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

dagLogo
Desktop

dagLogo

Visualizes significant conserved amino acid sequence pattern in groups based on…

Visualizes significant conserved amino acid sequence pattern in groups based on probability theory. Compare to iceLogo, dagLogo can also visualize significant sequence patterns by clustering the…

AptRank
Desktop

AptRank

Utilizes an adaptive diffusion mechanism to improve the performance of…

Utilizes an adaptive diffusion mechanism to improve the performance of BirgRank. AptRank introduces an adaptive mechanism to the PageRank framework that computes an optimal set of weights for the…

SuiteMSA
Desktop

SuiteMSA Suite of Multiple Sequence Alignment

Provides researchers easy access to a sequence evolution simulator, reference…

Provides researchers easy access to a sequence evolution simulator, reference alignments generated by the simulator, and a series of tools to evaluate the performance of the multiple sequence…

3DM
Desktop

3DM

Uses to extract clues about the function of specific amino acids and predict…

Uses to extract clues about the function of specific amino acids and predict effects of mutations. 3DM is a protein superfamily knowledgebase based upon a structure-based multiple sequence alignment…

Most Popular Tools

footprintDB
Data

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
Data

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
Data

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…

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.