Proteomic and metabolomic 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 & Metabolomics applications

Most recent bioinformatics tools

blastall
Desktop

blastall

Permits users to run blast searches. blastall permits users to make searching…

Permits users to run blast searches. blastall permits users to make searching combinations to query nucleotide or peptide sequence databases for example. It is able to find similar sequences in a…

PASA
Desktop

PASA Program to Assemble Spliced Alignments

Allows automation improvement of gene structures in Arabidopsis thaliana. PASA…

Allows automation improvement of gene structures in Arabidopsis thaliana. PASA was used in Eukaryotic genome annotation projects such as Rice, Aspergillus species, Plasmodium falciparum, Schistosoma…

PeptideMass
Web

PeptideMass

Allows users to utilize annotated protein sequence databases for the…

Allows users to utilize annotated protein sequence databases for the understanding of Mass Spectrometry (MS) data. PeptideMass generates the theoretical peptide masses of any protein in the…

ISPRED4
Web

ISPRED4

Predicts protein-protein interaction (PPI) sites on unbound monomer surfaces in…

Predicts protein-protein interaction (PPI) sites on unbound monomer surfaces in the absence of interaction partners. ISPRED4 exploits a richer set of 46 features derived from both sequence and…

Most popular analytical software and databases

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 & Metabolomics

  • 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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