{"id":2736,"date":"2020-05-21T15:18:14","date_gmt":"2020-05-21T19:18:14","guid":{"rendered":"https:\/\/www.med.unc.edu\/genomics\/?page_id=2736"},"modified":"2023-02-22T19:21:21","modified_gmt":"2023-02-23T00:21:21","slug":"illumina","status":"publish","type":"page","link":"https:\/\/www.med.unc.edu\/genomics\/technology\/illumina\/","title":{"rendered":"Illumina"},"content":{"rendered":"

Platforms Available<\/h4>\nMiSeq Platforms<\/span>
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\"SequencingThe HTSF has MiSeq Platform to cover the 20M read\/ lane study needs. It is very versatile with a\"Hiseq\" number\u00a0of\u00a0different cycle version that can standardly be run (up to paired end, 300 cycles) and can easily be manipulated to run unique or custom cycle formats. In the HTSF hands, MiSeq has been found to be more forgivable about library quality.The ability to run custom cycles and library quality flexibility, make MiSeq especially helpful with R&D library development or pilot assays. It is the workhorse for a variety of applications, including targeted gene, small genome, and amplicon sequencing, ITS and 16S metagenomics. See applications for this platform on the table below.<\/p>\n

20M reads too much? HTSF also now offers the MiSeq Nano version for minimal cost. It yields only 1M reads per lane. For example, the HTSF uses the MiSeq Nano as a standard QAQC tool for pools which are planned to be run on the NovaSeq. This small data yield is enough for us to check library and barcode quality of the libraries in the pool. But more critical to a NovaSeq, is the balance of the pool. A Nano run allows us to check the balance, rebalance as needed prior to loading the larger much more expensive platform.<\/p>\n

The below table which compares the various MiSeq Nano and MiSeq capabilities can be found in the Forms and Guides tab, Illumina as part of Illumina Platform Comparison and Specification Table<\/a>.<\/p>\n

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Illumina MiSeq System Comparison and Specifications<\/h3>\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
<\/td>\nMiSeq<\/strong><\/td>\nMiSeq<\/strong><\/td>\n<\/tr>\n
Nickname for system<\/strong><\/td>\nNano<\/strong><\/td>\nMISEQ<\/strong><\/td>\n<\/tr>\n
Platform<\/strong><\/td>\nMiSeq, Nano<\/td>\nMiSeq<\/td>\n<\/tr>\n
Flowcells processed<\/strong><\/td>\n1<\/td>\n1<\/td>\n<\/tr>\n
Depth<\/strong><\/td>\n300-500 Mb<\/td>\n0.3 \u2013 15 Gb<\/td>\n<\/tr>\n
Run time<\/strong><\/td>\n5-24 hr<\/td>\n5 \u2013 65 hr<\/td>\n<\/tr>\n
Lanes\/flowcell<\/strong><\/td>\n1<\/td>\n1<\/td>\n<\/tr>\n
Max PE Reads\/LANE<\/strong><\/td>\n2 million<\/td>\n25 million<\/td>\n<\/tr>\n
Max Clusters\/LANE<\/strong><\/td>\n1 million<\/td>\n12.5 million<\/td>\n<\/tr>\n
Read Type Format<\/strong><\/td>\nSingle or Paired End<\/td>\nSingle or Paired End<\/td>\n<\/tr>\n
Read Length Available<\/strong><\/td>\n50X, 100X, 150X, 250X, 300x<\/td>\n50X, 100X, 150X, 250X, 300x<\/td>\n<\/tr>\n
Guaranteed read #\/lane(see note below)<\/strong><\/td>\nV2 chemistry only<\/u><\/td>\n\n
    \n
  • 15M , single end, \u00a0\u00a0v3 Chemistry<\/li>\n
  • 30 M, Paired end, \u00a0\u00a0v3 Chemistry,<\/li>\n
  • 8 M, single end, \u00a0\u00a0\u00a0\u00a0\u00a0\u00a0v2 Chemistry,<\/li>\n
  • 16 M , paired end,\u00a0\u00a0\u00a0v2 Chemistry<\/li>\n<\/ul>\n<\/td>\n<\/tr>\n
Key applications<\/strong><\/td>\nSmall genome, amplicon, and targeted gene panel sequencing, confirming complex balanced pools<\/td>\nSmall genome, amplicon, and targeted gene panel sequencing, confirming complex balanced pools<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<\/div>\nNextSeq 2000<\/span>
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The NextSeq 2000 is a mid range Illumina sequencing platform. There are multiple flowcell versions which each have different data yields\/ lane.The NextSeq works well for:<\/p>\n