Low Pass Whole Genome Sequencing (LP-WGS)

Low Pass Whole Genome Sequencing (LP-WGS) enables affordable, genome-wide screening to detect genetic abnormalities and structural variations with high accuracy.

Understanding of Low Pass Whole Genome Sequencing

Low Pass Whole Genome Sequencing (LP-WGS) is an innovative genomic technique that allows for the sequencing of the entire genome at a lower coverage depth, making it a more cost-effective choice compared to traditional high-coverage methods. Even though the coverage is reduced, LP-WGS still offers valuable insights into genetic variations like single nucleotide polymorphisms (SNPs), copy number variations (CNVs), and structural variants. This makes it a powerful tool in various areas, including disease research, population genomics, and personalized medicine. At Genovation Diagnostics Pvt Ltd., we utilize LP-WGS technology to provide precise, scalable, and affordable genomic solutions, helping to improve diagnostic accuracy and advance the field of precision medicine.

What is Low Pass Whole Genome Sequencing (LP-WGS)?

Low Pass Whole Genome Sequencing, or LP-WGS, is a method that sequences the entire genome at a lower coverage level, typically between 0.1x and 5x. In contrast to high-depth WGS, which usually operates at around 30x coverage, LP-WGS aims for broad genome coverage without the need for deep sequencing. It utilizes powerful imputation algorithms to accurately predict genotypes that may not be directly observed.

This approach is efficient and cost-effective for detecting common variants, structural variations, and copy number changes—making it an ideal option for large-scale genetic research.

The Technology Behind Low Pass Whole Genome Sequencing:

Low Pass Whole Genome Sequencing involves the following steps:

DNA Extraction: Genomic DNA is taken from a sample, most often blood or saliva. It’s crucial that the DNA is of high quality to ensure you get the best sequencing results possible.
Library Preparation: After extracting the DNA, it’s fragmented into smaller bits, and we create a sequencing library. We then attach specialized adapters to these fragments, ensuring that any contaminating DNA or impurities are eliminated during the preparation stage.
Sequencing: By utilizing next-generation sequencing (NGS) technology, we sequence the prepared library to extract short DNA sequences. This is where the “low pass” characteristic appears—the sequencing depth is usually restricted to a lower coverage, around 1x to 10x.
Data Analysis: To identify variants, we start by processing the raw sequencing data and aligning it to a reference genome. This involves using statistical models and bioinformatics tools to interpret the sequence data, with a focus on common genetic variants, structural variations, and other significant genetic features.
Variant Annotation: Once the data is thoroughly analyzed, we identify and annotate several variants—such as single nucleotide polymorphisms (SNPs), insertions, deletions, and copy number variations (CNVs). This valuable information allows us to interpret an individual’s genetic predisposition to a range of traits, conditions, or diseases.

Features of Genovation’s LP-WGS Services

Genome-Wide Analysis: Capture data across the full genome instead of focusing on specific regions, increasing the scope of discovery.
Cost-Effective Solution: This method is much more affordable than high-coverage whole genome sequencing, making it an excellent choice for extensive cohort studies and large-scale population projects.
High Imputation Accuracy: By combining LP-WGS with sophisticated genotype imputation algorithms, you can achieve data quality that rivals SNP arrays and often exceeds it.
Advanced Bioinformatics Support: Our bioinformatics platform is designed to streamline high-resolution variant calling, CNV detection, and structural variant prediction, offering you thorough analysis support every step of the way.
Scalable for Population Studies: From dozens to thousands of samples, our platform is optimized for scalability without compromising data quality or turnaround time.
Customizable Output Formats: Receive your data in multiple formats (VCF, BAM, FASTQ, annotated reports) depending on your downstream needs.

Why Choose Genovation Diagnostic Pvt. Ltd. for LP-WGS?

Genovation Diagnostic Pvt. Ltd. is one of India’s emerging leaders in genomics and precision diagnostics. Our LP-WGS service offering is built on a foundation of NGS technology, expert-driven pipelines, and stringent quality control protocols. Here’s why top researchers and organizations trust us:

Expertise You Can Rely On

Our dedicated team of genomic scientists, bioinformaticians, and clinicians brings a wealth of experience in genome sequencing and analysis. We’re here to support you with everything from project design to interpretation, ensuring you have comprehensive technical assistance at every stage.

Sequencing Infrastructure

Our approach involves using Illumina® and various high-fidelity NGS platforms that are designed to deliver high-quality reads, ensuring we meet the industry standards for coverage and base accuracy.

Rigorous QC & Data Integrity

Our rigorous quality control guarantees that every phase, from library preparation to variant calling, adheres to the highest scientific standards. You can have complete confidence in the integrity of your genomic data.

Fast Turnaround Time

Speed matters. With our optimized workflows, we deliver processed and imputed data in record time — without sacrificing accuracy.

Clinical-Grade Reporting

For those in the clinical field, we offer optional quality reporting and interpretation of medically relevant variants, ensuring everything aligns with CLIA/CAP standards and is supervised by professionals.

Our LP-WGS Workflow at Genovation Diagnostic Pvt. Ltd.

Step 1: Sample Collection & QC

High-quality DNA is extracted and validated using standardized protocols.

Step 2: Library Preparation

DNA is fragmented and barcoded using Illumina-compatible kits for multiplexed sequencing.

Step 3: Sequencing Run

Libraries are sequenced on state-of-the-art platforms to achieve target low-pass coverage.

Step 4: Data Pre-processing

Raw data is filtered, mapped to the human reference genome, and quality-checked.

Step 5: Genotype Imputation

Using advanced algorithms, missing variants are inferred to reconstruct the complete genotypic profile.

Step 6: Variant Calling & Annotation

SNPs, INDELs, CNVs, and SVs are identified and annotated using up-to-date public and clinical databases.

Step 7: Reporting & Delivery

Final data and reports are delivered securely to clients in desired formats.

Data Security & Confidentiality

At Genovation Diagnostic Pvt. Ltd., we truly recognize how crucial it is to safeguard genomic data. That’s why our systems are fully compliant with HIPAA, GDPR, and Indian data protection regulations. We ensure that all client data is securely stored in encrypted environments with controlled access and multiple backups, so you can trust in the integrity and confidentiality of your information.

Are you looking into genetic diversity across different populations, trying to identify biomarkers for drug responses, or wanting to save on sequencing costs while still ensuring top-notch data quality? If so, then Low Pass Whole Genome Sequencing by Genovation Diagnostic Pvt. Ltd. is just the solution you’ve been searching for.