You can download the template for the sample sheet here. Please be as precise as possible about the samples you will submit.
Contact person is responsible for providing samples and communication of the project.
PI needs to agree with the cost and our policy for publication and data management. He will be the one to which we adress the final bill.
In paired-end sequencing the investigated DNA fragments are sequenced from both ends. This enables accurate read alignments and detection of insertion/deletion variants. Single-end sequencing only sequences the DNA fragments from one end. This can be a good choice for certain methods such as small RNA-Seq, ChIP-Seq or 3’mRNA-Seq.
Some sequencing applications need very specific cycle numbers, which are indicated in the library preparation kit. If your library is prepared at the Genomics Facility and you do not have specific needs for the cycle number, we will use the common cycle numbers for your chosen NGS technology.
The batch effect represents systematic technical differences between samples when they are processed and measured in different batches and which are unrelated to any biological variation recorded during the experiment. Sample batches should therefore be balanced by including samples from all investigated experimental groups or conditions of interest.
RNA Spike-Ins can be used as additional quality control measurements: the ERCC
RNA Spike-In Mix kit can assess the platform dynamic range and lower limit of detection. The ERCC ExFold RNA Spike-In Mixes kit can additionally assess the platform fold-change response. You can find more information in the user guide. The QIAseq miRNA Library QC Spike-In controls enable you to monitor the technical quality of the RNA isolation and cDNA synthesis and the presence of PCR inhibitors in the sample (link).
If you are isolating RNA samples or if you are preparing sequencing libraries yourself it is good practice to take a small aliquot of your sample which can be used for quality measurements prior to sequencing. In this way your precious original sample does not need to go through several freeze-thaw-cycles. Aliquots should at least contain 3.5 µl of your sample.
For the bioinformatics analysis of your data, we can align the sequenced reads to known genomes of several species, which are publicly available. For some species (like human) there are several genome assemblies available (e.g. hg19 or GRCh38) from which you can choose.
Basic bioinformatics analysis covers an initial analysis of your sequencing data which differs according to the sequencing technology. You can see an overview of the basic analysis provided by the Genomics Facility if you follow this link. Advanced bioinformatics analysis includes any analysis which goes beyond the scope of basic analysis and needs to be discussed which each client individually.
After you submit your NGS request we will evaluate the information you provided. If needed we will contact you to set up a consult meeting to further discuss your project or clarify missing information.
Please feel free to let us know your questions and problems so that we can improve this page by adding necessary clarification here.
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