Regulatory

Part:BBa_K4815000:Design

Designed by: Chen Xi   Group: iGEM23_NJU-China   (2023-10-10)
Revision as of 18:04, 10 October 2023 by ChenXi (Talk | contribs) (→‎Design Notes)


PYPH1 -> Pymaker generated yeast promoter High 1


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 1
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 198
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 78


Design Notes

We set out a large-scale search for raw data that can be used to train AI, and finally, we found a dataset published by a Nature article, a total of 30 million sets of core promoter sequences and expression data, the format is shown in the following figure, the randomly synthesized core promoter sequences with their expression rate represented by relative fluorescence intensity (which is described in detail in wet lab cycle in page engineering success) through high-throughput technique. The total data scale is large enough to cover all possibilities of any interaction between the 80bp core promoter and the transcription factors. We further generate sub dataset of the total data with various sample sizes to train Pymaker, and we use our best perform one to generate PYPH1. <img src='https://static.igem.wiki/teams/4815/wiki/teambanner.png'>

Source

com from the datat we use to train AI

References