SEQanswers

Go Back   SEQanswers > Search Forums


Showing results 1 to 18 of 18
Search took 0.00 seconds.
Search: Posts Made By: zaratieg
Forum: Illumina/Solexa 02-28-2019, 06:47 AM
Replies: 2
Views: 673
Posted By zaratieg
Thanks for your reply. No, this is supposed to be...

Thanks for your reply. No, this is supposed to be post size selection. I didn't pay attention to that part, I thought that was their size marker. I saw the well defined bump between 200-600 and...
Forum: Illumina/Solexa 02-28-2019, 05:50 AM
Replies: 2
Views: 673
Posted By zaratieg
Sequencing beyond the end of the fragment

Hi everyone

We've had a problem with a sequencing run and I would like to ask for a re-run with justification.

We submitted 4 libraries to size-select via pippin prep, pool and run SE 150 on a...
Forum: Sample Prep / Library Generation 05-18-2017, 07:00 AM
Replies: 1
Views: 1,123
Posted By zaratieg
Used bioanalyzer (no software)-Worth it?

There's a 2100 bioanalyzer being auctioned by the surplus dpt in my university. It powers on, and has the electrode cartridge but does not come with the laptop/software license (or serial cable or...
Forum: Sample Prep / Library Generation 01-08-2016, 05:18 AM
Replies: 2
Views: 2,135
Posted By zaratieg
Thanks!! It's an interesting read. We'll try...

Thanks!! It's an interesting read. We'll try other Taqs.
Forum: Bioinformatics 02-11-2015, 05:23 AM
Replies: 0
Views: 834
Posted By zaratieg
Best statistical learning technique to analyze ChIP-seq data as predictors

Hi!

I have an interesting problem: I want to use ChIP-seq data (potentially several fold enrichment tracks) to predict a relatively rare event that we can quantify and localize with base-pair...
Forum: Sample Prep / Library Generation 12-26-2014, 12:43 PM
Replies: 2
Views: 2,135
Posted By zaratieg
AT rich region depletion

We are having some trouble with our ChIP-seqs: we seem to be completely blind to AT rich regions. When I check the GC distribution in the ChIP and Input reads I see that the input has maybe a 2%...
Forum: Bioinformatics 11-27-2013, 08:17 AM
Replies: 2
Views: 1,905
Posted By zaratieg
Thanks for your answer Devon. The data are viral...

Thanks for your answer Devon. The data are viral insertion sites, so most of the genome is empty, with around 3000 clusters with signal ranging from 1 to 300 counts. The mapped read tells me the...
Forum: Bioinformatics 11-27-2013, 06:50 AM
Replies: 2
Views: 1,905
Posted By zaratieg
[n00b question] best way to make whole genome windowed coverage correlation?

Hi everyone

I have three samples that i would like to compare for differences in coverage. Right now the data is in .bed files. I'd like to run some statistics on them but i'm afraid I don't know...
Forum: Illumina/Solexa 10-18-2013, 11:05 AM
Replies: 2
Views: 1,890
Posted By zaratieg
Thanks! My tolerance of failure is dwindling in...

Thanks! My tolerance of failure is dwindling in parallel to my startup money, so I'll spend the extra bucks.
Forum: Illumina/Solexa 10-18-2013, 05:48 AM
Replies: 2
Views: 1,890
Posted By zaratieg
Required oligo purity for homemade library preps?

Hi, we are gearing up to make some home-made libraries with custom oligos. I have never ordered oligos for library construction, what are the purity requirements? HPLC, PAGE purification? Is there a...
Forum: General 01-14-2013, 02:04 PM
Replies: 4
Views: 3,157
Posted By zaratieg
Thank you Chadn, that's what I was figuring. I...

Thank you Chadn, that's what I was figuring. I was wondering if there was a more elegant/less brute force approach, but i guess that we are at a point where it really is economical to kill flies with...
Forum: General 01-14-2013, 10:25 AM
Replies: 4
Views: 3,157
Posted By zaratieg
Plasmid library sequencing-which platform (if any)?

Hi everyone

I was hoping to pick your brains for a second. We have a plasmid library in e coli. We would like to obtain sequences form hundred of individual plasmids, starting from the backbone...
Forum: Bioinformatics 10-24-2012, 06:52 AM
Replies: 0
Views: 989
Posted By zaratieg
Crossbow jobs fail- reference jars?

Dear all

I hope there's someone here that can help me. I'm trying to run Crossbow on EMR via the command line, with a custom reference jar. The job gets through the align with bowtie step, but...
Forum: Bioinformatics 08-28-2012, 06:54 PM
Replies: 2
Views: 3,740
Posted By zaratieg
i think you can put them anywhere you want, not...

i think you can put them anywhere you want, not just on /usr/local/bin. you could make your own /bin folder.

mkdir ~/bin

will make the directory in your home folder, then you can do cp bin/*...
Forum: The Pipeline 08-08-2012, 03:45 AM
Replies: 103
Views: 139,769
Posted By zaratieg
I guess it means they still exist. But in terms...

I guess it means they still exist. But in terms of ETA, I read this as "we are so far from release date that we are not even actively looking for beta testers, and NYGC, which is only slightly less...
Forum: The Pipeline 08-01-2012, 10:45 AM
Replies: 103
Views: 139,769
Posted By zaratieg
I think he meant it as either the acceptation of...

I think he meant it as either the acceptation of anecdotal as unreliable because it was seen only once, and besides not attached to a USB port churning out sequence, or the acceptation of "funny...
Forum: The Pipeline 08-01-2012, 10:11 AM
Replies: 103
Views: 139,769
Posted By zaratieg
That is awesome. Thanks for the laugh!

That is awesome. Thanks for the laugh!
Forum: The Pipeline 08-01-2012, 09:39 AM
Replies: 103
Views: 139,769
Posted By zaratieg
Availability?

Does anyone have any info as to the date of commercial availability of the MinION?
Back in february they said 6-9 months, but not a peep since.
As a matter of fact, has anyone seen one of these in...
Showing results 1 to 18 of 18

 


All times are GMT -8. The time now is 04:50 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO