Dear All,
thank you for having filled in the doodle.
The Geuvadis RNAseq phone conference will take place on May 6 from 11am - 12pm CEST.
To participate in this call you have to do the following:
- if you call in from Switzerland dial: +41 58 262 07 22
- otherwise from other countries please find enclosed the list with the "local access numbers for teleconferences" and dial the number corresponding to your country.
Then enter the PIN: 611683
In case you need assistance during the call - dial "OO" (nil nil) to get in touch with an operator.
I have written down the following points that should be discussed:
1. As of now we made plans that the different labs analyze samples from one particular population (as listed in the workflow document that I've sent around on April 7).
It would be a better experimental design if the samples were randomly distributed among the different labs. Since there is still time to react - do we want to switch the strategy?
2. How long are the library prep / sequencer queue up times in the different labs (once you receive the RNA samples - how long do you think will it take you to analyze them?).
If some labs expect to have much larger delays, we could make arrangements that those labs get samples earlier than other labs.
This would also mean that we would all use the protocol that is used at the time point when the first lab starts to analyze samples.
3. Which other samples (other than the 500 1KGP European samples) should be analyzed by RNAseq?
4. Specifications for the small RNA protocol.
If you already know now, that you would like to have additional things discussed - please let me know and I can make sure that we don't forget about.
Looking forward to talk to you soon,
Thomas
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Thomas Giger, Ph.D.
Department of Genetic Medicine and Development
University of Geneva Medical School
1 Rue Michel-Servet
Geneva 1211
Switzerland
Dear All,
As we decided yesterday, the people involved in the RNAseq related part of the experiment should have a conference call to discuss open questions.
I have written down the following points that should be discussed:
1. As of now we made plans that the different labs analyze samples from one particular population (as listed in the workflow document that I've sent around on April 7).
It would be a better experimental design if the samples were randomly distributed among the different labs. Since there is still time to react - do we want to switch the strategy?
2. How long are the library prep / sequencer queue up times in the different labs (once you receive the RNA samples - how long do you think will it take you to analyze them?).
If some labs expect to have much larger delays, we could make arrangements that those labs get samples earlier than other labs.
This would also mean that we would all use the protocol that is used at the time point when the first lab starts to analyze samples.
3. Which other samples (other than the 500 1KGP European samples) should be analyzed by RNAseq?
4. Specifications for the small RNA protocol.
If you know already now, that you would like to have additional things discussed - please let me know and I can make sure that we don't forget about.
We would like to schedule the call for either next Tuesday (April 26) or Wednesday (April 27).
Please fill in the doodle by the end of this week so that we can select a time where a maximum number of people can attend the call: http://doodle.com/cnfc85cx9ushxzyb
cheers,
Thomas
------------------------------------------------------------------------
Thomas Giger, Ph.D.
Department of Genetic Medicine and Development
University of Geneva Medical School
1 Rue Michel-Servet
Geneva 1211
Switzerland
From: Thomas Giger <Thomas.Giger(a)unige.ch<mailto:Thomas.Giger@unige.ch>>
Date: April 7, 2011 10:11:26 AM GMT+02:00
To: geuvadis_rnaseq(a)lists.crg.es<mailto:geuvadis_rnaseq@lists.crg.es>
Subject: RNAseq Sample Workflow
Dear All,
please find attached to this message the sample processing workflow.
If something is unclear - please don't hesitate to ask me.
Also we could discuss this workflow further during the next TC.
kindest regards,
Thomas
