Computational protocol: Deptor transcriptionally regulates endoplasmic reticulum homeostasis in multiple myeloma cells

Similar protocols

Protocol publication

[…] The analysis were performed exploiting the RNA-seq analysis workflow RAP,[] that comprises read mapping, transcript assembly and abundancy estimation followed by transcript-based differential expression via the Tuxedo suite []. Paired-end reads were mapped to the human genome assembly hg19 with TopHat and further analyzed by the Cufflinks-Cuffdiff pipeline to identify differentially expressed transcripts. We ran the pipeline without novel transcript discovery.Raw data (FASTQ sequences) have been submitted to the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) database under the project GSE79820 (submitter M. Pallocca). […]

Pipeline specifications

Software tools Tuxedo, TopHat, Cufflinks
Databases GEO
Application RNA-seq analysis
Diseases Multiple Myeloma