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Up Directory CCL 22.03.30 RNA Bioinformatics & Computational Chemist, PharmCADD
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Date: Wed Mar 30 10:46:00 2022
Subject: 22.03.30 RNA Bioinformatics & Computational Chemist, PharmCADD
Job Summary
PharmCADD is seeking highly motivated computational RNA scientists with 
strong expertise in broad areas of RNA modeling including prediction of 
secondary and tertiary structures, sequence optimization, designing RNAs 
as therapeutic agents themselves, target identification, designing 
small-molecule candidates targeting RNAs and free energy calculations 
using classical and quantum mechanical approaches. The successful 
candidates will participate in multiple projects focused on PharmCADDs 
RNA therapeutics platform, PharmVACTM. 

Job Descriptions
Position 1: RNA Bioinformatics Scientist
- Hands-on experiences with strong publication record in using RNA 
secondary and tertiary structure prediction methods (for example, 
Rosetta, MC-fold, ViennaRNA, etc.)

- Ability to apply current RNA modeling approaches and AI-based methods 
to predict large RNA structures

- Experience with RNA sequence optimization approaches for vaccine 

Position 2: RNA Computational Chemist (Free energy calculations)
In this role, the candidate will work on studying the thermodynamics of 
RNAs and their complexes with ligand and proteins

- Extensive experience with RNA modeling, molecular dynamics (MD) 
simulations and RNA force field development and validation approaches

- Quantum mechanical calculations of RNAs and its complexes

- Proven knowledge of free energy calculations and enhanced sampling 
methods such as umbrella sampling, metadynamics, accelerated MD, steered 
MD, scaled-MD, etc.

- Candidate is required to have experience with working on massively 
parallel supercomputing architecture

- Intermediate level of coding skills in Python, R and shell scripting

- Familiar with different computational chemistry packages and platforms

Position 3: RNA Computational Chemist (RNA design and small molecule identification)
In this role, the candidate will work on designing synthetic RNAs that 
can be used as a therapeutic, RNA target identification and identifying 
small-molecule hits targeting RNAs
- Solid understanding of RNA structural elements and RNA medicinal 

- Experience with molecular dynamics (MD) simulations, free energy 
calculations and high-throughput quantum mechanical calculations of 
RNA-ligand complexes

- Structure-based and ligand-based approaches of drug designing

- Experience with molecular docking and pharmacophore-based approaches 
for hit identification

- Experience with virtual library design

- Sound computational chemistry knowledge for lead optimization

- Candidate is required to have experience with working on massively 
parallel supercomputing architecture

- Intermediate level of coding skills in Python, R and shell scripting

- Familiar with different computational chemistry packages and platforms  

General Qualifications for Position 1,2,3 :
1. Ph.D.s degree with 0-4 years of experience in a related field 
(Computational Chemistry, Computational Biophysics, Computational 
Medicinal Chemistry, Bioinformatics, etc.)

2. Strong publication record in the field of RNA computational chemistry

3. Ability to communicate technical information and scientific concepts 
in a clear manner

4. Prepare timely reports, presentations

Position 4: Data Scientist  RNA team
In this role, the candidate will work closely with Domain experts to 
generate various Deep learning/machine learning models to support 
on-going research and to establish deep learning models for RNA Structure 
prediction and also RNA-small molecule interactions. 

- Strong coding skills in Python producing maintainable code with good 
engineering practices, e.g. unit testing, environment and package 

- Experience in Machine Learning toolkits (TensorFlow, PyTorch)

- Sound knowledge in NLP is a must

- Experience and good working knowledge of cloud platform data science 
offerings from AWS and/or GCP

- Excellent communication, team work and a results-oriented attitude

- Relevant professional experience with a proven track record in AI/ML 
model development and deployment 

- Familiarity with use of database systems and their querying (e.g. SQL, 
NoSQL, graph) in bioinformatics/data science applications

- Demonstrated experience in the use of many bioinformatics tools 
relating to genomic (DNA/RNA) sequence analysis (will be an added 

- Advanced skills in R, Python and Shell

- Basic knowledge of quantum computing will be a plus.

- Knowledge of CUDA programming is a plus. 

Salary and benefit
- PharmCADD offers an industry leading competitive compensation package.

- Salary will be commensurate with track record and job experience level.

- Benefit package includes paid holidays, health insurance, stock option, 
company supported retirement plan, and housing support.
Application Procedure
- Send your application to with a cover letter including 
your motivation and qualification for the applied position 

- Attach a recent CV with a full list of publications and patents

- Send separate application packages for each position that you are 
applying for.

- Website:

- Application due date: 30th SEP 2022
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Modified: Wed Mar 30 14:46:00 2022 GMT
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