BioMicroCenter:Sequencing: Difference between revisions
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Illumina Sequencing is performed on a lane-by-lane basis instead of for a specific number of reads. This enables us to support a very broad spectrum of [[BioMicroCenter:Illumina_Library_Preparation|Illumina Library]] types as well as handle custom sequencing applications. <BR><BR> | Illumina Sequencing is performed on a lane-by-lane basis instead of for a specific number of reads. This enables us to support a very broad spectrum of [[BioMicroCenter:Illumina_Library_Preparation|Illumina Library]] types as well as handle custom sequencing applications. <BR><BR> | ||
== LONG READ SEQUENCING / [[BioMicroCenter:PacBio|PACBIO]] and OXFORD NANOPORE == | == LONG READ SEQUENCING / [[BioMicroCenter:PacBio|PACBIO]] and [[BioMicroCenter:Oxford_Nanopore_Technologies|OXFORD NANOPORE]] == | ||
The BioMicro Center has made significant investments in long read sequencers. The Center has access to two separate platforms: [[BioMicroCenter:PacBio|Pacific Biosciences Sequel]] and Oxford Nanopore MinION and PromethION.<BR><BR> | The BioMicro Center has made significant investments in long read sequencers. The Center has access to two separate platforms: [[BioMicroCenter:PacBio|Pacific Biosciences Sequel]] and Oxford Nanopore MinION and PromethION.<BR><BR> | ||
Revision as of 15:25, 1 June 2020
| HOME -- | SEQUENCING -- | LIBRARY PREP -- | HIGH-THROUGHPUT -- | COMPUTING -- | DATA MANAGEMENT -- | OTHER TECHNOLOGY |
The BioMicro Center provides broad support for Illumina sequencing. The Center has six high-throughput Illumina sequencers including one NovaSeq 6000, one HiSeq2000, two NextSeq500s and two MiSeqs. We support a wide variety of applications, such as ChIP-Seq, miRNA sequencing and RNA-seq. Each lane can potentially accommodate dozens of indexed samples (depending on sequence complexity and desired coverage). Read lengths vary, depending on users, between 20nt and 325nt per end.
Illumina Sequencing is performed on a lane-by-lane basis instead of for a specific number of reads. This enables us to support a very broad spectrum of Illumina Library types as well as handle custom sequencing applications.
LONG READ SEQUENCING / PACBIO and OXFORD NANOPORE
The BioMicro Center has made significant investments in long read sequencers. The Center has access to two separate platforms: Pacific Biosciences Sequel and Oxford Nanopore MinION and PromethION.
Pacific BioSciences sequencing is performed on the Sequel with v3 chemistry. PacBio requests can be made through iLabs.
Oxford Nanopore Sequencing is still a new technology in the core but we are developing expertise that may be useful to researchers on campus. The center houses the the Oxford Nanopore MinION and the Oxford Nanopore PromethION platforms. Runs on these instruments are done on a custom basis only. Contaminants known to cause issues on the Nanopores so far include: EDTA, ethanol, isopropanol, NaCl, guanidinium chloride, guanidinium isothiocyanate, and phenol.
Please email biomicro@mit.edu if you are interested in using the Oxford Nanopore platforms.
Beyond the sequencers, the BioMicro Center has additional tools that are critical to long read sequencing. These include an AATI FemtoPulse and a Sage BluePippin.
SANGER SEQUENCING
The MIT BioMicro Center *does not* support Sanger sequencing. Many third party providers exist for this method. For those who prefer to utilize core facilities instead of commercial providers, Sanger sequencing is available through the DF/HCC DNA Resource at the Dana-Farber Cancer Institute
