New Tech Note Released: Discover the Different Options of RNA Sequencing Designed for your Needs

Transcriptome sequencing is a very sensitive method to analyze coding- and non-coding RNAs of an organism, tissue, or cell culture. To guide our customer in finding the best solution for his research project or clinical study, we released our brand-new Tech Note. This Tech Note visualizes our workflow, which has been specifically designed to meet our customer’s needs.

The transcriptome comprises all RNAs, which are transcribed in an organism or cell at a certain point in time. It may be influenced by the metabolic state or by external factors, such as drugs or diseases. Depending on the experimental setup or research objective, total RNA or messenger RNA (mRNA) can be sequenced. Besides common species such as humans, rats, or mice, we can also sequence the transcriptome of plants, fungi, bacteria, viruses, insects, fish, and many more. We accept either purified RNA, tissue, or cells. Our latest Tech Note guides you through the CeGaTs Transcriptome portfolio to help you find the best solution for your project.

Coding transcriptome sequencing (CTS) to capture influences on gene expression

Only about 1-5% of the transcriptome corresponds to messenger RNA. This requires high-quality RNA from cells, plants, and fresh or frozen tissues. Polyadenylation at the 3′ end of mRNA is found in most eukaryotes and is used to separate mRNA from total RNA. This mRNA enrichment results in increased sequencing depth. Even lowly expressed or rare transcripts can be detected. Coding transcriptome sequencing is commonly used to determine gene expression and for differential gene expression analysis or the characterization of alternative splicing patterns.

Whole transcriptome sequencing (WTS) for the identification and characterization of known or novel transcripts all over the transcriptome

The entity of coding RNA plus a variety of different non-coding RNAs is comprised of total RNA. Since ribosomal RNA comprises most of the total RNA, we recommend rRNA depletion before we start with the sequencing library preparation. To achieve the best possible results, CeGaT offers different kits depending on the different sample materials. Total RNA can be obtained from blood, cells, tissue as well as fresh frozen tissue. In addition, CeGaT offers special kits that can handle FFPE-embedded tissue. The analysis of total RNA enables a genome-wide comprehensive overview of the transcriptome of an organism or cell to investigate introns, exons, or splicing mechanisms.

CeGaT´s transcriptome sequencing service offers reliable and accurate insights into RNA from extraction to data analysis. With our long-standing expertise in the diagnostic field, our clients benefit from strict quality control standards and therefore high-quality results.

All sequencing data are stored in-house and are processed in-house by our own bioinformatics unit. We offer sophisticated solutions for your needs and different options for data transfer. Our detailed project report is delivered with every sequencing order by your personal contact person at CeGaT.

For further information, please do not hesitate to contact us at rps@cegat.com.

Transcriptome Sequencing – Tech Note

Liquid Biopsies – Utilize the Potential of cfDNA with CeGaT’s New NGS-based Product Portfolio

CeGaT expands its Liquid Biopsy product portfolio with two UMI (Unique Molecular Identifier) based NGS analyses. Our broad Liquid Biopsy product portfolio offers a suitable approach for every clinical or research question. CeGaT`s LB Focus panel detects variants known to be driver mutations in 36 genes relevant to a broad spectrum of tumor entities. LB Exploratory includes the analysis of 523 genes using Illumina’s TSO500 ctDNA assay. Both products allow for highly sensitive detection of variants present in the circulating tumor DNA (ctDNA), with a sensitivity of up to 0.25% and 0.5% NAF (novel allele frequency), respectively.

The minimally invasive analysis of a tumor’s genetic profile is called liquid biopsy. The blood sample collection required for this purpose can be performed in an uncomplicated and repeatable manner. Furthermore, circulating cell-free DNA (cfDNA) has a very short half-life and, consequently, always reflects the current state of the disease. Liquid biopsies thus present an ideal way of complementing or even replacing tissue-based molecular genetic tumor diagnostics.

There are various feasible applications for the clinical use of liquid biopsies:

  • Monitoring treatment response,
  • Disease monitoring,
  • Detection of minimal residual disease after surgery,
  • Patient stratification,
  • Early detection and profiling of resistance to therapy.

The broad Liquid Biopsy product portfolio allows CeGaT to support your project optimally, independent of your clinical or research question. Benefit from the capabilities of our Liquid Biopsy product portfolio:

  • LB Target: Specific tumor variants can be tracked during therapy using digital droplet PCR (ddPCR).
  • LB Focus: The LB Focus panel allows for highly sensitive monitoring and follow-up of cancer patients during and after therapy.
  • LB Exploratory: enables comprehensive genomic profiling of the tumor and, moreover, the evaluation of key immuno-oncology biomarkers like TMB (Tumor Mutational Burden).
  • LB Flex: Using LB Flex for cfDNA analysis, you have the possibility to use a whole-exome approach or a CeGaT panel of choice.

We would be happy to discuss all options and support you in planning your clinical trial or research project. Your project will benefit from our long-standing expertise in the diagnostic field and, thus, strict quality standards, as well as practical knowledge.

For further information, please do not hesitate to contact us at rps@cegat.com.

