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Please send an email to our general address firstname.lastname@example.org and we will try to reply ASAP.
Please refer to our sanger sequencing protocol for questions about DNA and Primer concentration.
If you didn't received any notice than please check your LIMS order account to see your order status.
If there is no .zip file ready after 5 days than please contact the LGTC.
If you can't find the answer to the problem and you have tried multiple times (different setups) than please contact the LGTC or see this website for troubleshooting.
Use the LIMS system to place an order.
Each platform has its benefits and disadvantages. Please contact the LGTC to make an appointment for further options.
Always check your samples, for example on a Lab-on-a-Chip, because if rubbish goes in, rubbish will come out.
NGS data requires a lot of disk space. The raw data you will receive can be easily up to 50 Gigabytes per lane of HiSeq data. This does not include analysis files which, depending on your experiment, can double this disk space easily.
At this moment, for a small experiment, 1 Terabyte USB disks which fit in your pocket are available for under 100 euros at most multimedia stores.
For purchasing analysis hardware, it's probably better to make an appointment with us because many aspects of a project require different solutions.
There is a computer cluster that can be used for analysis. Over 100 cores and nearly 1TB of RAM can be deployed. For details please contact the LGTC.
In most cases there is none. Both terms are used to identify sequencing products. Some people refer to reads as being unaligned and tags being aligned reads. Also see our terminology page.
These terms are also used likewise to refer to an identifying piece of artificial sequence which can be used to extract different samples from a mixed dataset.
Which is best depends on your project. Generally, the latest build is considered most complete. At the LGTC we advise to use the latest available build. More information can be found at the NCBI
The first are random contigs whose exact location on the chromosome is not certain. Those are thus included separately. The second are different haplotypes, these are included as alternative alleles.
Unfortunately, for these terms there are no clear definitions. Most likely when 20X, 20 times coverage, or a depth of 20 is reported you can expect on average 20 reads covering each position in the reference.
Sometimes a coverage percentage and a depth is reported. This likely indicates how many bases of the complete genome are covered with a minimum number of reads given as the depth.
The Sequence Alignment/Map (SAM) format is a format to store alignment information. There is also a binary format (BAM) available which requires less disk space and allows faster access. See the project homepage for more information.
A large community of researchers specialized in NGS have a communication platform called Seq Anwers.
(Raw) NGS files are big. If you open such a file in Word or a spreadsheet, Windows will most likely freeze or crash. If you want to analyze the data yourself we recommend to install Linux. Besides, most free software used for NGS data analysis is especially developed for Linux.
You can book your time using the Yahoo calendar for the Fluidigm. For the LC480 there is a agenda on top of the machine to book your time.
If you cannot find the answer yourself, it is best that you contact the LGTC (email@example.com).
No, the LGTC won't provide any service for LOC (unless it is taken up in a quotation). We will give a short introduction if you are a new client to use the LOC machine. Please contact the LGTC (firstname.lastname@example.org) if you are a new user.
The LGTC makes use of the Yahoo calendar so that user can book on-line, the passwords are here.
Yes, if you think you are not able operate the LOC anymore, please contact Arnoud Schmitz and he will help you.
Please come to LGTC to discuss the problem so we can help you further.