Talk:PersonalGenomes@Home

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(Have questions about the project or the data? Please ask them here!)
(Have questions about the project or the data? Please ask them here!)
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==Have questions about the project or the data? Please ask them here!==
==Have questions about the project or the data? Please ask them here!==
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* Your question here.
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==Older questions and answers==
* It is my understanding that the FASTQ files posted on the PGP web site contain reads from 55000 short exons, length 40-140. Could someone please provide an ordered list of the exons that are included? --[[User:Irwin Jungreis|IJ]]  0:30, 12 December 2008 (EST)
* It is my understanding that the FASTQ files posted on the PGP web site contain reads from 55000 short exons, length 40-140. Could someone please provide an ordered list of the exons that are included? --[[User:Irwin Jungreis|IJ]]  0:30, 12 December 2008 (EST)
** This web-page has a new "assembly" for PGP2 with coordinates for each capture region included.  Please keep in mind that insertions and deletions are not present in the "assemblies".  '''I have added a link to insertions and deletions at [[PersonalGenomes@Home#PGP2_Sample_Data]] --[[User:Alexander Wait Zaranek|AWZ]] 22:58, 18 December 2008 (EST)  
** This web-page has a new "assembly" for PGP2 with coordinates for each capture region included.  Please keep in mind that insertions and deletions are not present in the "assemblies".  '''I have added a link to insertions and deletions at [[PersonalGenomes@Home#PGP2_Sample_Data]] --[[User:Alexander Wait Zaranek|AWZ]] 22:58, 18 December 2008 (EST)  

Revision as of 13:21, 3 April 2009

Image:PGP_template4.jpg

About        Projects        Publications        PersonalGenomes@Home        Public Data        FAQ        Updates (12/23)



Have questions about the project or the data? Please ask them here!

  • Your question here.

Older questions and answers

  • It is my understanding that the FASTQ files posted on the PGP web site contain reads from 55000 short exons, length 40-140. Could someone please provide an ordered list of the exons that are included? --IJ 0:30, 12 December 2008 (EST)
    • This web-page has a new "assembly" for PGP2 with coordinates for each capture region included. Please keep in mind that insertions and deletions are not present in the "assemblies". I have added a link to insertions and deletions at PersonalGenomes@Home#PGP2_Sample_Data --AWZ 22:58, 18 December 2008 (EST)
  • The FASTQ files include dinucleotide codes (like Y). Is that an indication that the particular individual is heterozygous at that locus and has both nucleotides? --IJ 0:30, 12 December 2008 (EST)
    • Yes. These are standard IUPAC codes. --AWZ 22:58, 18 December 2008 (EST)
  • The FASTQ files have nucleotides in both upper and lower case. Does the difference indicate anything about that position? --IJ 0:30, 12 December 2008 (EST)
    • Yes. Lower case indicates poor coverage. The assembly is done with Maq and default options. --AWZ 22:58, 18 December 2008 (EST)
  • Where can I find the PGP2 sequence data read by Swift? I only find the Illumina version here. --Jehyuk Lee 16:46, 23 December 2008 (EST)

Cleanup

  • It would be great if the above questions/answers could be incorporated into the main page. Maybe somebody could start an FAQ section? --AWZ 08:49, 20 December 2008 (EST)
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