Question: Illumina iGenomes for UCSC, NCBI and Ensembl on Cufflinks webpage
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gravatar for ndejay
6.2 years ago by
ndejay30
McGill University, Canada
ndejay30 wrote:

Hi,

I am trying to count genes using a variety of references.  On the following page from the Cufflinks website are listed the following annotation bundles:

  • Ensembl/GRCh37
  • NCBI/build37.2
  • UCSC/hg19

for the human genome.  I have two questions concerning what they contain.

  1. Is NCBI/build37.2 the same (or equivalent) as NCBI's RefSeq?
  2. How modified are each of the bundles with regard to their respective, purported source?

I am speaking mostly of the gtf files provided under Homo_sapiens/${X}/${Y}/Annotation/Genes/genes.gtf.

I am very confused by the number of available annotations.  It appears that having too many options can be a curse too ;).  I'd very much appreciate it if anyone could shed some light on this matter!  Thanks in advance.

rna-seq gtf • 2.4k views
ADD COMMENTlink written 6.2 years ago by ndejay30
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