Senior Investigator/ Investigator, Platform

Posted: Apr. 22, 2020


Silicon Therapeutics (“SITX”) is a privately held, physics-driven integrated drug discovery company in the preclinical IND stage targeting innate immunity to start, but with the capability to move into many other franchise opportunities. The Company’s initial pipeline is focused on modulation of the innate immune system to “light the spark” within immunologically cold tumors by using its physics-enabled drug discovery engine for the design of small molecule therapeutics and the lead program is in late stage preclinical studies. SITX’s discovery efforts as well as physics-based platform are all completely in-house, with a full wet lab as well as a team of over 25 experienced R&D professionals spanning biology, biochemistry, chemistry, biophysics (NMR + X-ray) & preclinical sciences. SITX’s engine leverages quantum mechanics and molecular dynamics, which are deployed on its own internal supercomputer composed of over 400 GPU’s and FPGA’s and allows SITX to accurately simulate the physical motion and properties of biological targets at an atomistic level resolution. The platform is completely proprietary to SITX and was built from the ground up with the purpose of addressing difficult targets and using simulations to break through bottlenecks that has plagued traditional drug discovery approaches on such targets. It is currently the ONLY company which owns the entire spectrum of physics-driven drug discovery from chip-to-clinic with a team of over 40 individuals in Boston.

The Company’s initial focus in on innate immunity and its pipeline is currently composed of one project entering IND-enabling studies, another one entering hit-to-lead and two more ramping up. It’s unique advantage in designing small molecules using all atom simulations has allowed it to ad-vance a systemically available small molecule STING agonist into a preclinical development. The program is ramping up for IND enabling studies entry to the clinic in 2020. This differentiated product can be administered systemically via an IV dose and has single agent effects in early mouse efficacy studies using PD1 resistant tumor models and is a “rule-of-5” compliant small molecule. Beyond this one program, the Company is also advancing an ADAR inhibitor which can be considered an innate immune checkpoint as well as a multitude of targets that explore Innate Immunity’s role in cancer biology.

Job Summary

Silicon Therapeutics is seeking a highly motivated Investigator or Senior Investigator to work in a multi-disciplinary organization with a focus on overcoming challenging drug discovery bottlenecks using physics-based simulation methods. This position has a focus on the application of quantum mechanical (QM) methods to small molecule drug discovery problems. 

Job Responsibilities

  • Develop and implement novel computational methods to address critical drug discovery needs
  • Work closely with our drug discovery team to understand project needs
  • Write scripts and workflows to streamline drug discovery efforts
  • Build software infrastructure to support platform development
  • Investigate the latest trends in scientific methods 
  • Implement and maintain software engineering best practices
  • Ensure scalability, extensibility, and portability of platform code


  • Ph.D. in computational chemistry, physical chemistry, chemical physics, or related fields
  • Significant experience developing QM-based methods and working with QM code
  • Extensive programming experience (Python and C/C++ preferred)
  • Advanced knowledge of scientific algorithm development
  • Broad experience with statistical mechanics and thermodynamics
  • Peer-reviewed publications in relevant areas and/or demonstrated success in related development projects 

Additional Qualifications

  • Highly motivated to develop physics-based methods for discovering better medicines
  • Ability to manage outsourced software development projects
  • Experience with parallel programming, especially data-parallel, using MPI, OpenMP, OpenACC or CUDA C/C++/Fortran
  • Experience working with containers
  • Ability to manage HPC clusters (CPU and GPU based)
  • Experience in using/deploying workflow frameworks such as Airflow, CWL, etc. 
  • Experience with scientific computing systems and schedulers

Silicon Therapeutics provides equal employment opportunities to all employees and applicants for employment and prohibits discrimination and harassment of any type without regard to race, color, religion, age, sex, national origin, disability status, genetics, protected veteran status, sexual orientation, gender identity or expression, or any other characteristic protected by federal, state or local laws.