CRUK-CI Genomics Help

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submission:single-cell_faq [2025/01/31 16:09] – [What is the price of 10x experiments?] skelto01submission:single-cell_faq [2025/02/13 18:31] (current) – [What is the price of 10x experiments?] Bioinformatics service admin
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 ====== Genomics Core Single Cell FAQ's ====== ====== Genomics Core Single Cell FAQ's ======
  
-If you haven't found answer to your question, please contact the [[:singlecell@cruk.cam.ac.uk|single cell team]]+If you haven't found answer to your question, please contact the [[:singlecell@cruk.cam.ac.uk|Single Cell Team]]
  
-**Please note:** We cannot accept samples that have not been discussed in advance with our team (contact above)+**Please note:** We cannot accept samples that have not been discussed in advance with our team (contact above).
  
 ===== When can I submit my samples? ===== ===== When can I submit my samples? =====
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 We accept samples on the following days:\\ We accept samples on the following days:\\
-**Monday to Thursday between 10am to 4pm** or **Friday 10am to 2pm**\\+**Monday to Thursday between 10am to 4pm**. In case of emergency samples, we can accept on Fridays up to 2pm, but will reject without a good-enough reason (surgery/ precious sample). \\
  
-If you are submitting samples from a department outside of the CRUK CI building please inform the team before you arrive that you are planning to do so, helping us make sure one of our staff in available to take receipt of your samples.+We ask for a notice of 30 minutes before you arrive with samples to ensure we are ready to load your sample as soon as possible to prevent further cell death/ stress. It is important to keep us updated about any changes that happen during the day of the experiment that may impact your scheduled time or number of samples submitted. If you are unsure, it is always better to send us an email to check. 
 + 
 +If you are submitting samples from a department outside of the CRUK CI building, please inform the team before you arrive that you are planning to do so, helping us make sure one of our staff in available to take receipt of your samples. 
 + 
 +Upon arrival please let reception staff know you have a sample to deliver to the Single Cell Team in the Genomics Core and we will come to pick up samples from you at the reception desk.
  
-Upon arrival please let reception staff know you have a sample to deliver to the single cell team in core genomics we will come to pick up samples from you at the reception desk. 
  
  
-Reagents must be defrosted 30 minutes before you arrive, so it is important to keep us updated about any changes that happen during the day of the experiment. For example, if there is any delay, there is a change in number of samples, you have to cancel your booking or you know that you will arrive earlier than expected. 
  
 ===== Who can submit sample to your core? ===== ===== Who can submit sample to your core? =====
  
-We accept samples for our single cell services from CRUK CI researchers and across departments at Cambridge University.  +We accept samples for our single cell services from CRUK CI researchers and across departments at Cambridge University. If we have scope to accept samples outside of these groups as well as from other organisations, but require you contact us to check first to ensure planning/ costing.  
-Please contact the [[:singlecell@cruk.cam.ac.uk|singlecell team]] if you have any queries or wish to use our services & will be able to advise you if we can accommodate your request.+Please contact the [[:singlecell@cruk.cam.ac.uk|Single Cell Team]] if you have any queries or wish to use our services & we'll be able to advise you if we can accommodate your request.
  
 ===== Is there any paperwork I have to fill in before submitting my samples? ===== ===== Is there any paperwork I have to fill in before submitting my samples? =====
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   - [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/login/CreateUser.action|Request a user account for the sequencing service]] which will allow you to upload a submission form around time of experiment.   - [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/login/CreateUser.action|Request a user account for the sequencing service]] which will allow you to upload a submission form around time of experiment.
   - [[:genomics-helpdesk@cruk.cam.ac.uk|Contact us]] to set up your grant code in PPMS. Sometimes it takes up to few weeks to get financial part sorted out so we recommend to send us details as soon as possible.   - [[:genomics-helpdesk@cruk.cam.ac.uk|Contact us]] to set up your grant code in PPMS. Sometimes it takes up to few weeks to get financial part sorted out so we recommend to send us details as soon as possible.
-  - In rare cases when the research group you belong to have never worked with us in the past (especially if your PI just joined the institute) we may need to set up a PPMS account (different to adding your individual grant code) and FTP account. Please [[:genomics-helpdesk@cruk.cam.ac.uk|contact us]] to check if we have your PI's details in the system.+  - In rare cases, when the research group you belong to have never worked with us in the past (especially if your PI just joined the institute), we may need to set up a PPMS account (different to adding your individual grant code) and an FTP account. Please [[:genomics-helpdesk@cruk.cam.ac.uk|contact us]] to check if we have your PI's details in the system.
   - Fill in a [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/forms/DownloadForm.action|submission form]] and upload it to your project. For help filling in the submission form please follow [[https://genomicshelp.cruk.cam.ac.uk/doku.php?id=submission:10x_submissions|this guide]].   - Fill in a [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/forms/DownloadForm.action|submission form]] and upload it to your project. For help filling in the submission form please follow [[https://genomicshelp.cruk.cam.ac.uk/doku.php?id=submission:10x_submissions|this guide]].
  
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 This will depend on the chemistry you would like to use & the number of samples you are hoping to submit. This will depend on the chemistry you would like to use & the number of samples you are hoping to submit.
  
-Please contact [[:singlecell@cruk.cam.ac.uk|singlecell ]] & ask for a price card for up to date information on our prices for sequencing & single cell.+Please contact [[:singlecell@cruk.cam.ac.uk|Single Cell Team]] & ask for a price card for up to date information on our prices for sequencing & single cell.
  
 **Please note:** **Please note:**
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 We recommend discussing this matter with your bioinformatician.  We recommend discussing this matter with your bioinformatician. 
  
-If you would like an indication on how much your experiment might cost for 10X & sequencing please get in contact with the team & we'll put together a cost estimate for you based on number of samples, chemistry, read depth etc.+If you would like an indication on how much your experiment might cost for 10X library prep & sequencing please get in contact with the team & we'll put together a cost estimate for you based on your requirements (number of samples, chemistry, read depth etc.)