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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.
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FACILITY BROCHURE
FACILITY POSTER
SEQUENCING SERVICE FORMS
FAQ’S – SEQUENCING
SEQUENCING WORKFLOW
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OTHER GENOMICS SERVICES
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CONTACT US
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NEXT-GENERATION GENOMICS SERVICES
NGS Instruments: Currently we have two NGS systems, which generate both long and short sequence reads.
a) Illumina - HiSeq 1000
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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 http://www.illumina.com
- Whole Genome Sequencing
- Exome Capture & Sequencing
- Transcriptome Sequencing
- Small RNA Sequencing
- ChIP Sequencing
- Metagenome & Metatranscriptome sequencing
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b) Roche 454 - GS Titanium FLX / GS FLX +
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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
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Representative read lengths of shotgun libraries on Illumina HiSeq 1000 and Roche 454 GS FLX+ platform respectively.   |
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Features
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Illumina HiSeq1000
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Roche 454 GS FLX+
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Read Length(Bases)
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100bases
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400–1000 bases
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Data output per run
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250 –300Gigabases
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0.5–0.8Gigabases
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Genome Coverage
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100X coverage of 1 human genome(3 Gb)
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100X-150X coverage of 1 bacterial genome (5 Mb)
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Multiplexing(barcoding)
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192 samples –7 lanes
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12 samples -16 lanes
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NGS DATA ANALYSIS SERVICES
Within NGGF, we have established a strong Bioinformatics and Data Analysis team. This team of qualified analysts helps both with design of experimental plans for sequencing and carries out complex NGS data analyses.
List of our data analysis services
- Genome Assembly and Analyses
- Gene Prediction (de novo / Reference)
- Differential Expression Analyses
- Small RNA analyses
- Structural Genomic Variations – SNPs, indels, CNVs
- ChIP – Seq analyses and other Protein – DNA/RNA interactions
- Metagenomics & Metatranscriptomics
Expertise and Infrastructure:
- Team of Qualified Analysts offering Personalized Services and Training
- Expertise to understand and solve problems using a systems biology approach
- High Performance Servers
- High Capacity Redundant Storage System with Optional Data Security
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For more information on NGS, service request or query, please write to services at ncbs.res.in
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Dr. Malali Gowda, (malalig at ncbs.res.in)
Director, Next-Generation Genomics Facility
Centre for Cellular And Molecular Platforms
NCBS-TIFR, GKVK, Bellary Road
Bangalore 560065, India Phone: 91-80-23085105/67185105
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