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Posts by nash52
Reference genome and associated gene model (gtf, gff3) file for splice junctions in RNA STAR in Galaxy
... Hi, I am trying to process RNA-seq data from fastq files to get raw counts using Galaxy. I want to use STAR for alignment purposes. However, I am not quite sure how to choose the associated gene model (gtf) file for splice junctions for the chosen reference genome. In Galaxy, there are two built-in ...
... Hi, I am currently doing a meta-analysis study for Gliomas (Microarray gene expression data) and have followed the steps in the following article to select different data sets that I am using for meta-analysis as well as the steps for processing each data set. https://journals.plos.org/plosmedicine ...
... How can we search and download DNA microarray data from TCGA? I mean the DNA microarray data from Affymetrix or Agilent platforms and not the RNA-seq count data. I am looking for DNA microarray data for Glioblastoma Multiforme (GBM) as it has been used in many papers recently. Thanks! ...
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