Complex projects require a non-standard approach that is subject to constant monitoring and adjustment in cooperation with our customers. Genomics research is a very dynamic field, which means that strategies may need change while the project is running. For this reason, we adopted the Agile Manifesto. This means that we work with adaptive planning, early delivery, continuous improvement and rapid and flexible response to change.
We are at the cutting edge of genomics technologies and our customers can benefit from the latest developments. Our solutions include genome assembly, transcriptome profiling and the bioinformatics analysis that are needed to get access to the results of your project.
With our extensive knowledge we can offer solutions that cover the whole process of going from a biological sample to a complete genome sequence. We generally use several assembly tools and compare the results to get the best possible assembly for your data. We can also integrate HiC data or genetic maps to bring your assembly to chromosome level. See the table below for some examples of what we have achieved. We always determine the BUSCO score and do additional QC analysis to ensure our genome assemblies present the optimal result.
|Species||Total assembly size (Mb)||# Genome contigs||Contig N50 (Mb)||BUSCO score (%)|
|Plant 5||1,030 (3 copies)||465||11.4||96.9|
|Fish parasite 1||40.4||40||2.8||n.a.|
If a product or process is threatened by a bacterial contamination, speedy identification of the contaminant has the highest priority. Future Genomics Technologies developed a pipeline for ultrafast (6 hrs!) and accurate (>99.5% accuracy) identification of complete bacterial genome sequences. We can also include annotation of the genes in the genome.
Regulatory agencies increasingly demand detailed characterization of transgenic cell lines or organisms that produce biological products. In order to ensure their safety, the origin and history of the cell line, cellular morphology and growth characteristics, purity of the cell line, and genetic stability should be defined.
We will de novo assemble and correct the genome sequence of the cell line, resulting in an assembly with a sequence accuracy of 99%. Optionally we offer sequencing polishing toward >99.9% using short read Illumina data. The transgene integration site, orientation and copy number are mapped at the single nucleotide level!
To get the most out of your genome assembly annotation of genomic features is important. We run the maker pipeline to annotate the genome and we can also generate the full length transcript data that allows for even better gene models.
We offer a complete workflow for RNA sequencing projects: from RNA isolation from cell pellets or tissue samples to library preparation and paired-read sequencing (Illumina NovaSeq system). Because we are also certified for ONT RNA sequencing we can also prepare cDNA or direct RNA libraries for sequencing on the nanopore platform.
We can also provide the bioinformatics services that are needed to use this data.