Bio Research Writer – Your AI Assistant for Scientific Writing

Protein-Ligand
Protein-Protein
Protein-DNA
Protein-RNA
    • Overview:
       Bio Research Writer is an automated tool designed to assist researchers in writing key sections of their scientific papers, including Materials & Methods, Results, and Discussion. The tool simplifies the writing process by extracting relevant data from user inputs and generating structured content based on computational analysis.
    • How It Works: Researchers provide the necessary inputs, including:

      • Protein Accession Number for automatic retrieval of protein information.

      • Upload PDB Complex File (Protein-Ligand, Protein-Protein , Protein-DNA, or Protein-RNA) for structural analysis.

      • Binding Score, RMSD, and Binding Residues for interaction assessment.

      • Custom Notes for additional details researchers want to include.

      • Image Upload for screenshots or extracted structural data.

    • The tool then processes this data to:

      • Analyze binding interactions and functional impact.

      • Identify affected domains and their biological roles.

      • Determine whether interactions cause inhibition or activation.

      • Generate structured text for each section of the research paper.

      • Provide statistical analysis of the binding interactions

    • Features:

      • 3D Protein Viewer: Allows researchers to visualize the structure, manipulate views, and capture images.

      • Auto-Fill Data: Retrieves relevant information from databases for accuracy and efficiency.

      • Customizable Sections: Users can edit generated content before finalizing their document.

    • Who Can Use It? Bio Research Writer is designed for bioinformatics researchers, molecular biologists, and computational chemists looking to streamline the documentation of their research findings.
    • Features of Bio Research Writer
    • Binding Interaction Analysis:

      • Extracts binding residues from the uploaded PDB complex.

      • Determines the effect of binding on protein function, including inhibition, activation, or allosteric modulation

    • Domain and Functional Impact Identification:

      • Detects interaction sites within functional domains.

      • Analyzes structural and functional consequences of ligand or protein binding.

    • Docking Accuracy and Stability Assessment:

      • Evaluates binding reliability using affinity scores and RMSD values.

      • Compares docking results with experimental data when available.

    • Automated Research Paper Generation:

      • Materials & Methods: Structures details of the experimental setup and computational techniques.

      • Results: Summarizes extracted binding data, including residues, energy scores, and RMSD values.

      • Discussion: Provides AI-assisted interpretation of how binding interactions influence protein function and biological activity.

    • Statistical Analysis of Binding Interactions:

      • Performs validation of docking scores and RMSD values.

      • Generates scatter plots and comparative graphs for better visualization.

    • Interactive 3D Visualization:

      • Displays the protein-ligand complex in a real-time 3D viewer.

      • Allows researchers to manipulate the structure and capture images from different angles and styles.

    • Custom Researcher Input:

      • Provides an editable section for researchers to add notes and experimental observations.

    • Advanced Features
      • AI-Powered Literature Search:

        • Automatically suggests relevant research papers related to the studied protein.

      • Automated Graphing and Visualization:

        • Generates heatmaps, box plots, and scatter plots to compare binding affinities.

      • Comprehensive Report Export:

        • Supports exporting structured reports in Word, PDF, or LaTeX formats.