Assistant Professorbadri1.jpg

Ph.D. in Computer Science, University of Missouri-Columbia, 2017
B.E. in Computer Engineering, Tribhuvan University, Kathmandu, Nepal, 2009

Email: adhikarib@umsl.edu

Office: 312 ESH

Phone: (314) 516-7393

Fax: (314) 516-5400

Office Hours:  T 3:00 PM – 4:00 PM (face to face)
                          F 3:00 PM - 5:00 PM (face to face)
Please email me before coming to my office hours to avoid waiting.



Publications

Personal Webpage


Main Research Interests

  • Deep learning and Bioinformatics
  • Protein inter-residue distance prediction
  • Deep learning for improving human health


Selected Research Involvements

  • Development of various tools for modeling 3D structures of proteins and chromosomes, supported by NSF and NIH.
  • Development of deep learning-based tools and methods for solving various problems in the field of protein structure prediction, supported by NSF, NIH, NVIDIA, and Google.
  • Artificial intelligence methods Autonomous Environmental Monitoring and Management, supported by NASA.
  • Machine learning methods development for collaborators in various departments at UMSL.

External Grants/Contracts
  • $163,535, National Science Foundation CISE CRII, 2020 (PI).


UM/UMSL Grants/Contracts

  • $6,450, UMSL Research Award, 2019 (PI).
  • $5,415, UMSL Research Award, 2018 (PI).


Select publications

  • Adhikari, B. A fully open-source framework for deep learning protein real-valued distances. Nature Scientific Reports10,2045–2322 (2020).
  • Adhikari, B. DEEPCON: protein contact prediction using dilated convolutional neural networks with dropout. Bioinformatics 36, 470–477 (2020).
  • Adhikari, B., Hou, J. & Cheng, J. DNCON2: improved protein contact prediction using two-level deep convolutional neural networks. Bioinformatics 34, 1466–1472 (2018).
  • Adhikari, B., Trieu, T. & Cheng, J. Chromosome3D: reconstructing three-dimensional chromosomal structures from Hi-C interaction frequency data using distance geometry simulated annealing. BMC genomics 17, 886 (2016).
  • Adhikari, B., Bhattacharya, D., Cao, R. & Cheng, J. CONFOLD: residue-residue contact-guided ab initio protein folding. Proteins: Structure, Function, and Bioinformatics 83, 1436–1449 (2015).