HeLa cell genome

[didymos]

Hi All!

I am wondering if there are any plans to resequence HeLa cell line?
I know that there is the Cancer Genome Project, but I have not found any info about resequencing HeLa.
Actually this is for me very strange because a lot of people work with this cell line, but we have no idea (as far as I know) how it genome looks like...
It would be very cool to see how this cell line differs from hg19.
Do you know anything more about HeLa genome (sequence)?
thanks!

[Joann]

Scientists know her as HeLa but her name was Henrietta Lacks

You may be interested in reading about recent updates on the Lacks family.

http://www.lacksfamily.com/

And more about a recently established foundation

http://www.henriettalacksfoundation.org/

[tonybolger]

I am wondering if there are any plans to resequence HeLa cell line?

I would guess all the duplications would make it rather challenging, aka expensive, to do a complete genome, but finding interesting CNVs and SNPs should be possible.

[arolfe]

The ENCODE project used HeLa cells, among others. You could try doing an assembly from the chip-seq, rna-seq, and control datasets they've published. It'd probably be fragmented, but you might be able to detect interesting features.

http://genome.ucsc.edu/cgi-bin/hgFileSearch?hgsid=212403493&db=hg19&hgt_tsDelRow=&hgt_tsAddRow=&tsName=&tsDescr=&tsGroup=Any&fsFileType=Any&hgt_mdbVar1=cell&hgt_mdbVal1=HeLa-S3&hgt_mdbVar2=antibody&hgt_mdbVal2=Any&hgfs_Search=search

[Joann]

The Genomic and Transcriptomic Landscape of a HeLa Cell Line

Published Early Online March 11, 2013, doi: 10.1534/g3.113.005777

Detailed genomic and transcriptomic characterization of a HeLa cell line.

Lars M. Steinmetz, corresponding author.

Thank you Lars and all of the authors for publishing this paper.

[Joann]

The Henrietta Lacks family leads the way

The US NIH has announced an agreement with the descendants of Henrietta Lacks regarding the access to her cells' sequenced whole genome.

see
doi:10.1038/500141a

also
http://www.nih.gov/about/director/st...a-08072013.htm

Previous discussions on this forum, and in particular, "Can we sequence the Y Chromosome?" and post #13 there "Future Repositories and Standards Bodies: Guidelines" discuss stardards for genealogy sequence repositories that would encompass relevant historical archives formats.

I would like to note the similarity between the oversight format agreed upon by the Lacks family and NIH (application review and approval by a research oversight committee on behalf of the repository insitution) and the standards for permission for research use of archived medical records housed at the Alan Mason Chesney Medical Archives of The Johns Hopkins Medical Institutions.

For more information please consult the book:
Designing archival programs to advance knowledge in the health fields.
see pp.132-22
Edited by Nancy McCall and Lisa Mix
Johns Hopkins University Press 1995
ISBN 0801847613