protein-analysis

Calculation of interatomic interactions in molecular structures

A Nextflow pipeline for end-to-end long-read proteogenomics analysis

Systematic evaluation of hallucination risks in Large Language Models (GPT-4, Claude 3, Gemini Pro) for clinical proteomics and mass spectrometry interpretation. Production-ready detection framework with comprehensive benchmarks.

A Python package that aims to characterise the dynamics of local chemical environments from Molecular Dynamics trajectories of proteins and other biomolecules. Public mirror of https://gitlab.jsc.fz-juelich.de/slbio/speadi.

Topological data analytic approach for discovering biophysical signatures in protein dynamics

protclust is a Python library for protein sequence analysis that integrates MMseqs2 for fast clustering and provides tools for creating robust machine learning datasets. It offers cluster-aware data splitting to prevent sequence similarity bias in model evaluation, along with comprehensive protein embedding capabilities for feature generation.

Superposition-based Protein Embedded CA SC score

Reproducible comparative genomics study investigating human TP53 cancer mutation hotspots across elephant TP53-related sequences, integrating sequence conservation, phylogenetic analysis, computational prioritization, and research software to explore evolutionary conservation of cancer-associated residues.

Stand Alone version of ConSurf with better amino acid analysis - (installation + database + usage + analysis) - Fork of leezx/ConSurf-StandAlone

Bioinformatics analysis of adenovirus E1A proteins using Python, Biopython, LocalCIDER and AIUPred.

🧬 AI-powered protein structure-function analysis tool with 8-state secondary structure prediction, functional region identification, and interactive visualization. Built for researchers, educators, and students to understand how protein structure drives biological function.

RATISS - Professional Medical Analysis & Validation Portfolio (p53 Protein)

Python tool for analyzing protein point mutations. Calculates changes in molecular weight, charge, and hydrophobicity. Classifies mutations by severity and generates visualizations and HTML reports.

ParylationPredictor — predict PARylation sites and detect PAR-binding domains in proteins. Publication-quality 8-panel figures, Excel, HTML report, JSON/TSV exports.

🧬Protein Functions Prediction through Amino Acids Sequences🧬

A Bioinformatics Web Application for Protein Sequence Analysis built with Python, Biopython and Streamlit.

Interactive bioinformatics web application for DNA and protein sequence analysis built using Python, Streamlit and Biopython.

Per-taxonomy BLASTP search tool for balanced sequence retrieval from NCBI

Python-based bioinformatics toolkit for automated physicochemical profiling and comparative analysis of protein sequences using Biopython.

Batch calculation of ProtParam-style protein properties from FASTA files using Biopython. Designed for large datasets without using the ExPASy web interface.