GENOMICS

FACILITY

We offer R&D service for genomic related study for faculties and students of colleges and Universities. We have a well-established Genomic facility, and well-experienced faculties (both in India and abroad) as consultants. We will provide consultations and our facility for nominal fee. We will perform genomic studies on request or collaborative or mutual understanding.

I.  Whole Genome Sequencing

 

1. To sequence the complete DNA of an organism. De novo sequencing refers to sequencing a novel genome where there is no reference sequence available for alignment and provides excellent resources for understanding a species.

2. To understand individual variations in the genome, such as single nucleotide polymorphism (SNP), copy number variation (CNV), and structural variation (SV), such as deletions, inversions, or translocations

3. Sequencing platforms:

  • HiSeq2500/4000, NovaSeq 6000

  • NextSeq 500, MiSeq

  • PacBio RS II, PacBio Sequel

4. Data Analysis: De novo Sequencing

Standard data analysis: Consensus sequence assembled into contigs

Advanced data analysis: Gene predictions and annotations

 

II. Exome/Targeted Sequencing

1. Human exome sequencing is the selective sequencing of protein-coding regions of the human genome. We offer extensive data filtering and mapping for accurate SNP and InDel determinations.

2. Sequencing platforms:

HiSeq2500/4000, NovaSeq 6000

NextSeq 500, MiSeq

3. Data analysis: Exome Sequencing

Standard data analysis: Variant calling (SNPs/InDels) & Annotation

Advanced data analysis: CNV (Copy number Variation), various Variant calling pipeline,     Cancer analysis/Family analysis/ Population analysis

 

III. Transcriptome Sequencing

  1. To understand genome information for whole mRNA transcript expression analysis, enabling novel gene discovery, identification of novel SNP AND InDel, novel splice variant and chromosomal rearrangement discovery and identification of genes.

  2. Sequencing platforms: Hi seq 2500/4000, NovaSeq 6000, NextSeq 500

  3. Data Analysis: De Novo Sequencing

  4. Standard data analysis: De novo assembly statistics, Gene expression profile

 

IV. Small RNA Sequencing

1. Small RNA molecules encoded from genomes are responsible for regulating the gene expression. We offer the services to sequence and quantify all the small RNA familes in a sample and profile the miRNA, siRNA, piRNA and other non-coding RNAs

2. Data Analysis: Small RNA Sequencing​

  • Standard data analysis: Expression profiles, Novel miRNA, Differentially expressed miRNA
  • Advanced data analysis: Target predictions of known and Novel miRNA, Gene set analysis, Comparative analysis.

V. Metagenome Sequencing

To understand the profiling complex of microbial communities. For many bacterial species of interest, various strains have been sequenced. These reference strains are attractive subjects in genetic engineering, as derived strains can easily be compared at the genomic level against parental strain using NGS techniques.

a. Amplicon Metagenomic Sequencing

To identify of microorganism diversity in a specific environment

Sequencing types &platforms:

16s rDNA sequencing using MiSeq system, V3 to V4 regions, Customized regions

Full length 16s RNA Sequencing on PacBio RS II

18S r DNA / ITS Sequencing

b. Shotgun Metagenomics Sequencing

It is a relatively new environmental sequencing approach used to examine thousands of organisms in parallel and comprehensively sample all genes, providing insight into community biodiversity and function. Shotgun sequencing allows for the detection of low abundance members of microbial communities.

Data Analysis:

  • Amplicon Metagenome Sequencing

Standard data analysis: Community diversity analysis (OTU), Probiotics analysis

Advanced data analysis: Phylogenetic Tree, Hierarchical Taxonomy graph, Heatmap, PCA

  • Amplicon shotgun Sequencing

Standard data analysis: Assembly, Gene predictions and annotations, and Taxonomy analysis

 

VI. Short-term training on Genetic Engineering techniques

We impart training on Genomic data analysis training to persons according to their research and academic needs.