Is there any differences between Human Genome downloaded from UCSC website and the on from Ensembl
I am trying to use tophat to map RNA-seq data with human genome, I found that the human genome and different versions from annotation files are available under the tab Index and annotation downloads at the tophat website as shown in the table below:
Data source Version Size Last Modified
Ensembl GRCh37 17297 MB 5/14/2015 17:23
UCSC hg18 17349 MB 5/14/2015 15:31
hg19 21058 MB
- GRCh37 link: ftp://igenome:G3nom3s4u@ussd-ftp.illumina.com/Homo_sapiens/Ensembl/GRCh37/Homo_sapiens_Ensembl_GRCh37.tar.gz
- hg18 link: ftp://igenome:G3nom3s4u@ussd-ftp.illumina.com/Homo_sapiens/UCSC/hg18/Homo_sapiens_UCSC_hg18.tar.gz
- hg19 link: ftp://igenome:G3nom3s4u@ussd-ftp.illumina.com/Homo_sapiens/UCSC/hg19/Homo_sapiens_UCSC_hg19.tar.gz
The question here, is there any differences between human genomes GRCH37 from Ensembl and hg19 from UCSC?
I know that the annotation files are different, but I am not sure if the genomes are the same or not.
• 5,085 views
•
link
1 answer
Yes there are some slight differences (degenerate bases, chromosome names... ) : the see http://plindenbaum.blogspot.fr/2013/07/g1kv37-vs-hg19.html , Chry In 1000G Vs Hg19 ...
• 0 views
•
link
Log in to answer this question.