To examine consistent patterns throughout the sequences in the database and to enter one's sequences for further analysis. UniProt UniProt is among the most extensive, highest quality, and readily available databases of protein sequence and functional information. Since antibodies are not the primar...
Tryptophan C-mannosylation is an unusual co-translational protein modification performed by metazoans and apicomplexan protists. The prevalence and biological functions of this modification are poorly understood, with progress in the field hampered by a dearth of convenient tools for installing and detect...
We scanned the antigen-antibody complexes available in the PDB database by the MOE program36 to find structures with unique antibody sequences. 1479 antibody-antigen complexes (2958 heavy and light chains) were collected. The sequences were clustered using CD-HIT37 and redundant sequences with id...
Scaligner™ is a user-friendly, intuitive software platform packed full of automated analysis tools for high-throughput annotations of antibody sequences. Perform a wide-range of operations within one interface. Explore More Integrate NGS Data Analysis ...
Search for sequences in a central database, and import and export data seamlessly. Connect important in-house tools, including LIMS, and directly share files with Geneious Prime. Data Security Data integrity and security is of utmost importance and we are committed to ensuring customer data is ...
Antibody sequences were annotated using IgBlast (Ye et al., 2013) and SONAR (Schramm et al., 2016) against donor-specific gene database (see Antibody germline V gene identification section). Antibodies sharing both heavy and light chain V and J gene assignments and junction region were grouped...
However, prototype sequences from alternative methods that a user has confidence in can be used. In the second step, a prototype model is created by assembling and mutating the most similar models in the MAPs database. Finally, a predicted model of the antibody is created by mutating the ...
(orange) VH antibody datasets. The PSSM-generated database is made of artificial sequences randomly generated using residue positional frequencies from the PSSM of human VH sequences. The human diverse >5% dataset is made of VH sequences at least 5% different from their closest sequence in the...
Numbering antibody sequences is an important precursor for many statistical inference / machine learning applications. AntPack is orders of magnitude faster for numbering antibody sequences than existing tools in the literature (e.g. ANARCI, AbRSA), while providing >= reliability. AntPack also provi...
The skilled person will know of sources of human antibody gene sequences, such as IMGT (www.imgt.org), GenBank (www.ncbi.nlm.nih.gov/genbank) and the 1000 Genomes databases (www.1000genomes.org). Bioinformatics tools for database manipulation are also readily available and known to the ...