large sequencing projects

barak · 05-04-2011, 02:08 PM

Hi
We're a small lab adjacent to a large genetic institute with many Mendelian syndromes awaiting exome sequencing.
We wish to perform exome sequencing for > 30 individuals all at once (better prices, same technology, etc.) and preferably have everything from capture to data analysis in one place.
Any ideas?

My preference would be paired end on Illumina with ~ x50 coverage (don't care about the capture technology).

Has anyone had any experience with Otogenetics?
They offer nice deals + analysis at DNAnexus. However, as we wish to send many samples we were wondering what others might think? I find it creepy not to find any related links/articles/press about them.

Thanks
Barak

jo_mason · 05-06-2011, 02:39 AM

Hi Barak,
I have sent you a private message in regards to this.
I work for MGRC and we a have a pipeline ideal for your application. We can offer sequencing, exome capture, bioinformatics analysis and have our own browser for easy visualisation of the data.
We would be very happy to discuss the project with you. Please contact me if you require any further information.
Jo
www.mgrc.com.my

lwwhu · 05-18-2011, 01:47 AM

Otogenetics? I guess they will have to outsource your project to some big service providers.

Vanisha · 05-18-2011, 02:25 AM

BGI also, they had some lovely initial exome data albeit at low coverage, but it was the first to be released

barak · 05-18-2011, 05:13 AM

Quote:

Originally Posted by lwwhu

Otogenetics? I guess they will have to outsource your project to some big service providers.

Can you be more specific? You mean they are too small for 30 samples?
I could find an NIH grant on their name from 2009:
http://projectreporter.nih.gov/proje...7801378&icde=0

krobison · 05-18-2011, 06:00 AM

Quote:

Originally Posted by lwwhu

Otogenetics? I guess they will have to outsource your project to some big service providers.

Do you have any justification for such a statement? The query is about 30 samples; this is less than what fits into one HiSeq run, which is what otogenetics uses. Clearly they can handle 30 samples.

barak · 05-18-2011, 06:12 AM

I do not think there is a problem with 30 samples there. My concern was different. I'm about to spend more than 60000$ and I wish to feel more confident that the company is alive and kicking.

More and more small seq centers pop out and give good prices. and this will grow more in the near future.
Ba

tajeff88 · 09-04-2012, 04:44 PM

I hope you did not use them because they are very unprofessional. They don't respond to emails or phone calls. Then send data that with no explanation. I received an excel spreadsheet with a bunch of files of bioanalyzer traces that is very unclear which samples go with which.

Hope you didn't end up using them.

Geneus · 09-12-2012, 09:42 AM

Quote:

Originally Posted by krobison

Do you have any justification for such a statement? The query is about 30 samples; this is less than what fits into one HiSeq run, which is what otogenetics uses. Clearly they can handle 30 samples.

If you only really knew.

Read the 3rd one down.

http://bgiamericas.com/about-us/customer-testimonials/

barak · 09-20-2012, 11:52 AM

Quote:

Originally Posted by Geneus

If you only really knew.

Read the 3rd one down.

http://bgiamericas.com/about-us/customer-testimonials/

this is very interesting. thanks for the link!

barak · 09-20-2012, 11:57 AM

Quote:

Originally Posted by tajeff88

I hope you did not use them because they are very unprofessional. They don't respond to emails or phone calls. Then send data that with no explanation. I received an excel spreadsheet with a bunch of files of bioanalyzer traces that is very unclear which samples go with which.

Hope you didn't end up using them.

We did use them for several projects (> 10 samples each).
this is not a recommendation though. there are ups and downs for working with Otogenetics and I will not list them here.
The purpose of the post was to understand if this company is real and can handle the jobs.

eppi · 11-29-2012, 12:00 AM

Quote:

Originally Posted by barak

We did use them for several projects (> 10 samples each).
this is not a recommendation though. there are ups and downs for working with Otogenetics and I will not list them here.
The purpose of the post was to understand if this company is real and can handle the jobs.

Hi Barak,

would you mind share the pros/cons? Maybe privately?
thanks
Eppi

OtogeneticsAtlanta · 11-11-2013, 01:55 PM

eppi,

I realize this thread is old, however I wanted to take the time and respond. I was recently bought on board the Otogenetics team as their Marketing Manager. In addition to myself, we now have a new CEO and I can assure you that several changes are taking place here regarding service and quality. Please feel free to contact me directly with any future project you have and let us prove to you that Otogenetics can provide you not only with accurate data, but also a positive customer experience.

Thank you,
Richard Grandy
Otogenetics
404-492-9403
1-855-otogene

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05-04-2011, 02:08 PM	#1
barak Junior Member Location: israel Join Date: Jun 2010 Posts: 8	large sequencing projects Hi We're a small lab adjacent to a large genetic institute with many Mendelian syndromes awaiting exome sequencing. We wish to perform exome sequencing for > 30 individuals all at once (better prices, same technology, etc.) and preferably have everything from capture to data analysis in one place. Any ideas? My preference would be paired end on Illumina with ~ x50 coverage (don't care about the capture technology). Has anyone had any experience with Otogenetics? They offer nice deals + analysis at DNAnexus. However, as we wish to send many samples we were wondering what others might think? I find it creepy not to find any related links/articles/press about them. Thanks Barak

05-06-2011, 02:39 AM	#2
jo_mason Member Location: Malaysia Join Date: Dec 2010 Posts: 20	Hi Barak, I have sent you a private message in regards to this. I work for MGRC and we a have a pipeline ideal for your application. We can offer sequencing, exome capture, bioinformatics analysis and have our own browser for easy visualisation of the data. We would be very happy to discuss the project with you. Please contact me if you require any further information. Jo www.mgrc.com.my __________________ Jo Mason joanne@mgrc.com.my

05-18-2011, 01:47 AM	#3
lwwhu Junior Member Location: Philadelphia Join Date: Jan 2010 Posts: 2	Otogenetics? I guess they will have to outsource your project to some big service providers.

05-18-2011, 02:25 AM	#4
Vanisha Member Location: London Join Date: Nov 2009 Posts: 21	BGI also, they had some lovely initial exome data albeit at low coverage, but it was the first to be released

05-18-2011, 06:12 AM	#7
barak Junior Member Location: israel Join Date: Jun 2010 Posts: 8	I do not think there is a problem with 30 samples there. My concern was different. I'm about to spend more than 60000$ and I wish to feel more confident that the company is alive and kicking. More and more small seq centers pop out and give good prices. and this will grow more in the near future. Ba

09-04-2012, 04:44 PM	#8
tajeff88 Junior Member Location: California Join Date: Sep 2012 Posts: 2	I hope you did not use them because they are very unprofessional. They don't respond to emails or phone calls. Then send data that with no explanation. I received an excel spreadsheet with a bunch of files of bioanalyzer traces that is very unclear which samples go with which. Hope you didn't end up using them.

11-11-2013, 01:55 PM	#13
OtogeneticsAtlanta Junior Member Location: Atlanta Join Date: Nov 2013 Posts: 5	eppi, I realize this thread is old, however I wanted to take the time and respond. I was recently bought on board the Otogenetics team as their Marketing Manager. In addition to myself, we now have a new CEO and I can assure you that several changes are taking place here regarding service and quality. Please feel free to contact me directly with any future project you have and let us prove to you that Otogenetics can provide you not only with accurate data, but also a positive customer experience. Thank you, Richard Grandy Otogenetics 404-492-9403 1-855-otogene