I have 16 samples and would like to multiplexing these samples. There are two ways to do this: multiplexing 16 samples all together and put onto 4 lanes; multiplexing only 4 samples and therefore using 4 lanes. I personally prefer the first choice because there are some controls and biological duplicate in these 16 samples and this way lane to lane difference can be eliminated. But from statistics point of view, I don't know if these two ways of multiplexing would have different statistics power. Can experts here please give me some suggestions about this? Thank you very much!
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
multiplexing samples together for best statistical power
I recommend pooling all your samples together and spreading them across all your sequencing lanes. We've written a bit about Replication, Randomization and Multiplexing in our sequencing guide.
- GenohubLast edited by Genohub; 05-07-2014, 05:58 AM.
-
Originally posted by Genohub View PostI recommend pooling all your samples together and spreading them across all your sequencing lanes. We've written a bit about Replication, Randomization and Multiplexing in our sequencing guide.
- Genohub
Comment
-
Coverage for Chip-Seq
Yes, ChIP samples typically need higher coverage, take a look at our recommended coverage table. We also have a reference in there to the Encode Guidelines. To calculate the "amount" or units of sequencing you'll need based on coverage or numbers of reads, go to this project page and click on either:
- Minimum number of reads per sample
- Minimum coverage per sample
In your case, click on coverage, enter 100 (for 100x) and your haploid genome size. This will show you how many sequencing units (e.g. lanes) you need to meet your goal. The calculation assumes you want even sequencing coverage across all samples.
- GenohubLast edited by Genohub; 05-07-2014, 05:57 AM.
Comment
-
Originally posted by Genohub View PostI recommend pooling all your samples together and spreading them across all your sequencing lanes. We've written a bit about Replication, Randomization and Multiplexing in our sequencing guide.
- Genohub
Comment
Latest Articles
Collapse
-
by seqadmin
Technological advances have led to drastic improvements in the field of precision medicine, enabling more personalized approaches to treatment. This article explores four leading groups that are overcoming many of the challenges of genomic profiling and precision medicine through their innovative platforms and technologies.
Somatic Genomics
“We have such a tremendous amount of genetic diversity that exists within each of us, and not just between us as individuals,”...-
Channel: Articles
05-24-2024, 01:16 PM -
-
by seqadmin
The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...-
Channel: Articles
05-06-2024, 07:48 AM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, Yesterday, 06:55 AM
|
0 responses
12 views
0 likes
|
Last Post
by seqadmin
Yesterday, 06:55 AM
|
||
Started by seqadmin, 05-30-2024, 03:16 PM
|
0 responses
24 views
0 likes
|
Last Post
by seqadmin
05-30-2024, 03:16 PM
|
||
Comprehensive Sequencing of Great Ape Sex Chromosomes Yields Insights into Evolution and Genetic Variability
by seqadmin
Started by seqadmin, 05-29-2024, 01:32 PM
|
0 responses
28 views
0 likes
|
Last Post
by seqadmin
05-29-2024, 01:32 PM
|
||
Started by seqadmin, 05-24-2024, 07:15 AM
|
0 responses
215 views
0 likes
|
Last Post
by seqadmin
05-24-2024, 07:15 AM
|
Comment