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Eukaryotic mRNA Sequencing De Novo Data Analysis Test

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Eukaryotic mRNA Sequencing De Novo Data Analysis Test

Short Name: mRNA De Novo Analysis

Also known as: mRNA-seq De Novo Analysis, Transcriptome De Novo Sequencing, Eukaryotic Transcriptome Analysis

Eukaryotic mRNA Sequencing De Novo Data Analysis Test test available at DNA Labs India for ₹24,000. Uses Next Generation Sequencing (NGS), De Novo Transcriptome Assembly on Extracted DNA samples. Results in Reports are typically delivered within 4 weeks from sample receipt.. Free home collection in 300+ cities across India.

Next Generation Sequencing (NGS)🏠 Home Collection

✍️ Written By

🩺 Medically Reviewed By

Dr SHAILAJA RAGHUNATH MURDESHWAR

Dr SHAILAJA RAGHUNATH MURDESHWAR

Consultant Physician · Reg: 8052

Last reviewed: September 7, 2026

Overview

The purpose of eukaryotic mRNA sequencing de novo data analysis is to determine the complete transcriptome sequence of a eukaryotic organism without a reference genome. This allows for the identification of novel transcripts, alternative splicing events, and gene fusions that may be associated with diseases. It is particularly useful in oncology for detecting fusion genes in tumors, in rare genetic disease diagnosis for identifying pathogenic splice variants, and in research for characterizing transcriptomes of non-model organisms. The analysis provides a comprehensive view of gene expression and isoform diversity, enabling a deeper understanding of disease mechanisms and potential therapeutic targets.

Test Code
6432
CPT Code
81479
ICD Code
Z01.89
Price
₹24,000
Sample Type
Extracted DNA
Result Time
Reports are typically delivered within 4 weeks from sample receipt.
Fasting Required
No
Method
Next Generation Sequencing (NGS), De Novo Transcriptome Assembly
Step 1

Sample Collection

No special preparation is required. However, if the sample is a tissue biopsy, the patient should follow the physician's instructions regarding the procedure. For blood samples, no fasting is needed.

Method: Blood or tissue sample

Step 2

Laboratory Analysis

The sample (blood or tissue) will be collected by a trained phlebotomist or clinician. For tissue samples, a biopsy procedure will be performed by a healthcare professional.

Step 3

Report Delivery

The sample will be transported to the laboratory under controlled conditions. Patients can resume normal activities immediately after sample collection.

Timeline: Reports are typically delivered within 4 weeks from sample receipt.

Patient Instructions

1
Before the Test:No special preparation is required. Inform your doctor about any medications or supplements you are taking.
2
During the Test:The sample collection is quick and minimally invasive. For blood samples, a simple venipuncture is performed.
3
After the Test:You can resume normal activities immediately. The sample will be processed in the lab, and results will be available in 4 weeks.

About This Test

Who Should Get This Test

The purpose of eukaryotic mRNA sequencing de novo data analysis is to determine the complete transcriptome sequence of a eukaryotic organism without a reference genome. This allows for the identification of novel transcripts, alternative splicing events, and gene fusions that may be associated with diseases. It is particularly useful in oncology for detecting fusion genes in tumors, in rare genetic disease diagnosis for identifying pathogenic splice variants, and in research for characterizing transcriptomes of non-model organisms. The analysis provides a comprehensive view of gene expression and isoform diversity, enabling a deeper understanding of disease mechanisms and potential therapeutic targets.

How to Prepare

  • Ensure the sample is collected in a sterile, DNAse/RNAse-free container.
  • For blood samples, use EDTA or PAXgene tubes to preserve RNA.
  • Tissue samples should be snap-frozen in liquid nitrogen or placed in RNA stabilization solution.
  • Label the sample with patient ID and collection date.
  • Transport samples on dry ice if possible.

Doctor's Notes

Reviewed by — MBBS, MD (General Medicine) · Reg. No. 8052

"De novo mRNA sequencing is invaluable for identifying fusion transcripts and novel isoforms in cancers without a reference genome, aiding in personalized treatment decisions."

