SEQanswers

Go Back   SEQanswers > Sequencing Technologies/Companies > Illumina/Solexa



Similar Threads
Thread Thread Starter Forum Replies Last Post
HiSeq questions jo_mason Illumina/Solexa 14 05-10-2011 10:05 AM
no HiSeq option when registering mjp Introductions 1 03-28-2011 10:18 AM
Multiplex on HiSeq? cbrennan Illumina/Solexa 9 03-24-2011 10:51 AM
BAD HiSeq flowcells BIG_SNP Illumina/Solexa 3 01-11-2011 08:05 AM
indexing for Hiseq lcwu Sample Prep / Library Generation 0 10-13-2010 09:51 AM

Reply
 
Thread Tools
Old 05-11-2011, 11:58 PM   #1
dongshenglulv
Member
 
Location: Shanghai

Join Date: May 2011
Posts: 15
Default Solexa and HiSeq

I'm very confused with the relationship of Solexa and HiSeq.
Is it true that HiSeq 2000 based on the technology of Solexa?
dongshenglulv is offline   Reply With Quote
Old 05-12-2011, 04:58 AM   #2
lletourn
Member
 
Location: Montreal

Join Date: Oct 2009
Posts: 63
Default

Yes. They're both from illumina. Actually illumina bought solexa awhile back.

Solexa became GenomeAnalyzer. Then GenomeAnalyzer got a few upgrades (optics, flowcell layout, etc) until the GAIIx.

Then the hiseq came out. THe principals are the same, but they don't work the same way.

On the GA, the camera that takes pictures at given intervals, on the hiseq the camera does a linescan of the lanes of the flowcell.

The GA only reads the bottom of the flowcell, the hiseq reads top and bottom.

I won't list all the differences, you can go to illuminas site if you want more details.

Last edited by lletourn; 05-12-2011 at 08:18 AM.
lletourn is offline   Reply With Quote
Old 05-12-2011, 05:40 AM   #3
dongshenglulv
Member
 
Location: Shanghai

Join Date: May 2011
Posts: 15
Default

Thank you so much
dongshenglulv is offline   Reply With Quote
Old 10-11-2013, 11:26 PM   #4
deepika123
Member
 
Location: lucknow

Join Date: Mar 2012
Posts: 14
Default

hello..

if i say solexa reads then it is considered Hiseq2000 based technology or not. actually i have solexa sequencing data and i installed the Fastx tool for adopter removal but this tool is only for solexa and sanger reads so i did not understand that solexa reads including HTseq technology or not.

thanx in advance
deepika123 is offline   Reply With Quote
Old 10-13-2013, 04:43 AM   #5
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 7,077
Default

Quote:
Originally Posted by deepika123 View Post
hello..

if i say solexa reads then it is considered Hiseq2000 based technology or not. actually i have solexa sequencing data and i installed the Fastx tool for adopter removal but this tool is only for solexa and sanger reads so i did not understand that solexa reads including HTseq technology or not.

thanx in advance
Solexa was the name of the company that Illumina acquired back in 2006. Solexa pioneered the technology for sequencing that is still being used in principal with new Illumina sequencers.

Depending on the vintage of the data you are using there were multiple quality encoding formats (for fastq format). More information on that is here: http://en.wikipedia.org/wiki/FASTQ_format#Encoding

If you know that the data you have is using an older encoding method (i.e. "non-sanger" then you may have to pass right options to Fastx toolkit. If you are not sure what format your data is in (in terms of quality) then you can try the FastQC program: http://www.bioinformatics.babraham.a...ojects/fastqc/. It can generally identify the quality format and will display it in the general summary.

Trimmomatic is also a better option for trimming: http://www.usadellab.org/cms/?page=trimmomatic
GenoMax is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 01:34 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO