User: t.blasco95

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t.blasco9530
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Posts by t.blasco95

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Comment: C: CIRCexplorer2 only looks for exonic circRNA
... Hi! Yes, it helps. Only one more doubt. Since my gene annotation file only stores information about exon's start and end position I would never find any circRNA that splits an exon, would I? For example, RPPH1 is a gene with only one exon that has many circRNA annotated inside it (Circbase provid ...
written 4 months ago by t.blasco9530
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Answer: A: best pipeline to get gene and transcript counts
... My advice would be to use Kallisto algorithm which is fast, easy to implement and provides you detailed transcript quantification tables. Only thing you need is just the transcriptome fasta file and your fastq files. Regarding to the aligner, STAR shows much more benefits than many other aligners ...
written 4 months ago by t.blasco9530
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Comment: C: CIRCexplorer2 only looks for exonic circRNA
... Thanks! I was just comparing microarray and RNASeq results and didn't notice that CIRCexplorer2 detects intronic circRNA. Another related thing, should I understand that CIRCexplorer2 compares the obtained back spliced junctions with CIRCpedia? ...
written 4 months ago by t.blasco9530
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CIRCexplorer2 only looks for exonic circRNA
... I'm working on comparing circRNAs obtained via microarray analysis and RNA-Seq for a given group of multiple sclerosis human samples. Microarray analysis categorize the different circRNAs as exonic, intronic or sense overlapping (if the circRNA transcribed from the same gene locus). For RNA-Seq a ...
circexplorer circrna circular rna-seq written 4 months ago by t.blasco9530 • updated 4 months ago by IP530

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