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Submission: On March 12 via api from DE — Scanned from CH
Effective URL: https://www.expasy.org/
Submission Tags: tranco_l324
Submission: On March 12 via api from DE — Scanned from CH
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Posted 12 March 2024 -
Are you an occasional or regular user of UniProt, the universal protein
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FILTERS
Genes & Genomes
* Genomics
* Metagenomics
* Transcriptomics
Proteins & Proteomes
Evolution & Phylogeny
* Evolution biology
* Population genetics
Structural Biology
* Drug design
* Medicinal chemistry
* Structural analysis
Systems Biology
* Glycomics
* Lipidomics
* Metabolomics
Text mining & Machine learning
SIB RESOURCES
Information
* * * Evolution biology
* * Software tool
NEXTSTRAIN
Impact of pathogen genome data on science and public health
* * * Proteins & Proteomes
* * Database
SWISSLIPIDS
Knowledge resource for lipids
* * * Genomics
* , Transcriptomics
* * Software tool
ASAP
Web-based, cooperative portal for single-cell data analyses
* * * Proteins & Proteomes
* * Glycomics
* * Database
GLYCO@EXPASY
Zooming in on web-based glycoinformatics resources
* * * Genes & Genomes
* , Genomics
* , Transcriptomics
* * Evolution & Phylogeny
* * Systems Biology
* * Database
* * Software tool
SWISSREGULON PORTAL
Tools and data for regulatory genomics
* * * Proteins & Proteomes
* * Systems Biology
* * Database
RHEA
Expert-curated database of biochemical reactions
* * * Genes & Genomes
* , Genomics
* , Transcriptomics
* * Evolution biology
* * Database
* * Software tool
BGEE
Gene expression expertise
* * * Proteins & Proteomes
* * Database
UNIPROTKB/SWISS-PROT
Protein knowledgebase
* * * Genes & Genomes
* * Evolution biology
* * Database
* * Software tool
SWISSORTHOLOGY
One-stop shop for orthologs
* * * Proteins & Proteomes
* * Structural Biology
* * Database
* * Software tool
SWISS-MODEL
Protein structure homology-modelling
* * * Systems Biology
* * Database
CELLOSAURUS
Knowledge resource on cell lines
* * * Drug design
* * Database
* * Software tool
SWISSDRUGDESIGN
Widening access to computer-aided drug design
* * * Proteins & Proteomes
* * Systems Biology
* * Database
STRING
Protein-protein interaction networks and enrichment analysis
* * * Transcriptomics
* * Population genetics
* * Software tool
V-PIPE
Viral genomics pipeline
OTHER RESOURCES OF SIB GROUPS
* * * Transcriptomics
* * Software tool
EXPRESSIONVIEW
Biclusters identified in gene expression data
* * * Proteins & Proteomes
* * Software tool
PROTSCALE
Profile produced by amino acids scales on protein sequences
* * * Genomics
* * Systems Biology
* * Software tool
PHYLOGIBBS
Regulatory sites in a collection of DNA sequences
* * * Genomics
* * Software tool
FASTEPISTASIS
Tool for quantitative trait epistasis
* * * Systems Biology
* * Software tool
CLASTR
Cellosaurus STR similarity search tool
* * * Proteins & Proteomes
* * Structural analysis
* * Software tool
QMEAN
Protein model quality estimation
* * * Proteins & Proteomes
* * Glycomics
* * Software tool
MZJAVA
Open source Java class library to process MS fragmentation
* * * Evolution biology
* * Software tool
CAPTAIN
Decision-support tool for conservation area prioritization
* * * Proteins & Proteomes
* * Systems Biology
* * Database
* * Software tool
METANETX
Metabolic network repository & analysis
* * * Systems Biology
* * Database
CELLOSAURUS SPARQL ENDPOINT
SPARQL access to Cellosaurus via Wikidata
* * * Evolution biology
* , Population genetics
* * Software tool
CT-CBN
Estimate conjunctive Bayesian networks
* * * Proteins & Proteomes
* * Database
PAXDB
Protein abundance across several organisms
* * * Genomics
* * Evolution biology
* , Population genetics
* * Software tool
NEXTCLADE
