User: amina.mcdiarmid

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Posts by amina.mcdiarmid

<prev • 5 results • page 1 of 1 • next >
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Are reference sequences from GENCODE, Ensembl and RefSeq the same if they are called GRCh38.p10, it is just the annotation that varies?
... I am looking to compare reference sequences and annotations (.gtf/.gff) to find a best fit for my analysis with regards to mapping. Aligners ask for a reference sequence in .fasta format with an annotation in .gtf or .gff format. Am I correct in assuming that it doesn't matter which data base you do ...
grch38 reference genome annotations rna-seq written 16 months ago by amina.mcdiarmid0
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Comment: C: hg38 annotation file (gtf) UCSC format
... Hi! I want to ask a question about this... So there is no separate annotation from UCSC anymore? ...
written 16 months ago by amina.mcdiarmid0
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Comment: C: Homo_sapiens.GRCh38.91.chr.gtf.gz or Homo_sapiens.GRCh38.91.gtf.gz for different
... Thank you very much! ...
written 16 months ago by amina.mcdiarmid0
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Homo_sapiens.GRCh38.91.chr.gtf.gz or Homo_sapiens.GRCh38.91.gtf.gz for differential expression of RNA-seq data?
... I am carrying out RNA-seq analysis and need the annotation in GTF format from Ensembl to go with my reference sequence in fasta format. Which of these is the correct one to use? ftp://ftp.ensembl.org/pub/release-91/gtf/homo_sapiens/ I can't work out whether I want the Homo_sapiens.GRCh38.91**.chr ...
genome ensembl rna-seq annotation written 16 months ago by amina.mcdiarmid0 • updated 16 months ago by Devon Ryan90k
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Comment: C: Difference between GTF file with CHR and without CHR. ENSEMBL
... So which one should be used? I am carrying out analysis in Homo sapiens and am doing a differential expression analysis of RNA-seq data. ...
written 16 months ago by amina.mcdiarmid0

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