New answers tagged ensembl
2
votes
How to identify which isoforms of a gene are actually expressed in my data?
If you do as @james-hawley rightly suggests, keep in mind that pseudo-alignment could detect a lot of transcripts with low TPM that are actually false positives, as reported here (it's a paper ...
4
votes
How to identify which isoforms of a gene are actually expressed in my data?
Tools like kallisto or salmon can perform a process call pseudo-alignment that matches reads from RNA-seq data to transcript isoforms present in a reference genome.
You can then look at the output of ...
Top 50 recent answers are included
Related Tags
ensembl × 53biomart × 10
r × 9
gene × 8
annotation × 7
bioconductor × 5
rna-seq × 3
ncbi × 3
reference-genome × 3
perl × 3
uniprot × 3
identifiers × 3
api × 3
entrez × 3
python × 2
vcf × 2
genome × 2
database × 2
sequence-analysis × 2
transcriptome × 2
human-genome × 2
data-download × 2
refseq × 2
scrnaseq × 1
fasta × 1