De Novo Assembly of Uca minax Transcriptome from Next Generation Sequencing

High-throughput cDNA sequencing (RNA-seq) is a very powerful technique to quantify gene expression in an unbiased way. The Crustacean family is among the groups of organisms sparsely represented in current genomic databases... Here we present transcriptome data from Uca minax (red-jointed fiddler crab) as an opportunity to extend our knowledge. Next generation sequencing was performed on six tissue samples from Uca minax using the Illumina HiSeq system. Six Transcriptome libraries were created using Trinity; a free, open-source software tool for de novo transcriptome assembly of high-throughput mRNA sequencing (RNA-seq) data with the absence of a reference genome. In addition, several tools that aid in management of data were used, such as RSEM, Bowtie, Blast, and IGV; a tool for visualizing RNA-seq analysis results. Fast quality control (FastQC) analysis of the raw sequenced files revealed that both adapter and PCR primer sequences were prevalently present, which may require a preprocessing step. read more

PDF Abstract
No code implementations yet. Submit your code now



  Add Datasets introduced or used in this paper

Results from the Paper

  Submit results from this paper to get state-of-the-art GitHub badges and help the community compare results to other papers.


No methods listed for this paper. Add relevant methods here