Question

Encode Cell Line Genomes - Are The Genome Sequences Available?

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13.5 years ago

Dr.Bunsen ▴ 150

Hello,

Does anyone know where I can get the genome sequences of the ENCODE cell lines K562 and GM12878?

I tried to find these genome sequences at UCSC, but was unsuccessful. I'm fairly certain that at least the GM12878 genome was sequences as part of the HapMap project. Does anyone know the answers to the following two questions:

Have the genomes of these cell lines have been sequenced?
If they have been sequenced, where can I obtain the DNA sequences from? (Preferable UCSC)

Thanks in advance for the help.

ucsc encode • 6.1k views

ADD COMMENT • link updated 10.4 years ago by Biostar 20 • written 13.5 years ago by Dr.Bunsen ▴ 150

score 2 · Answer 1 · 2011-07-14

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13.5 years ago

Brett Thomas ▴ 300

Not sure about K562, but GM12878 was sequenced as part of the 1000 genomes project. You can download the SNP calls here, and 1000genomes.org describes how to get some other data sets.

ADD COMMENT • link 13.5 years ago by Brett Thomas ▴ 300

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I also do not believe that the K562 genome has been sequenced.

ADD REPLY • link 13.5 years ago by Larry_Parnell 16k

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Thanks guys. I really appreciate your help.

ADD REPLY • link 13.5 years ago by Dr.Bunsen ▴ 150