Clade assignment, mutation calling & QC for virus sequences
* * * Proteins & Proteomes
* * Glycomics
* * Database
* * Software tool
GLYCONNECT
Integrated data platform to study glycosylation
* * * Genomics
* , Transcriptomics
* * Software tool
ESTSCAN
Detect coding regions in EST sequences
* * * Systems Biology
* * Database
SWISSBIOPICS
Subcellular location visualization
* * * Proteins & Proteomes
* * Software tool
PROC
Visualize, smooth and compare ROC curves
* * * Genomics
* * Evolution biology
* * Software tool
BUSCO
From QC to gene prediction and phylogenomics
* * * Proteins & Proteomes
* * Software tool
PEPTIDEMASS
Theoretical protein cleavage by a given enzyme
* * * Proteins & Proteomes
* * Structural Biology
* , Structural analysis
* * Software tool
SWISS-MODEL WORKSPACE
Fully automated protein structure homology-modeling server
* * * Genomics
* * Software tool
ISCAN
Insertion sequence identification in whole genomes
* * * Glycomics
* * Software tool
GLYDIN'
Network representation of known glycan determinants
* * * Glycomics
* * Database
SUGARBIND
Pathogen Sugar-Binding Database
* * * Glycomics
* * Software tool
GLYNSIGHT
Visualise and compare glycan expression profiles
* * * Population genetics
* * Software tool
ARLEQUIN
An integrated software for population genetics data analysis
* * * Text mining & Machine learning
* * Software tool
VARIOMES
Search engine to support the curation of genomic variants
* * * Glycomics
* * Software tool
GLYS3
Match a glycan substructure to a database of full structures
* * * Proteins & Proteomes
* * Structural Biology
* , Drug design
* , Medicinal chemistry
* , Structural analysis
* * Software tool
CLICK2DRUG
Directory of computational drug design tools
* * * Proteins & Proteomes
* * Software tool
SCANPROSITE
Protein sequences against PROSITE
* * * Evolution & Phylogeny
* * Database
* * Software tool
OMA
Orthology inference among complete genomes
* * * Proteins & Proteomes
* * Software tool
PFTOOLS
Build, calibrate, and search biological sequences
* * * Genes & Genomes
* , Genomics
* * Systems Biology
* * Database
* * Software tool
PROGENETIX
Genomic profiles of cancer samples with focus on CNV
* * * Proteins & Proteomes
* * Metabolomics
* * Software tool
RAWRR
R package for fast reading Thermo Fisher Scientific MS data
* * * Genes & Genomes
* , Genomics
* * Database
* * Software tool
SVIP
Clinical interpretation of variants in cancer
* * * Genomics
* , Metagenomics
* , Transcriptomics
* * Population genetics
* * Software tool
MOTUS
Microbial taxonomic and population genomic profiler
* * * Proteins & Proteomes
* * Software tool
COMPUTE PI/MW
Isoelectric point and molecular weight from protein sequence
* * * Evolution & Phylogeny
* * Software tool
PHYLO.IO
A tool for visualising and comparing phylogenetic trees
* * * Genomics
* , Transcriptomics
* * Proteins & Proteomes
* * Systems Biology
* * Software tool
ISMARA
Webservice for gene expression and epigenetic data analysis
* * * Genomics
* * Software tool
CHIP-SEQ
ChIP-Seq data analysis tools
* * * Proteins & Proteomes
* * Glycomics
* * Software tool
SWISS MASS ABACUS
Intuitive calculator of peptide and glycopeptide masses
* * * Proteins & Proteomes
* * Software tool
PEPTIDECUTTER
Potential cleavage sites in a protein
* * * Evolution & Phylogeny
* * Database
ORTHODB
Ortholog evolutionary and functional annotations
* * * Proteins & Proteomes
* * Database
HAMAP SPARQL ENDPOINT
SPARQL access to the HAMAP annotation rules
* * * Proteins & Proteomes
* * Systems Biology
* * Database
TCS
Predict interaction specificity in bacterial signalling
* * * Proteins & Proteomes
* * Text mining & Machine learning
* * Database
MHC MOTIF ATLAS
MHC Motif Atlas
* * * Genes & Genomes
* , Genomics
* * Systems Biology
* * Database
* * Software tool
IPTGXDBS
Platform for integrated proteogenomics databases