More About Our Liquid Biopsy Product Portfolio

Watch Our Free Webinar with Hamilton Robotics: “Automating NGS Workflows for Precision Medicine-Oncology.”

The concept of precision medicine has gained a lot of attention within the last years, especially regarding cancer patients’ treatment. NGS can help to further advance the field and make a real difference for researchers, physicians, and ultimately, for patients.

The focus of this webinar is CeGaT’s experience in automating NGS workflows for personalized medicine in the field of oncology. Learn more about our motivation and approach to automating our library preparation workflows and get to know the latest trends and developments in the field of precision medicine. Using examples from practice, we will present the importance and opportunities of NGS in this context. Find out more in our webinar with Hamilton Robotics on May 6, 2021.

Speakers & content:

Dr. Elisabeth Maritschnegg, Product Manager Oncology at CeGaT GmbH

Dr. Gabriela Boza-Moran, Scientific Content Manager at Hamilton Robotics

Dr. Elisabeth Maritschnegg will describe the drivers behind the need for automating CeGaT’s NGS workflows and the benefits of their current automated systems. Moreover, she will illustrate the benefits of CeGaT’s genomic services through two case studies.

At the conclusion of the webinar, Dr. Gabriela Boza-Moran will present some of the commercial solutions that Hamilton Robotics can provide to customers using NGS in Precision Medicine-Oncology studies.

Watch our free webinar

If you have any questions, please do not hesitate to contact us at rps@cegat.com.

We would be happy to discuss all options for your clinical trial or research project. More information about the Research and Pharma Solutions portfolio can be found here.

Join Our Webinar with Hamilton Robotics: “Automating NGS Workflows for Precision Medicine-Oncology.”

The concept of precision medicine has gained a lot of attention within the last years, especially regarding cancer patients’ treatment. NGS can help to further advance the field and make a real difference for researchers, physicians, and ultimately, for patients.

We invite you to participate in CeGaT’s joint webinar with Hamilton Robotics. The webinar will focus on CeGaT’s experience in automating NGS workflows for Precision Medicine-Oncology. We will grant an insight into our motivation and approach for automating our library preparation workflows. Furthermore, we will talk about developments in the field of precision medicine. Giving practical examples, we will outline the role and possibilities of NGS in this concept. Join our free webinar on May 6, 16:00 CET.

Speakers & content:

Dr. Elisabeth Maritschnegg, Product Manager Oncology at CeGaT GmbH

Dr. Elisabeth Maritschnegg will describe the drivers behind the need for automating CeGaT’s NGS workflows and the benefits of their current automated systems. Moreover, she will illustrate the benefits of CeGaT’s genomic services through two case studies.

Dr. Gabriela Boza-Moran, Scientific Content Manager at Hamilton Robotics

At the conclusion of the webinar, Dr. Gabriela Boza-Moran will present some of the commercial solutions that Hamilton Robotics can provide to customers using NGS in Precision Medicine-Oncology studies.

If you have any questions in advance, please do not hesitate to contact us at rps@cegat.com.

We would be happy to discuss all options for your clinical trial or research project. You can find more information on the Research and Pharma Solutions portfolio here.

CeGaT Automates NGS Library Preparation for TMB and MSI Analysis

To ensure an even higher sample throughput, CeGaT has decided to automate the protocols for library preparation used for the analyses of Tumor Mutational Burden (TMB) and Microsatellite Instability (MSI). The automation of the NGS libraries allows CeGaT to perform three times the number of samples per run, while almost halving the hands-on time, as CaseStudy shows.

CeGaT is a genetic diagnostics company that is very active in the field of oncology. The company is not only involved in various clinical research projects but also offers numerous services for Next-Generation-Sequencing (NGS). Two of the most popular analyses in precision medicine oncology are the analysis of tumor mutation burden (TMB) and the analysis of microsatellite instability (MSI). The analysis of these two biomarkers is the basis of immunotherapy, which has revolutionized oncology. Biomarkers are necessary to assess the effect of treatment and support the promising development of new immunotherapy combinations.

To increase sample throughput and reproducibility of results, CeGaT has decided to automate two workflows of the next-generation sequencing (NGS) library preparation protocols used for analysis through their in-house somatic tumor and for analysis through WES. The Hamilton Liquid handling platforms provide CeGaT with the flexibility needed to develop and automate NGS’s library preparation workflow.

The automation of the workflows for NGS library preparation significantly increases the efficiency and reproducibility of the assay by

  • allowing the processing of more samples per run,
  • reducing the hands-on time and
  • reducing the probability for errors, thanks to the full traceability of the samples

Find more information in the CaseStudy.

CeGaT is currently working on further automation of new NGS-based assays for oncology and automates further NGS-based analyses in different areas of biology and life science’. For the future, CeGaT wants to expand its portfolio and automate as many methods as possible. Our goal is to provide the highest quality standards for sample analysis while remaining adaptable to the rapidly evolving NGS methods. It is crucial for us to always use the most modern technology and keep developing ourselves to offer you the most innovative and best sequencing technology in the long run and thus be the best choice for you.

Innovation is essential for us. We are continuously expanding our product portfolio to apply the latest developments in genetic diagnostics.