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

ProtVista
Desktop

ProtVista

Permits to visualize graphical representation of protein sequence features in…

Permits to visualize graphical representation of protein sequence features in the UniProt Knowledgebase, experimental proteomics and variation public datasets. ProtVista lays out, maps, orients, and…

pPAP
Desktop

pPAP

Predicts the reaction of a plant type III polyketide synthases (PKS). pPAP…

Predicts the reaction of a plant type III polyketide synthases (PKS). pPAP targets PKSs acting on ring-type starter substrates, and classifies their functions into four reaction types. It is based on…

TCP-seq
Desktop

TCP-seq translation complex profile sequencing

Uses fast covalent fixation of translation complexes in live cells, followed by…

Uses fast covalent fixation of translation complexes in live cells, followed by RNase footprinting of translation intermediates and their separation into complexes involving either the full ribosome…

StralSV
Web

StralSV Structure Alignment-based Sequence Variability

Implements a structure-based algorithm for identifying and aligning structure…

Implements a structure-based algorithm for identifying and aligning structure fragments that have similarity to a reference protein. StralSV analysis can be used to quantify residue-residue…

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…

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