Proteomic analysis software tools and databases

Proteomics applications

Proteomes are characterized by large protein-abundance differences, cell-type- and time-dependent expression patterns and post-translational modifications, all of which carry biological information that is not accessible by genomics or transcriptomics.Source text:(Wilhelm et…

Proteomic analysis software tools and databases

Most Recent Tools

Extraction and…
Desktop

Extraction and Calculation Of Unbiased N-Termini

Scores all characterized peptides using discriminating parameters to identify…

Scores all characterized peptides using discriminating parameters to identify bona fide mature protein N-termini. EnCOUNTer determines the N-terminus acetylation yield of the most reliable ones. It…

MinkoFit3D
Desktop
Web

MinkoFit3D

Fits macromolecular assemblies into low-resolution electron density maps.…

Fits macromolecular assemblies into low-resolution electron density maps. MinkoFit3D method has been inspired by the application of the Minkowski sum in a robotic motion planning. It eliminates…

ConPlex
Web

ConPlex

Enables evolutionary conservation analyses of protein interactions within…

Enables evolutionary conservation analyses of protein interactions within protein quaternary structures. ConPlex automatically identifies protein interfaces and carries out evolutionary conservation…

Erebus
Web

Erebus

Searches the entire Protein Data Bank (PDB) for a given substructure defined by…

Searches the entire Protein Data Bank (PDB) for a given substructure defined by a set of atoms of interest, such as the binding scaffolds for small molecules. Erebus produces the list of proteins…

Most Popular Tools

footprintDB
Dataset

footprintDB

Integrates several open access repositories of curated cis-elements, DNA…

Integrates several open access repositories of curated cis-elements, DNA motifs, and TFs into a unique repository. footprintDB systematically annotates the binding interfaces of the TFs by exploiting…

PlantTFDB
Dataset

PlantTFDB Plant Transcription Factor Database

A database of functional and evolutionary study of plant transcription factors.…

A database of functional and evolutionary study of plant transcription factors. With the version 4.0, PlantTFDB offers 320 370 TFs from 165 species. Three types of annotation provide more directly…

ProteinLounge
Web

ProteinLounge

Develops many interactive web-based databases and software to help the…

Develops many interactive web-based databases and software to help the life-scientists understand the complexity of systems biology. Systems biology efforts focus on understanding cellular networks,…

PLACE
Dataset

PLACE

A database of nucleotide sequence motifs found in plant cis-acting regulatory…

A database of nucleotide sequence motifs found in plant cis-acting regulatory DNA elements. Motifs were extracted from previously published reports on genes in vascular plants. In addition to the…

Curators for Proteomics

  • Stephen Osborne's avatar image
    Stephen Osborne
    Pastel BioScience Limited, The…
  • Yashwanth Subbannayya's avatar image Yashwanth Subbannayya's country flag
    Yashwanth Subbannayya
    YU-IOB Center for Systems Biology…

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