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

 

© Copyright 2013 Dr. Maheshi Dassanayake.  All rights reserved.

Last site update: April 04, 2021

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