transcriptome Data
Cell type-specific responses to salinity - the epidermal bladder cell transcriptome of Mesembryanthemum crystallinum (Oh et al., 2015)
Genome structures and transcriptomes signify niche adaptation for the multiple-ion-tolerant extremophyte Schrenkiella parvula (Oh et al., 2014)
- S. parvula genome version 2.0 (see above) was used for this study.
Comparative genomics tools to identify shared evolutionary genomic variation
CL_Finder
Tool to identify and annotate orthologous genomic units including genes in multiple genomes
OrthNet
Tool to create orthology based networks
Pipeline described at doi: https://doi.org/10.1101/236299 and can be downloaded from GitHub