The CCIB DNA Core, founded in 1995, is a well-established major research core laboratory within the Center for Computational and Integrative Biology of Massachusetts General Hospital Boston. The Facility provides a wide range of state-of-the-art services and specialized expertise in genomics, molecular biology, and laboratory automation to the greater Partners research community.
The DNA Sequencing division of the CCIB DNA Core functions both as a small-scale sequencing facility and a high-throughput center for large-scale sequencing projects. It offers solid experience in conventional Sanger DNA sequencing and DNA Fragment Analysis (Microsatellite/MLPA), and reliably provides high-quality services with rapid turnaround time and competitive pricing. In support of the ever-growing research community’s needs, the Sequencing group is now also offering cost-effective high-throughput approaches for specific Next-Generation Sequencing applications such as Complete Plasmid Sequencing and CRISPR Amplicon Sequencing.
"The 48-capillary 3730 DNA Analyzer is the Gold Standard in medium-to-high throughput genetic analysis. Use this for DNA fragment analysis applications such as microsatellites, AFLP, SNP analysis, mutation detection and traditional DNA sequencing. Get the highest quality data at a low cost per sample. This is upgradeable to 96 capillaries."
Lab contains two of these analyzers.
The Facility offers a fast and reliable automated ready-to-run DNA fragment analysis service where fluorescently labeled DNA fragments are electrophoretically separated using the ABI3730xl Genetic Analyzer for accurate sizing, consistency, and minimum run-to-run migration variations. Final data interpretation is available as an add-on service. Quality DNA sizing, allele calling, and relative quantitation is performed using the GeneMapper v4.0 analysis software package. Service is available for both individual samples and 96-well plates.
Supported DNA Fragment Analysis Applications:
- Microsatellite Analysis (short tandem repeats (STRs), variable nucleotide tandem repeats (VNTRs))
- MLPA Analysis (multiplex ligation-dependent probe amplification)
The MGH CCIB DNA Core offers massively parallel “next-generation” sequencing (NGS) services for several focused applications. We are performing Illumina-based deep sequencing. No reference sequence or sequencing primers are required. There is no need for universal tags. We offer weekly processing with a fast turnaround time and accept individual samples as well as 96-well plates. Our priority is providing the highest possible data quality at the lowest cost.
-Complete Plasmid Sequencing
Complete characterization of unknown and known plasmids, including automated sequence assembly. Detection of contaminating DNA sequences is also possible. Advantages over conventional primer walking include deep sequencing coverage, eliminating the need for primers, and faster results.
-CRISPR Amplicon Sequencing
High-throughput identification of CRISPR/Cas-induced mutations via deep sequencing of PCR amplicons. Option to multiplex is available for a more cost-effective approach. We offer highly sensitive detection levels without bias.
-Complete Amplicon Sequencing
Cost-effective sequencing of PCR amplicons. Suitable for size range from 400 bp to 15 kb. Variant calling for small amplicons is available (400-600 bp size range only).
-Viral Genome Sequencing
Complete characterization of viral genomes. User provided double-stranded DNA and cDNA are accepted as input material.
Sequencing service includes a cycle sequencing reaction using the Applied Biosystems BigDye v3.1 Cycle Sequencing Kit, purification of extension products, and fragment separation and sequence detection via capillary electrophoresis on the 96-well capillary matrix of an ABI3730xl DNA Analyzer.
Service options include:
- Individual Tube Sequencing (for purified Plasmids and PCR amplicons)
- High-Throughput Sequencing (96-well format)
- Difficult Template Sequencing
- 96-well PCR Purification