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mackerell-lab

Our lab's coding home for sharing and distributing scripts/projects.

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The MacKerell Group

Welcome to the MacKerell Group Github. If you are a collaborator, please browse through and feel free to reach out to Alex or Anmol for any access to repositories.

Important Links

Home Website: https://mackerell.umaryland.edu

Recent Papers: “Deep Neural Network Model to Predict the Electrostatic Parameters in the Polarizable Classical Drude Oscillator Force Field” https://pubs.acs.org/doi/10.1021/acs.jctc.1c01166

“SILCS-RNA: Toward a Structure-Based Drug Design Approach for Targeting RNAs with Small Molecules” https://pubs.acs.org/doi/10.1021/acs.jctc.2c00381

“In silico identification of a β2-adrenoceptor allosteric site that selectively augments canonical β2AR-Gs signaling and function” https://www.pnas.org/doi/10.1073/pnas.2214024119

Current Roster

Name Email Title Degree
Dr. Alexander MacKerell Jr. alex@outerbanks.umaryland.edu Professor Ph.D. Biochemistry, Rutgers University
Dr. Wenbo Yu wenbo@outerbanks.umaryland.edu Research Assistant Professor Ph.D. Condensed Matter Physics, Hefei National Laboratory for Physical Sciences at the Microscale
Dr. Anmol Kumar anmol@outerbanks.umaryland.edu Post-Doc Ph.D. Computational Chemistry, IIT Kanpur, India
Dr. Mingtian Zhao zhaomt@outerbanks.umaryland.edu Post-Doc Ph.D. Condensed Matter Physics, Nankai University
Dr. Asuka Orr asukaorr@outerbanks.umaryland.edu Post-Doc Ph.D. Chemical Engineering, Texas A & M University
Dr. Anastasia Croitoru anac@outerbanks.umaryland.edu Post-Doc Ph.D. Development of Force Field Methods, CNRS - Ecole Polytechnique
Dr. Yingling Nan ynan@outerbanks.umaryland.edu Post-Doc Ph.D. Civil and Environmental Engineering, University of Alberta
Dr. Prabin Baral pbaral@outerbanks.umaryland.edu Post-Doc Ph.D. Computational Biophysics, Florida International University
Dr. Erik Nordquist enord@outerbanks.umaryland.edu Post-Doc Ph.D. Computational Biophysics, University of Massachusetts Amherst
Suliman Sharif sulstice@outerbanks.umaryland.edu Graduate Student MSc. Organic Chemistry

Our Lab:

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Statistics:

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  1. SILCS-MC-Chem-Sci-2021 SILCS-MC-Chem-Sci-2021 Public

    2

  2. Open-Source-Data-Template Open-Source-Data-Template Public

    A template for open sourcing your data a long with your paper.

    2 2

Repositories

Showing 10 of 20 repositories
  • FDA-compounds-SILCS-Hotspots-SI Public

    SI data repository for the SILCS-Hotspots / druggable sites paper

    mackerell-lab/FDA-compounds-SILCS-Hotspots-SI’s past year of commit activity
    0 0 0 0 Updated Jul 9, 2024
  • silcsmc-gpu-example Public

    Input example for SILCS-MC simulations using the GPU version of the SILCS-MC program

    mackerell-lab/silcsmc-gpu-example’s past year of commit activity
    Batchfile 0 0 0 0 Updated Jul 1, 2024
  • polli-solubility Public

    Drug solubility differential equation solvers

    mackerell-lab/polli-solubility’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Jun 30, 2024
  • Open-Source-Data-Template Public

    A template for open sourcing your data a long with your paper.

    mackerell-lab/Open-Source-Data-Template’s past year of commit activity
    2 MIT 2 0 0 Updated May 24, 2024
  • mackerell-lab/ion_model_compound_Zmatrices’s past year of commit activity
    0 0 0 0 Updated Dec 18, 2023
  • .github Public

    Our Github Organization Profile

    mackerell-lab/.github’s past year of commit activity
    1 MIT 0 0 0 Updated Dec 18, 2023
  • SILCS_AI_Permeability_2023 Public

    Combining SILCS and Artificial Intelligence for High-Throughput Prediction of Drug Molecule Passive Permeability Data

    mackerell-lab/SILCS_AI_Permeability_2023’s past year of commit activity
    2 BSD-2-Clause 1 0 0 Updated Jul 26, 2023
  • mackerell-lab/CharmmResidueNames’s past year of commit activity
    0 0 2 0 Updated Jul 8, 2023
  • GCMC_PME Public Forked from aakognole/rna-mg-predictor

    Prediction of ion binding sites using oscillating chemical potential GCMC.

    mackerell-lab/GCMC_PME’s past year of commit activity
    Shell 0 GPL-3.0 1 0 0 Updated Apr 7, 2023
  • mackerell-lab/SILCS-FragMaps-hnRP-A18’s past year of commit activity
    0 0 0 0 Updated Jan 29, 2023

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