* * * Proteins & Proteomes
* * Software tool
PRATT
Conserved patterns in a set of protein sequences
* * * Genomics
* * Database
* * Software tool
SNP2TFBS
Regulatory SNPs affecting TF binding site affinity
* * * Genomics
* * Database
OPENFLU
Database for human and animal influenza virus
* * * Genomics
* * Systems Biology
* * Database
* * Software tool
ARRAYMAP
Curated array data repository for cancer genomics
* * * Proteins & Proteomes
* * Systems Biology
* * Database
STRING SPARQL ENDPOINT
SPARQL access to the STRING knowledgebase
* * * Proteins & Proteomes
* * Software tool
MSIGHT
Mass Spectrometry Imager
* * * Genes & Genomes
* * Database
* * Software tool
SPSP | SWISS PATHOGEN SURVEILLANCE PLATFORM
A secure NGS One-health online platform
* * * Transcriptomics
* * Systems Biology
* * Software tool
DWT-ONLINE
Dinucleotide Weight Tensor toolbox and visualisation service
* * * Proteins & Proteomes
* * Database
UNIPROTKB
Protein sequence database
* * * Glycomics
* * Software tool
HMO-GLYCOLOGUE
Simulator of Human Milk Oligosaccharide synthesis
* * * Evolution & Phylogeny
* * Database
SWISS-TREES
A collection of gold standard gene phylogenies
* * * Transcriptomics
* * Population genetics
* * Software tool
V-PIPE SARS-COV-2
V-pipe pipeline applied to SARS-CoV-2 sequencing data
* * * Proteins & Proteomes
* * Systems Biology
* * Database
PROTEIN UNIVERSE ATLAS
Interactive, annotated similarity network of all proteins
* * * Genomics
* * Proteins & Proteomes
* * Database
ABCD
Database of chemically defined antibodies
* * * Glycomics
* * Database
UNICARB-DB
Glycan structures and associated mass spectrometry data
* * * Glycomics
* * Software tool
GLYCONNECT COMPOZITOR
Contextualises glycan composition sets
* * * Evolution biology
* * Database
SELECTOME
Database of positive selection
* * * Proteins & Proteomes
* * Software tool
FINDPEPT
Unspecific protein cleavage from experimental masses
* * * Proteins & Proteomes
* * Medicinal chemistry
* , Structural analysis
* * Software tool
SWISSTARGETPREDICTION
Target prediction for bioactive small molecules
* * * Glycomics
* * Software tool
EPITOPEXTRACTOR
Compare glycan structures to Glydin' network's collection
* * * Proteins & Proteomes
* * Glycomics
* * Software tool
GLYCOMOD
Possible oligosaccharide structures on proteins from masses
* * * Glycomics
* * Database
GAG-DB
3D structures of glycosaminoglycans
* * * Proteins & Proteomes
* * Medicinal chemistry
* , Structural analysis
* * Database
SWISSBIOISOSTERE
Database of molecular replacements for ligand design
* * * Proteins & Proteomes
* * Software tool
FINDMOD
Potential PTMs and single amino acid substitutions
* * * Genes & Genomes
* * Systems Biology
* * Software tool
CREMA
CREMA: Cis-Regulatory Element Motif Activities
* * * Genomics
* * Database
EPD
Eukaryotic Promoter Database
* * * Proteins & Proteomes
* * Structural analysis
* * Software tool
OPENSTRUCTURE
Molecular modelling and visualisation environment
* * * Proteins & Proteomes
* * Database
PROSITE
Protein family and domain database
* * * Proteins & Proteomes
* * Software tool
UNIPROT BLAST
BLAST sequence similarity search on the UniProt web site
* * * Genomics
* , Transcriptomics
* * Software tool
TROMER
Prediction of transcribed regions and splice junctions
* * * Proteins & Proteomes
* * Database
UNIPROT SPARQL ENDPOINT
SPARQL access to UniProt and related data
* * * Medicinal chemistry
* * Software tool
SWISSSIMILARITY
Ligand-based virtual screening
* * * Genomics
* * Software tool
SSA
Analysis of nucleic acid sequence motifs
* * * Proteins & Proteomes
* * Software tool
RANDSEQ
Random protein sequence generator
* * * Proteins & Proteomes
* * Glycomics
* * Database
GLYCONNECT SPARQL ENDPOINT
SPARQL access to GlyConnect
* * * Proteins & Proteomes
* * Software tool
