post-translational-modification

There are 29 repositories under post-translational-modification topic.

  • Villen-Lab/pyAscore

    A python package for fast post translational modification localization, powered by Cython.

    Language:Python182185

  • biodavidjm/artMS

    Analytical R Tools for Mass Spectrometry

    Language:R1451907

  • wilhelm-lab/PROSPECT

    Proteomics Mass Spectrometry Datasets for Machine Learning

    Language:Python12203

  • Aksh77/Bio-Scraper

    Web scraper for UniProt and iPTMnet database

    Language:Python10200

  • Vitek-Lab/MSstatsPTM

    Post Translational Modification (PTM) Significance Analysis in shotgun mass spectrometry-based proteomic experiments

    Language:R98222

  • daniaki/pyPPI

    A machine learning tool to assign edges in protein-protein interaction networks with a function.

    Language:Python7315

  • KarrLab/bpforms

    Toolkit for concretely describing non-canonical DNA, RNA, and proteins

    Language:Python681092

  • eliza-m/CrossSpeciesWorkflow

    CWL workflow that facilitate performing a series of structural and phenotype related third party prediction methods starting from either a protein FASTA file or a list of Uniprot IDs. Integrated prediction methods refer to secondary structure, solvent accessibility, disordered regions, PTS modifications (phosphorylation, glycosylation, lipid modification, sumoylation, etc).

    Language:Python5163

  • frl21/Phosphorylation_Prediction

    This project is conduct research using deep learning to predict phosphorylation site in protein sequences

    Language:Jupyter Notebook5101

  • zfyuan/EpiProfile2.0_Family

    EpiProfile 2.0: A Computational Platform for Processing Epi-Proteomics Mass Spectrometry Data

    Language:MATLAB4360

  • KCLabMTU/LMCrot

    Protein Language Model (pLM) Powered Protein Crotonylation (Kcr) Modified Site Predictor

    Language:Python3302

  • PedroSeber/O-GlcNAcylation_Prediction

    Code and datasets for the publication "Recurrent Neural Network-based Prediction of O-GlcNAcylation Sites in Mammalian Proteins"

    Language:Python3200

  • VenkMallikarjun/BayesENproteomics

    Non-linear Bayesian elastic net regression for calculating protein and PTM fold changes from peptide intensities in label-free, bottom-up proteomics on heterogeneous primary human samples.

    Language:MATLAB3011

  • VenkMallikarjun/BENPPy

    Python implementation of BayesENproteomics with user-customised models and other additional features

    Language:Python3000

  • chinmayaNK22/PTM-Site-Validator

    Validation of modified amino acid sites in peptide sequences by identifying immonium ions in the raw spectra (.mgf format)

    Language:Python2100

  • PedroSeber/CHO_N-glycosylation_prediction

    Code and datasets for the publication "Linear and Neural Network Models for Predicting N-glycosylation in Chinese Hamster Ovary Cells Based on B4GALT Levels"

    Language:Jupyter Notebook2200

  • Vitek-Lab/MSstatsTMTPTM

    R-based package for detecting differencially abundant post translational modifications (PTM) in shotgun mass spectrometry-bsed proteomic experiments with tandem mass tag (TMT) labeling

    Language:R2612

  • bio2bel/phosphosite

    Language:Python121

  • ChildrensMedicalResearchInstitute/ptm-visquant

    Simple visualisation of PTM data sites alongside protein motif and family domain information

    Language:JavaScript1290

  • DavisLaboratory/pyPPI

    A machine learning tool to assign edges in protein-protein interaction networks with a function.

    Language:Python160

  • Integrative-Transcriptomics/PTMVision

    Web-application for Interactive Visualization of Post Translational Modifications

    Language:HTML1300

  • KCLabMTU/LMSuccSite

    Improving Protein Succinylation Sites Prediction Using Features Extracted from Protein Language Model

    Language:Jupyter Notebook1113

  • zfyuan/EpiProfileLite

    One minute analysis of histone post-translational modifications by direct infusion mass spectrometry

    1000

  • Citrullia-SDU/Citrullia

    Software for the validation of citrullinated peptides

    Language:C#0111

  • maxperutzlabs-ms/SiteToProteinNormalization_in_MultiplexProteomics

    Workflow to perform unbiased site-to-protein normalization in multiplex proteomics by accounting for ratio compression effects due to ion interference

    Language:R0000

  • MolBIFFM/diana

    data integration and network analysis of post-translational modification based on mass spectrometry data

    Language:Python0200

  • moritzmadern/SiteToProteinNormalization_in_MultiplexProteomics

    Workflow to perform unbiased site-to-protein normalization in multiplex proteomics by accounting for ratio compression effects due to ion interference

    Language:R0101

  • Pathmanaban/Scop3P-notebooks

    Jupyter notebook examples of Scop3P REST API services

    Language:Jupyter Notebook0000

  • tairsha/taxa-specific-substitution-matrix

    Algorithms for the generation of substitution matrices from intra-taxa variation data. Implemented and published on human genetic variation data.

    Language:Jupyter Notebook0001