Welcome!
On this page, you will find the latest information on SICOF. For our website, Click here
Link to our manual for SICOF interaction: Click here
Dear users,
Due to a serious increase in our reagent costs, we are adjusting our pricing significantly for all our services. You can find the new pricing under our "services" section. We delayed this price increase as much as we could by miniaturizing our protocols but could not prevent this increase indefinitely unfortunately.
We would also like to update you on our queue status, since we are having some issues with sequencing of Smart-seq3 libraries. This has caused a significant delay in Smart-seq3 data delivery. However, we have now started a collaboration with NGI and hope to remedy this soon. Queue times for 10x related projects are unaffected by this issue.
We are also starting our first projects with the new 10x Flex chemistry and will hopefully soon generate some exiting data with this new ground breaking chemistry! We will also have 10x Genomics visiting NEO on the 20th of April for a symposium on their new applications. Book the time in your calendar if you are interested! April 20th, at 10:00 in Jan-Åke Gustafssonsalen.
With our best regards,
SICOF
'
Hi again, and welcome to another Friday update (on Saturday)!
Let's start first by congratulating the Mäkinen lab on their publication in JEM: Immune-interacting lymphatic endothelial subtype at capillary terminals drives lymphatic malformation. A beautiful example how Smart-seq can be used to identify and profile very rare subtypes of cells! Congratulations!
Last year, we have run a lot of Smart-seq3 libraries and although the data looks good, it is not looking up to the standards that we demand from our data. We have investigated all data generated in the fall (when we started running a lot of Smart-seq3) and noticed, together with other labs that use Smart-seq3, that the chemistry is very sensitive to the exact sequencing platform used. This was never the case with Smart-seq2, but Smart-seq3 is also much more complex. This investigation has delayed our data delivery substantially and we are now working on clearing this backlog as soon as possible. We will have a permanent solution in place soon. Since our bioinformatic support is limited, this also delayed our 10x data analysis, but the backlog is shortening.
We have also noticed interest in the fixed RNA profiling technology we recently acquired, which is very excited! We have started a negotiation with 10x on pricing and will soon have the service in place on iLab.
And that bring us to the last item in this post: iLab. It seems that we can't access messages that were sent to us via the "communications" interface. These go to the common singlecellceq@ki.se account and can't be read by the staff. To make sure we read your messages, please use the "request service" interface, where you can ask for consultations and communicate on your projects. Alternatively, you can reach us by ordinary e-mail on singlecellseq@ki.se
Wishing you a nice weekend!
/SICOF
Dear all,
We hope you all had an excellent break during the holidays and are as enthousiastic as we are to start 2023! Our best wishes for the New Year! Last year was an important year for us, where we launched our facility and started working 100% as a service platform for the scientific community. We have learned a lot on all fronts and continue to develop ourselves as a core. One of the changes will be the format of these news posts. We will make them more regular (every two weeks on this page, on Fridays) and use them as a method to communicate our workings to our userbase. A kind of newsletter, if you like, but not sent our via e-mail, since I'm sure you all agree that we already receive enough of those :). So, without much further ado, here are some exciting things going on at SICOF.
We would also like to highlight that the entire SICOF team will attend the NEO retreat day on the 23th of January. We will see many of you there and hope you will take the time to come talk some single cell with us!
Finally, we would also like to thank all of you for all the nice collaborations in 2022 and wish you all the best for 2023!
/SICOF
Dear all,
Due to the current inflation and weakness of the Swedish crown, we are unfortunately forced to adjust our pricing. We have carefully checked all of our reagents and running costs, and will provide new pricing over the next few days.
Best regards,
SICOF
In 2021, the Single cell core facility for Flemingsberg campus (SICOF) was established as a new, state of the art core facility to support the Karolinska Institutet South Campus research community. Our goal is to facilitate the use of single cell/nuclei sequencing technologies for all researchers. We offer several pipelines for single cell analysis, ranging from small scale ultra-sensitive solutions like Smart-seq2/3 sequencing up to larger scale droplet-based sequencing. For the latter, we use the solutions provided by 10x Genomics and can thus provide assistance with all of 10x Genomics’ products, including single nuclei ATAC-seq and the newly released Single Cell Multiome ATAC + Gene Expression assay. In addition to that, we also provide the opportunity to use our pipelines for drug screening experiments (Drug-seq) and other custom solutions. We aim to provide all researchers with clustered data that can be interpreted and analyzed without the need for a bioinformatician.
We are a team of six members: One administrator, one bioinformatician, three research engineers and one head of facility. Our laboratory is equipped with high-precision dispensers/handlers, such as an Agilent Bravo, a Labcyte Echo 525 and several smaller-scale dispensers. For QC of single cell libraries, we have three Agilent Bioanalyzers and an Agilent Fragment Analyzer. We perform our sequencing on our own Illumina HiSeq3000, which is also available for customers to run their own libraries.
| Hours |
Location |
|
Monday - Friday 9:00AM - 16:00PM |
NEO, Blickagången 16 Floor 7, elevator S SE-141 57 Huddinge, Sweden |
Shipping address
OBS: Do not ship samples to us without filling in a sample submission request!
Single Cell Core (SICOF) Room 7333
Karolinska Institutet | Institutionen för Medicin Huddinge
Hälsovägen 7C
Neo, plan 8
141 57 Huddinge
Tel 46 (0)8 52 48 34 18
E-mail: singlecellseq@ki.se
| Name | Role | Phone | Location | |
|---|---|---|---|---|
| Single Cell Core (SICOF) mailbox |
0706579511
|
singlecellseq@ki.se
|
Room 7333, NEO, floor 7, elevator M1
|
|
| Michael Vanlandewijck |
Head of Facility
|
michael.vanlandewijck@ki.se
|
NEO, floor 7, elevator S
|
