Connecting the Genome to gene Function
The transcriptome is defined as the entirety of all RNAs present in a specific tissue at a distinct time point. Their presence and abundance correspond to the current metabolic state of the cells and is affected by external and internal changes. Sequencing the transcriptome allows the detection and relative quantification of RNA molecules. Application areas and objectives for transcriptome sequencing in the scientific field are diverse and range from the analysis of differential gene expression to the detection of alternative splicing and previously unknown transcripts.
Transcriptome sequencing is carried out in basic research as well as in applied clinical research. We offer whole transcriptome sequencing (WTS), as well as sequencing of the coding transcriptome (CTS) or flexible solutions (TS).
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.
Turnaround time
Sequencing data are delivered within 15 – 20 working days.
A fast track option is available upon request.
The turnaround time (TAT) highly depends on the quality of the provided RNA and the requested bioinformatics level.
Delivery
Your sequencing data will be available for download from our server.
Upon request, as well as for large sample batches, data can also be delivered via external hard drive, or upload to your own server.
Storage
The original samples and, if applicable, the isolated nucleic acids will be stored at CeGaT for a period of 3 months after data delivery.
Your data will be stored for 5 months.
EXPLORE OUR TRANSCRIPTOME SEQUENCING PRODUCT PORTFOLIO
CTS Classic
RNA Target
mRNA
Species
Mammalians, eukaryotes
RNA quality & input
RIN > 8
Sequencing technology
Illumina
Output
6 Gb (30 M clusters)
Deliverables
Project report + FASTQ files
WTS Classic
RNA Target
total RNA
Species
Human, mouse, rat
RNA quality & input
Various quality
Low input option
Sequencing technology
Illumina
Output
6 Gb (30 M clusters)
Deliverables
Project report + FASTQ files
WTS Classic Deep
RNA Target
total RNA
Species
Human, mouse, rat
RNA quality & input
Various quality
Low input option
Sequencing technology
Illumina
Output
10 Gb (50 M clusters)
Deliverables
Project report + FASTQ files
TS Flex
RNA Target
mRNA, total RNA
Species
Eukaryotes (among them plants and fungi), procaryotes
RNA quality & input
Depends on chosen protocol
Sequencing technology
Illumina
Output
Flexible
Deliverables
Project report + FASTQ files
CTS: Coding Transcriptome Sequencing, WTS: Whole Transcriptome Sequencing, TS: Transcriptome Sequencing
Bioinformatics
Raw sequencing data are automatically processed in order to facilitate immediate genetic evaluation. Included in delivery are demultiplexed and adapter trimmed FASTQ files. Further bioinformatic options are available:
- Alignment of trimmed sequencing data (BAM format)
- Normalization (DESeq2, FPKM)
- Quantitative expression profiles (TSV format)
- Differential gene expression (TSV format)
- Group comparisons (minimum three replicates per group)
- Gene ontology annotation
- Heat map of most differentially expressed genes
- MA plots
Technical Information
At CeGaT, paired-end sequencing (2 x 100 bp) is performed using state-of-the-art Illumina NovaSeq 6000 Sequencing Systems.
If you require sequencing parameters other than those presented in our product portfolio, please let us know! We can provide further solutions.
Contact Us
Start Your Project Now
We are happy to discuss sequencing options and to find a solution specifically tailored to your clinical study or research project.
When getting in contact, please specify sample information including starting material, number of samples, preferred library prep option, preferred sequencing depth and required bioinformatics, if possible.
Further Reading