MYRISTOYLATOR
N-terminal myristoylation of proteins by neural networks
* * * Proteins & Proteomes
* * Software tool
MELANIE
2-D PAGE analysis
* * * Proteins & Proteomes
* * Database
* * Software tool
HAMAP
UniProtKB family classification and annotation
* * * Genes & Genomes
* * Evolution biology
* * Software tool
GENSPECTRUM
Real-time pathogen genomic sequence analysis
* * * Proteins & Proteomes
* * Database
ENZYME
Enzyme nomenclature database
* * * Proteins & Proteomes
* * Database
NEXTPROT SPARQL ENDPOINT
SPARQL access to the neXtProt human protein knowledgebase
* * * Genomics
* , Transcriptomics
* * Software tool
QUASR
Quantification and analysis of Short Reads
* * * Text mining & Machine learning
* * Software tool
COMPUTATIONAL LINGUISTICS FOR COVID-19
Central hub in computational linguistics for COVID-19
* * * Proteins & Proteomes
* * Medicinal chemistry
* * Software tool
SWISSADME
Pharmacokinetics properties and druglikeness
* * * Genomics
* * Software tool
SHORAH
Analysis of NGS data
* * * Genomics
* * Software tool
TASER
Search tool associated to TASmania
* * * Text mining & Machine learning
* * Software tool
COVTRIAGE
Rank the COVID-19 literature according to COVoc ontology
* * * Transcriptomics
* * Database
POLYASITE
Database of curated RNA polyadenylation sites
* * * Proteins & Proteomes
* * Software tool
MALDIPEPQUANT
Quantify MALDI peptides from Phenyx output
* * * Genes & Genomes
* * Proteins & Proteomes
* * Evolution & Phylogeny
* , Evolution biology
* * Software tool
ORTHOLOGER
Accurate and scalable inference of groups of orthologs
* * * Genomics
* * Evolution & Phylogeny
* * Systems Biology
* * Database
OMAMO
OMAMO allows the user to find the best simple model organism
* * * Genomics
* , Transcriptomics
* * Database
GLITTR
Git repositories with bioinformatics training material
* * * Proteins & Proteomes
* * Glycomics
* * Database
UNILECTIN
Structural and functional classification of lectins
* * * Proteins & Proteomes
* * Structural Biology
* * Database
* * Software tool
CAMEO
Weekly automated benchmarking of protein structure modelling
* * * Glycomics
* * Software tool
GLYCODIGEST
In silico digestion of glycans by exoglycosidases
* * * Genomics
* , Transcriptomics
* * Systems Biology
* * Software tool
CRUNCH
Automated pipe-line for ChIP-seq data analysis
* * * Text mining & Machine learning
* * Database
* * Software tool
SIBILS
Personalized Information Retrieval in biomedical literature
* * * Proteins & Proteomes
* * Systems Biology
* * Database
METANETX SPARQL ENDPOINT
SPARQL access to MetaNetX
* * * Proteins & Proteomes
* * Structural Biology
* * Database
SWISS-MODEL REPOSITORY
Protein structure homology models
* * * Genomics
* * Software tool
MADAP
Clustering tool of genomic sites
* * * Proteins & Proteomes
* * Systems Biology
* * Database
RHEA SPARQL ENDPOINT
SPARQL access to the Rhea knowledgebase
* * * Transcriptomics
* * Software tool
ISA
Finding modules in gene expression data
* * * Genomics
* , Transcriptomics
* * Software tool
SIBSIM4
Align expressed RNA sequences on a DNA template
* * * Genomics
* * Software tool
FETCHGWI / TAGGER
Short sequence mapping
* * * Proteins & Proteomes
* * Software tool
PROTPARAM
Computation of physico chemical parameters of a protein
* * * Genomics
* * Software tool
TAGSCAN
Genome-wide sequence tag scanner
* * * Proteins & Proteomes
* * Database
SWISSLIPIDS SPARQL ENDPOINT
SPARQL access to the SwissLipids knowledgebase
* * * Proteins & Proteomes
* * Software tool
MAKE2D-DB II
Build web-based proteomics databases
* * * Proteins & Proteomes
* * Software tool
HAMAP-SCAN
Scanning of protein sequences against HAMAP families
* * * Genes & Genomes
* * Proteins & Proteomes
* * Evolution & Phylogeny
* * Software tool
OMARK
OMArk determines the quality and completeness of gene sets
