What is the avarage maximum MB of the plant/animal genome that can be de novo sequenced with GAIIx? Is there a limit?
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
Theoretically there isn't a limit. If you want to run enough lanes you can sequence anything you could do with a HiSeq - it would just work out more expensive.
We've recently worked out costing for sequencing a ~400Mbp genome using a GAIIx. You basically need to use one whole flowcell for this whereas on a HiSeq you'd only need 3 lanes (and would actually get higher coverage from those, but the amount of data from the GA would be more than enough). In this case the costs on a HiSeq would be cheaper than the GA, but not ridiculously so. Once your genome gets much bigger than this I can't see the GA being economic.
If you're mostly going to be focussed on genome sequencing, even of smallish genomes then I'd be looking at a HiSeq rather than a GA. In our case the genome sequencing is an unusual run, so the GA works well for us still.
-
We'll do mostly small RNAs and mRNA-seq, but we have one plan to seq a plant woth ~1000MB genome.
Just for info what was the overall total cost of consumables for your 400MB genome on GAIIx? and how many runs you did it with?
Thanks!------------
SMART - bioinfo.uni-plovdiv.bg
Comment
-
Originally posted by vebaev View PostWe'll do mostly small RNAs and mRNA-seq, but we have one plan to seq a plant woth ~1000MB genome.
Originally posted by vebaev View PostJust for info what was the overall total cost of consumables for your 400MB genome on GAIIx? and how many runs you did it with?
Comment
Latest Articles
Collapse
-
by seqadmin
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
Channel: Articles
04-22-2024, 07:01 AM -
-
by seqadmin
Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
Channel: Articles
04-04-2024, 04:25 PM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, 04-25-2024, 11:49 AM
|
0 responses
20 views
0 likes
|
Last Post
by seqadmin
04-25-2024, 11:49 AM
|
||
Started by seqadmin, 04-24-2024, 08:47 AM
|
0 responses
20 views
0 likes
|
Last Post
by seqadmin
04-24-2024, 08:47 AM
|
||
Started by seqadmin, 04-11-2024, 12:08 PM
|
0 responses
62 views
0 likes
|
Last Post
by seqadmin
04-11-2024, 12:08 PM
|
||
Started by seqadmin, 04-10-2024, 10:19 PM
|
0 responses
61 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 10:19 PM
|
Comment