Methods and systems for in silico design

A computer-implemented method for designing a new biomolecule or to refactor an existing or previously designed biomolecule or to design a new experiment or a workflow comprising:

• using a computer program for implementing a biological computer aided design (BioCAD) comprising a non-transitory computer-readable storage medium encoded with instructions, executable by a processor, comprising:
• at least one data model;
• and
• at least one BioCAD tool;
• wherein the at least one BioCAD tool enables a user to design a new designed biomolecule or to refactor an existing or previously designed biomolecule based on the user's input of one or more components of a Part, a Device and/or a Circuit selected by the user from a database that comprises a plurality of components of existing biomolecules;
• wherein the at least one data model is operable to manage development of the new designed or refactored biomolecule using one or more databases populated with information on the components of existing biomolecules;
• and
• the computer program comprising instructions to perform an analysis of information on the components of the new designed biomolecule or refactored biomolecule;
• and
• the computer program comprising instructions to provide the user an output comprising information that enables the user to determine in silico if the new designed biomolecule or refactored molecule is satisfactory or if one or more problems are associated with the new designed or refactored biomolecule.