uniprot

Access to Biological Web Services from Python.

Bio4j abstract model and general entry point to the project

Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities

Protein Alignment and Detection Interface

3D hotspot mutation proximity analysis tool

Feature Annotation Location Description Ontology

ProtVec can be used in protein interaction predictions, structure prediction, and protein data visualization.

A Ruby on Rails application for proteomics data analysis

MOLeculAR structure annoTator

Teaching materials for 6-7th March 2018 delivery of introductory bioinformatics training course for IBioIC.

Course materials for the IBioIC Introduction to Bioinformatics training course

index and query scripts for free reference bioinformatics datasets

Web scraper for UniProt and iPTMnet database

Utilities for downloading and managing protein FASTA files.

Download pdb/protein structures from Uniprot id; This script will download related PDB files, extract chains(Optional), remove duplicates(Optional, maybe lost some conformation changed structures) and save as "UniprotID-PDBID-ModelID-ChainID.pdb/cif".

GCModeller Individual Components: GCModeller base core assembly library on common biological database read and write I/O

Co-occurrence of enzyme domains

Integrating pathways and related knowledge in a multilayer framework

Tool for converting between various gene ids

Extract uniprot mappings to other vocabularies

PINT is a new comprehensive web-based system to store, visualize, and query experimental proteomics data obtained under different experimental conditions and projects. PINT provides a very powerful query system through the use of different proteomics-specific data query commands running over both the experimental features and external annotations of the detected protein lists (such as UniprotKB).

Pipeline plugins for PALADIN, providing HPC support, abundance (taxonomy, go terms), customized reports, etc

UniProt Id Mapping through API

ProtGraph - A Graph-Generator for Proteins

UniProt Solyc Converter Bash script

Short Linear Motif (SLiM) Analysis in the context of human diseases

Downloads protein sequences from Uniprot, in the desired output format, based on the given ids (either passed as arguments or identified in a file)

Program and package that retrieves nucleotide coding sequences from NCBI that correspond to a set of input protein sequences.

A R package that allows drawing of data from the UniProt API