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Showing 20 records out of 363 total
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Categories: proteomics, (protein structure) - Software type(s): website - tool
Secondary Structure Prediction System
Categories: proteomics, (proteomics experiment) - Software type(s): website - tool
Tool for searching protein sequence collections with peptide mass maps. A Bayesian algorithm is used to rank the protein sequences in the database according to their probability of producing the peptide map.
Categories: genomics, systems biology - Software type(s): website, CLI, library - database/tool
The Progenetix database provides an overview of copy number abnormalities in human cancer from Comparative Genomic Hybridization (CGH) experiments. With >30000 cases from >1000 publications, Progenetix is the largest curated database for whole genome copy number profiles. The current dataset contains >20000 chromosomal CGH and >10000 profiles from genomic array experiments. This data covers hundreds of cancer entities.
Categories: proteomics - Software type(s): website - database
Publication électronique (en français) de vulgarisation scientifique du groupe Swiss-Prot de l'Institut Suisse de Bioinformatique dédiée aux protéines qui font parler d'elles dans l'actualité.
Categories: proteomics, (protein modifications) - Software type(s): website - tool
ProP 1.0 server predicts arginine and lysine propeptide cleavage sites in eukaryotic protein sequences using an ensemble of neural networks. Furin-specific prediction is the default. It is also possible to perform a general proprotein convertase (PC) prediction.
Categories: function analysis, similarity search/alignment - Software type(s): website - tool
PROPSEARCH was designed to detect functional and / or structural homologs, if the sequence identity is below about 25%. It uses the amino acid physico-chemical properties, content of bulky residues, content of small residues, average hydrophobicity, average charge a.s.o. and are used as query vector. Sequences in the database are transformed into vectors as well, and the euclidian distance between the query and database sequences is calculated.
Categories: proteomics, (protein structure) - Software type(s): website - tool
Program of error recognition in 3D structures
Categories: proteomics, (sequence sites, features and motifs) - Software type(s): website - database
PROSITE consists of documentation entries describing protein domains, families and functional sites as well as associated patterns and profiles to identify them.
Categories: proteomics, (protein structure, protein interactions) - Software type(s): website - tool
Comparison of asymmetric units and biological units from PDB and PQS
Categories: proteomics - Software type(s): website - tool
Protein Colourer is a tool for colouring amino acid sequences. The default settings will colour the sequence by the hydrophobicity of the amino acids. You can set the colouring scheme by changing the lists associated with each colour.
Categories: proteomics, (protein structure) - Software type(s): website - tool
List is a list or Protein Disorder Predictors
Categories: proteomics, (protein structure), structure analysis - Software type(s): website - database/tool
The Protein Model Portal has been developed to foster effective usage of molecular models in biomedical research by providing convenient and comprehensive access to structural information for a protein - both experimental structures and theoretical models. Protein Model Portal is a component of the Nature PSI Structural Biology Knowledgebase.
Categories: proteomics, (sequence sites, features and motifs, similarity search/alignment) - Software type(s): website - tool
Protein sequence alignment viewed as sequence logos. The total height of the sequence information part is computed as the relative entropy between the observed fractions of a given symbol and the respective a priori probabilities.
Categories: proteomics - Software type(s): website - database
Protein Spotlight is a monthly review written by the Swiss-Prot team of the Swiss Institute of Bioinformatics. Spotlight articles describe a specific protein or family of proteins on an informal tone.
Categories: proteomics, (proteomics experiment) - Software type(s): website - tool
Proteomics tools for mining sequence databases in conjunction with mass spectrometry experiments, including MS-Fit, MS-Pattern, MS-Digest, etc.
Categories: proteomics, (function analysis) - Software type(s): website - tool
Compute various physical and chemical parameters for a given protein sequence. The computed parameters include the molecular weight, theoretical pI (isoelectric point), amino acid composition, atomic composition, extinction coefficient, estimated half-life, instability index, aliphatic index and grand average of hydropathicity (GRAVY).
Categories: proteomics, (function analysis) - Software type(s): website - tool
Compute and represent the profile produced by any amino acid scale on a selected protein sequence. The most frequently used scales are the hydrophobicity or hydrophilicity scales and the secondary structure conformational parameters scales, but ProtScale provides more than 50 predefined scales entered from the literature.
Categories: proteomics, (protein structure) - Software type(s): website - tool
The PSIPRED Protein Structure Prediction Server aggregates several of our structure prediction methods into one location. Users can submit a protein sequence, perform the prediction of their choice and receive the results of the prediction via e-mail.
Categories: proteomics, (function analysis) - Software type(s): website - tool
PSORT family of programs for subcellular localization prediction
Categories: proteomics, (protein modifications) - Software type(s): website - tool
predict peroxisomal targeting signal 1 containing proteins
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