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Next Generation Genomics Sequencing

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Next Generation Genomics Sequencing

 

Genomic information of any organism is the focal point for genome-wide studies. The revelation of the genome has allowed scientists to identify novel genes, genetic variations, functional elements, and expression patterns across tissues in an organism. The first generation Sanger sequencing method is extensively used to sequence several genomes including that of humans.  Recent developments in genomic technology, such as Next-Generation Sequencing (NGS; http://www.genome.gov/12513162), have replaced expensive and labor intensive Sanger method. NGS involves high-throughput sequencing technologies that parallelize the sequencing process, therefore generating thousands to millions of DNA sequences in a single reaction. The cost of DNA sequencing has reduced over 1000 fold since its introduction, which has made NGS technology readily available to individual researchers.

Using NGS there is a lot of potential to study India's national diversity (of all kinds). We, at the Bangalore BioCluster (C-CAMP, NCBS, and INSTEM) have launched the NGS facility, to provide genomics service to scientists, to train researchers, and also work on national and international genomic projects.

C-CAMP's partnership for Genomics Projects.... click here
C-CAMP has also been partnering with researchers in the grant proposal as NGS technology Partner by providing letter of intent/support. Please contact for more details.

FACILITY BROCHURE

FACILITY POSTER

USER GUIDELINES

SEQUENCING SERVICE FORMS

FAQ’S – SEQUENCING

SEQUENCING WORKFLOW

DATA STORAGE AND ACCESS POLICY 

PUBLICATIONS

BIOANALYZER SERVICES

CONTACT US


 

NEXT-GENERATION GENOMICS CAPABILITIES AND SERVICES

NGS Instruments: The current capabilities of the Next Generation Genomics facility include Illumina HiSeq 1000 for long read, deep sequencing, and two bench top sequencers - Illumina MiSeq and Ion Proton for lower depth and much shorter turnaround times. In addition to these We also have Roche 454 - GS Titanium FLX / GS FLX + Pyrosequencing platform for very long reads.

 

a) Illumina - HiSeq 1000

The Illumina system uses Sequencing by Synthesis (SBS) technology to sequence DNA fragments. HiSeq1000 generates over a billion reads of 100 bases per week. This system is ideally suitable for re-sequencing of genomes, transcriptome analysis, SNP discovery and structural variation analysis, DNA-protein interaction analysis (ChIP-Seq), sequencing-based methylation analysis, small RNA, etc.

More information on this system can be found at www.illumina.com

  • Whole Genome Sequencing
  • Exome Capture & Sequencing
  • Transcriptome Sequencing
  • Small RNA Sequencing
  • ChIP Sequencing
  • Metagenome & Metatranscriptome sequencing

 

b) Illumina - MiSeq

The Illumina MiSeq system uses Sequencing by Synthesis (SBS) technology to sequence DNA fragments. MiSeq system is capable of generating upto 15 Gb data (25 million reads) per run of 600 bases in 10 hours. The system is ideally suitable for targeted gene sequencing, metagenomics, small genome sequencing, targeted gene expression, amplicon sequencing, and HLA typing.

More information on this system can be found at www.illumina.com

  • Targeted Gene Sequencing
  • Metagenomics
  • Small Genome Sequencing
  • Amplicon Sequencing
  • HLA Typing

 

c) Ion Proton

                   

The Ion Proton sequencer combines semiconductor sequencing technology with natural biochemistry to sequence DNA fragments. This sequencer is capable of generating 10 Gb data per run of 400 bases in 2-4 hours. The system is ideally suitable for de novo sequencing of whole genomes, transcriptomes, and metagenomic characterization of complex samples.

More information on Ion Proton system can be found at www.lifetechnologies.com

  • Whole Transcriptome Sequencing
  • Exome Sequencing
  • Targeted RNA Sequencing
  • Targeted DNA Sequencing

 

d) Roche 454 - GS Titanium FLX / GS FLX +

The Roche 454 Sequencer uses Pyrosequencing technology to sequence DNA fragments. The FLX + system is capable of generating greater than 1 million reads of 500-700 bases in 10 hours. The system is ideally suitable for de novo sequencing of whole genomes, transcriptomes, and metagenomic characterization of complex samples.

More information on the GS FLX + system can be found at http://454.com

  • de novo Whole Genome Sequencing
  • de novo Transcriptome Sequencing
  • Metagenome & Metatranscriptome sequencing
  • Targeted resequencing

 

Comparison of NGS platforms:

 

Features

Illumina HiSeq1000

Roche 454 GS FLX+

Illumina MiSeq

Ion Proton

Sequencing method

Sequencing by synthesis

Pyrosequencing

Sequencing by synthesis

Semiconductor sequencing technology

Read Lengths

100 bp

Up to 1 Kb

Up to 300 bp

Up to 200 bp

Data per run

Up to 300 Gb

Up to 1 Gb

15 Gb per lane

Up to 10 Gb

Run time

10 days

24 hours

8-10 hours

2 to 4 hours

Multiplexing (barcoding)

192 samples – 24 adapters & 8 lanes

192 samples – 12 adapters & 16 regions

Up to 384 samples

Up to 384 samples


 

For more information on Next Generation Genomics, please write to services@ccamp.res.in or genomics@ccamp.res.in    or   Contact our

Business Development and Project Manager, Next Generation Genomics Facility - Dr. Papri Banerjee

Ph: 080-67185052; 080-67185055

 

 

Attachment Size
NGGF Poster.pdf 804.72 KB
NGG Brochure.pdf 1.5 MB
Basic Guidelines to NGGF users.doc 60 KB