Last medically reviewed: September 7, 2026

Test Parameters & Specifications

Sample TypeExtracted DNA
Sample Volume1-2 µg
ContainerEppendorf tube (DNAse/RNAse free)
Collection MethodBlood or tissue sample

Sample Stability

Blood in PAXgene tube: 3 days at room temperature, 5 days at 4°C
Tissue in RNA later: 1 week at room temperature, 1 month at 4°C
Extracted RNA: 1 month at -80°C
Sample Rejection Criteria:
  • Hemolyzed blood samples
  • RNA degraded (RIN < 7)
  • Insufficient sample quantity
  • Improper storage or transport conditions
  • Sample not labeled correctly

Understanding Your Results

The de novo mRNA sequencing analysis provides a comprehensive transcriptome assembly. The results are interpreted by clinical geneticists and bioinformaticians to identify novel transcripts, splice variants, and potential disease-associated mutations. The report includes quality metrics, assembled transcript sequences, and annotations.
📊

Indicates a robust transcriptome assembly suitable for downstream analysis.

📊

May represent a previously uncharacterized isoform or gene; further validation is recommended.

📊

Suggests a potential oncogenic fusion; clinical correlation with tumor type is advised.

📊

May indicate disease involvement; functional studies are needed.

📊

Assembly may be incomplete; consider deeper sequencing or improved assembly parameters.

⚠️ When to Consult a Doctor:

If the analysis reveals clinically significant variants, it is recommended to consult with a genetic counselor or the referring physician to discuss implications for diagnosis, treatment, or family planning.

Limitations

  • ⚠De novo assembly may miss lowly expressed transcripts
  • ⚠Requires high sequencing depth for accurate assembly
  • ⚠Bioinformatics analysis is complex and may require expert interpretation
  • ⚠Not suitable for organisms with very large genomes without sufficient coverage
  • ⚠Results may not be directly comparable across different assembly pipelines

Risks & Considerations

  • ●Minimal risk of bruising or infection at the blood draw site
  • ●For tissue biopsy, there is a small risk of bleeding or infection, which will be explained by the physician

Interfering Factors

  • ●RNA degradation due to improper sample handling
  • ●Contamination with genomic DNA
  • ●Low RNA quality (RIN < 7)
  • ●Insufficient sequencing depth
  • ●Presence of highly repetitive sequences
  • ●PCR duplicates during library preparation

Compare With Similar Tests

TestEukaryotic mRNA Sequencing De Novo Data Analysis
ComparisonEukaryotic mRNA Sequencing De Novo Data Analysis

Frequently Asked Questions

What is eukaryotic mRNA sequencing de novo data analysis?
It is a technique to sequence mRNA from eukaryotic cells and assemble the transcriptome without a reference genome, allowing discovery of novel transcripts and splice variants.
What is the cost of this test at DNA Labs India?
The cost is INR 24000, which includes bioinformatics analysis and report interpretation.
What sample type is required?
Extracted DNA is the sample type, but typically RNA is extracted from blood or tissue samples. The lab will guide you on the specific requirements.
How long does it take to get results?
The turnaround time is 4 weeks from sample receipt.
Is home sample collection available?
Yes, we offer free home sample collection for online bookings across major cities in India.
What is the difference between de novo and reference-based analysis?
De novo analysis assembles transcripts without a reference genome, while reference-based analysis aligns reads to a known genome. De novo is useful for non-model organisms and novel transcript discovery.
Can this test detect cancer-related fusion genes?
Yes, de novo mRNA sequencing can identify fusion transcripts that may be associated with cancer.
Is fasting required before the test?
No, fasting is not required for this test.
What is the sample volume needed?
Typically 1-2 µg of extracted RNA is required, but the lab will provide specific instructions.
Are there any risks associated with the test?
The risks are minimal, mainly related to blood draw or biopsy procedures. Your physician will explain them.
How should the sample be stored before shipping?
Blood samples should be stored in PAXgene tubes at room temperature for up to 3 days. Tissue samples should be placed in RNA stabilization solution and stored at 4°C.
Will my insurance cover this test?
Insurance coverage varies. We recommend checking with your insurance provider. We also offer cashless options for some schemes.
Worried about the process? Our certified phlebotomists collect thousands of samples every month across India. The process takes under 5 minutes and is virtually painless. Questions? Message us on WhatsApp — we're here 7 days a week.

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