Proteomic analysis software tools and databases

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…

Proteomics applications

Proteomic analysis software tools and databases

Most Recent Tools

GYM
Web

GYM

Predicts helix-turn-helix motifs. GYM is also able to detect Homeodomain…

Predicts helix-turn-helix motifs. GYM is also able to detect Homeodomain motifs. It uses an efficient screening process that permits to avoid the generation of most infrequent patterns. The tool…

PFASUM
Desktop

PFASUM PFAm SUbstitution Matrix

Allows accurate detection of homologous protein sequences and for scoring and…

Allows accurate detection of homologous protein sequences and for scoring and constructing high quality protein multiple sequence alignments (MSAs). PFASUM is based on the manually curated Pfam seed…

PSAP
Web

PSAP Protein Structure Analysis Package

Calculates and displays various hidden structural and functional features of…

Calculates and displays various hidden structural and functional features of three-dimensional (3D) protein structures. PSAP, was created and optimized to better understand and unravel various…

PreSSAPro
Web

PreSSAPro

Provides predictions of secondary structures starting from the amino acid…

Provides predictions of secondary structures starting from the amino acid sequence of a given protein. PreSSAPro uses the residue propensity values in different secondary structural types determined…

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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