Postdoctoral Researcher (UCSD)

Postdoctoral Researcher (UCSD)

We are seeking a talented, highly motivated postdoctoral researcher to join the multidisciplinary team of the RCSB Protein Data Bank at UC San Diego, San Diego Supercomputer Center (SDSC).

Fast and accurate search of protein structures by 3-dimensional shape in large databases continues to be a challenge in Bioinformatics. This has been exacerbated by the recent appearance of accurate methods to predict protein structures from sequence. Those methods, when applied to existing protein sequence databases, produce numbers of structures many orders of magnitude larger than the existing experimental knowledge in the PDB database. The incumbent will research novel methods to compare macromolecular structures that are scalable to the deluge of structural data and that work at any level: domains, chains or assemblies. The ultimate aim of this project is to improve the findability of data in the PDB by building the next generation search engine for structural molecular biology.

Note, this position is reviewed annually on the basis of performance and can be renewed.


Qualifications: Ph.D. in one of the following research areas

  • Computer Science with a focus on Bioinformatics
  • Structural Bioinformatics, or related field with a focus on software development
  • Structural Biology with a focus on software development


  • Demonstrated proficiency in a high-level programming language, such as Java, Python, C++, and experience with state of the art software engineering tools.
  • Strong skills in problem solving and algorithm design are required.
  • Experience in Machine Learning/Deep Learning is desirable.
  • A background in NoSQL database technologies would be beneficial.
  • Experience in development of modern web applications, user interface design, or scientific visualization would also be a plus.
  • We expect candidates to have shown high productivity demonstrated by publications and contributions to open source software projects.
  • Excellent written and oral communication skills are required.