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Genomic Centre

We would like to present to you our newly established Genomic Centre, a unit providing services in the area of genetic variation analysis. We encourage you to review our offer: Next-generation sequencing and Capillary Electrophoresis.

To obtain more information about our services, request a quote or place an order, please contact us:

Prof. Wojciech Branicki

E–mail: wojciech.branicki@uj.edu.pl

Tel.: +48 12 664 61 11

Next-generation sequencing

Next-generation sequencing (NGS), also known as massively parallel or high-throughput DNA sequencing, is a term describing novel DNA sequencing technologies which have revolutionized genomic research in the last decades. Because its unprecedented speed and throughput allow us to study DNA variation on a much larger scale than ever before, NGS became an indispensable tool helping to address complex biological problems. Its role, however, is not confined to basic scientific applications any longer, for the importance of deep sequencing increases also in the fields of clinical diagnostics or forensics, ensuring thus a constant development of the technology and a growing demand for NGS services.

NGS at MCB

As a state-of-the-art life science research facility, Malopolska Centre of Biotechnology is inherently well suited to provide both academic and non-academic entities with the opportunity to exploit the benefits of the NGS technology according to their needs. Therefore, Genomics Centre at MCB – a modernly equipped unit, staffed with experienced technicians and scientists dedicated to genome variation studies - is now offering its services in the area of next-generation sequencing to all interested researchers and institutions. We believe that our expertise combined with befitting infrastructure will let us assure the best quality of rendered services and the output data.

At present, we carry out high-throughput DNA sequencing experiments utilizing two Ion Torrent platforms - PGM and Proton. We chose this semiconductor-based technology, because it allows translation of chemically encoded information – nucleobases A, C, G, T - to digital information in a direct manner (no modified nucleotides or optics are involved), hence sequencing is done faster and more cost-effectively than in any other available NGS technology. The Ion Torrent supports numerous NGS applications, including the most common, like whole transcriptome sequencing, targeted DNA/RNA sequencing, and many more.

Detailed NGS offer

  1. Whole transcriptome sequencing (RNA-Seq)
  2. Targeted human transcriptome sequencing for gene expression analysis
  3. Small RNA sequencing
  4. Targeted RNA sequencing (ready-to-use or custom panels)
  5. Exome sequencing
  6. Targeted DNA sequencing (ready-to-use or custom panels)
  7. Other

Whole transcriptome sequencing (RNA-Seq)

Used to analyze the sequence of all coding and non-coding RNAs present in a sample at a given time after removal of ribosomal RNA or poly(A) selection, it enables also the determination of relative abundance of identified RNA molecules and therefore is a perfect approach for both discovery and gene expression analysis. Unlike gene expression microarrays, RNA-Seq does not require species- or transcript-specific probes, hence it allows detection of novel transcripts, gene fusions, single nucleotide variants, indels and splice variants. Moreover, it delivers increased specificity and sensitivity, while maintaining the strand orientation, which may aid for instance in understanding of transcriptional regulation.

Input requirements: 100 ng - 1 μg of high quality total RNA (ideally RNA integrity number >7). Libraries are constructed from 10-15 ng of poly(A) RNA or 25 ng of rRNA-depleted RNA following the total RNA enrichment.

We accept also different types of biological samples (i.e. cell suspensions, tissues) for an in-house RNA extraction (for additional cost

Targeted human transcriptome sequencing for gene expression analysis

Perfect alternative to gene expression microarrays for fast and cost-effective human transcriptome sequencing. The Ion AmpliSeq Transcriptome Human Gene Expression Panel, covering >95% of human RefSeq genes (nearly 21,000 RNA targets), provides an attractive solution for researchers interested in gene-level quantification and differential gene expression analysis. The small amplicon designs enable the use of the panel with RNA isolated from fixed tissues, such as formalin fixed paraffin embedded (FFPE) samples and do not require poly(A) selection or rRNA depletion.

Input requirements: 50-100 ng of total RNA (preferably DNase-treated)

We accept also different types of biological samples (i.e. cell suspensions, tissues) for an in-house RNA extraction (for additional cost).

Small RNA sequencing

A technique used to isolate and sequence small RNA species, such as microRNA (miRNA), short-interfering RNA (siRNA), piwi-interacting RNA (piRNA) and others, with high sensitivity and dynamic range. It enables the discovery of novel sequences and analysis of differential expression of all small RNAs present in a sample. Small RNA sequencing provides a useful tool in revealing the role of non-coding RNA, studying post-transcriptional regulation of gene expression or identifying new biomarkers.

Input requirements: 300 ng - 1 μg of high quality total RNA (RNA integrity number >6) containing the small RNA fraction (10-40 nt). We recommend using mirVana miRNA Isolation Kit for RNA isolation.

We accept also different types of biological samples (i.e. cell suspensions, tissues) for an in-house RNA extraction (for additional cost).