University of Kansas - Associate Researcher

Updated: 2 months ago
Location: Lawrence, KANSAS


Computational Biology

Position Overview

This is a skilled position requiring knowledge and training in the area of computational biology, specifically structural modeling. The Associate Researcher will conduct research to forward the development of the structural modeling of protein interaction networks.  They will also be engaged in developing proposals for new funding sources, publishing and presenting research topics as applicable.

Job Description

(20%) Design new algorithms and implement computer software for protein docking using high-performance computing systems (clusters, multiprocessor workstations and GPUs).
(20%) Critically evaluate, adopt and refine existing modeling methods. Transfer and adopt relevant knowledge and technology from adjacent fields of science (physics, math, computer science). Develop specialized research plans for high-throughput large-scale structural modeling of protein networks.
(15%) Employ methodologies for development of software with enabled concurrent computing (CPU multithreading, General-Purpose GPU computing). Employ methodologies for development of high-quality software codes (test-driven development, S.O.L.I.D. principles).
(10%) Refactor, debug, compile, link, deploy and benchmark existing in-house (GRAMM, AACE, and TMDock) and licensed third-party (RosettaDock and ATTRACT) software codes for structural modeling of protein complexes.
(10%) Refactor, debug, compile, link, deploy and benchmark existing in-house and licensed third-party software codes for structural modeling of protein interaction networks.
(10%) Trains students and research assistants in computational biology techniques.  Provides oversight of the research staff within the lab. Coordinates data collection and screening for data verification.  Ensures that research methodology is adapted by staff.
(5%) Design new algorithms and implement computer software for structural modeling of protein cellular interaction networks.
(5%) Develops research proposals to granting agencies in collaboration with colleagues in Computational Biology program.
(5%) Writes and produces research articles and scholarly publications. Presents at meetings, seminars, conferences as applicable.

Required Qualifications

  • PhD in Biophysics, Physics, or closely related field.
  • 3 years of research experience with designing algorithms for research and structural modeling of protein interactions.
  • 3 years of experience with autoPACK software; molecular dynamic force field; and programming for GPU's (using C and C++) is also required.
  • Demonstrated knowledge of GPU architecture.

  • Preferred Qualifications


    Additional Candidate Instruction

    A complete online application includes a cover letter, resume, and contact information for three professional references.
    Application deadline is April 22, 2019. For first consideration, please apply before that date.

    Application Review Begins


    Anticipated Start Date


    Work Location

    University of Kansas - Lawrence

    Employee Class

    U-Unclassified Professional Staff

    Work Schedule

    40 hours/week

    Conditions of Employment

    Contingent on Funding


    The University of Kansas prohibits discrimination on the basis of race, color, ethnicity, religion, sex, national origin, age, ancestry, disability status as a veteran, sexual orientation, marital status, parental status, gender identity, gender expression, and genetic information in the university's programs and activities. Retaliation is also prohibited by university policy. The following persons have been designated to handle inquiries regarding the nondiscrimination policies and are the Title IX coordinators for their respective campuses: Executive Director of the Office of Institutional Opportunity & Access,, 1246 West Campus Road, Room 153A, Lawrence, KS 66045, 785-864-6414, 711 TTY 9for the Lawrence, Edwards, Parsons, Yoder, and Topeka campuses); Director, Equal Opportunity Office, Mail Stop 7004, 4330 Shawnee Mission Parkway, Fairway, KS 66205, 913-588-8011, 711 TTY (for the Wichita, Salina, and Kansas City, Kansas medical center campuses).

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