* * * Evolution biology
* * Software tool
REALPHY
Inference of phylogenetic trees from genome data
* * * Proteins & Proteomes
* * Database
VENOMZONE
Portal to venom protein UniProtKB entries
* * * Proteins & Proteomes
* * Database
* * Software tool
MYHITS
Relationships between protein sequences and motifs
* * * Genomics
* * Software tool
PACMAN
Publication quality images of DNA locations
* * * Genomics
* , Transcriptomics
* * Systems Biology
* * Database
SWISSREGULON
Database of genome-wide annotations of regulatory sites
* * * Proteins & Proteomes
* * Software tool
SULFINATOR
Predict tyrosine sulfation sites in protein sequences
* * * Proteins & Proteomes
* * Systems Biology
* * Database
STRING-COVID
New COVID-19 oriented version of the STRING database
* * * Evolution & Phylogeny
* * Software tool
RAXMLGUI
raxmlGUI 2.0 is a graphical user interface to RAxML
* * * Proteins & Proteomes
* * Systems Biology
* * Software tool
BIOCHEMICAL PATHWAYS
Roche Biochemical Pathways
* * * Genes & Genomes
* , Genomics
* , Transcriptomics
* * Evolution biology
* * Database
BGEE SPARQL ENDPOINT
SPARQL access to the Bgee gene expression database
* * * Genomics
* , Transcriptomics
* * Proteins & Proteomes
* * Software tool
TRANSLATE
Nucleotide sequence to a protein sequence
* * * Evolution & Phylogeny
* * Database
OMA SPARQL ENDPOINT
SPARQL access to the OMA Orthology database
* * * Proteins & Proteomes
* * Database
VIRALZONE
Fact sheets about viruses linked to sequence databases
* * * Genomics
* * Evolution biology
* , Population genetics
* * Software tool
FASTSIMCOAL
Fast sequential Markov coalescent simulation of genomic data
* * * Systems Biology
* * Software tool
GENOME HISTORY
Gene duplicate identification
* * * Genomics
* , Transcriptomics
* * Software tool
MIRMAP
Prediction of microRNA target repression strength
* * * Proteins & Proteomes
* * Database
NEXTPROT
Human protein knowledgebase
* * * Medicinal chemistry
* , Structural analysis
* * Database
SWISSSIDECHAIN
Database of non-natural amino acid side chains
* * * Proteins & Proteomes
* * Software tool
SIM
Alignment of two protein sequences or within a sequence
* * * Glycomics
* * Software tool
SUGARSKETCHER
Fast, intuitive, SNFG-compliant glycan structure drawing
* * * Genes & Genomes
* * Evolution biology
* * Software tool
BEAST2
Bayesian evolutionary analysis by sampling trees
* * * Proteins & Proteomes
* * Software tool
DECREASE REDUNDANCY
Redundancy reduction in a set of sequences
* * * Proteins & Proteomes
* * Software tool
DOTLET
Regions of close similarity in 2 sequences
* * * Genes & Genomes
* * Evolution & Phylogeny
* * Software tool
BEAST2 - COVID-19 MONITORING
Epidemiological dynamics in real-time
* * * Proteins & Proteomes
* * Software tool
UNIPROT CLUSTALO
Align two or more protein sequences
* * * Proteins & Proteomes
* * Structural Biology
* * Database
MODELARCHIVE
Repository of predicted macromolecular structure models
* * * Genomics
* * Database
TASMANIA
Toxin-antitoxin database
* * * Proteins & Proteomes
* * Glycomics
* * Software tool
GLYCOSITEALIGN
Multiple alignment of sequences around glycosylation sites
* * * Proteins & Proteomes
* * Structural Biology
* , Medicinal chemistry
* * Software tool
SWISSDOCK
Docking of small ligands into protein active sites
* * * Genomics
* * Software tool
LEMMI
Continuous benchmarking of methods for metagenomics
* * * Proteins & Proteomes
* * Medicinal chemistry
* , Structural analysis
* * Software tool
SWISSPARAM
Topology and parameters for small molecules
* * * Genes & Genomes
* , Genomics
* , Metagenomics
* * Software tool
MVIRS
Prediction tool for inducible, bacteria-infecting viruses
* * * Evolution & Phylogeny
* * Database
ORTHODB SPARQL ENDPOINT
SPARQL access to the OrthoDB catalog of orthologs
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