OAS A sequence database containing 1.5 billion paired Fv and unpaired sequences from 80 studies [8] PIRD A sequence database containing annotated T cell receptor and B cell receptor repertoire sequencing data [9] AbDiver A bioinformation tool that employs the B cell receptor sequencing data and...
Advances in our understanding of cancer biology have enabled drug development to progress towards better targeted therapies that are both more effective and safer owing to their lack of off-target toxicities. In this regard, antibody–drug conjugates (ADCs), which have the potential to combine the ...
Drug resistance arises by single or multiple base changes, that may affect a key viral protein or nucleic acid motif or sequences affecting this, for example, folding, leading to reduced susceptibility to the action of the drug ● Resistant strains are often lessvirulentand/orreplication competent...
Automated antibody sequence annotation in a shared database: germline identification, alignment, amino acid numbering, PTM sites.
Considering that antibody is different from general proteins, for antibody embeddings, we used AbLang for embeddings [48]. AbLang is an antibody-specific language model trained on the Observed Antibody Space (OAS) database [49,50], which contains about 71.98 million sequence data (52.89 million...
AbNatiV is trained on aligned sequences of native antibody from curated immune repertoires from the Observed Antibody Space (OAS) database35and other sources (Methods). The model is trained for ten epochs separately on human VH, Vκ, Vλ and camelid VHH sequences (roughly 2 million unique...
Next, a model structure of the prototype sequence is created by identifying and assembling the closest MAPs structures. As detailed below, the MAPs database has structures for V* (V region Framework Region (FR) 1 to FR3), CDR3, and J* (J region FR4). Finally, the antibody structure is...
The tumor suppressor protein, p53, is a sequence specific transcription factor that is activated by cellular stress. p53 mediates cell cycle arrest or apoptosis in response to DNA damage or starvation for pyrimidine nucleotides. p53 is up-regulated in response to stress signals and stimulated to ac...
The sequences of VIR-7381, REGN-1033, and REGN10987 were all derived from IMGT Database. The recombinant plasmids were prepared for antibody expression. Antibodies were expressed with Expi-CHO Expression system (Gibco) for 10–12 d and the supernatants were harvested and purified by protein A...
Because of their low abundance, and finite resolving power of conventional analytical techniques, they are often overlooked in early drug development. Here, we present a case study where trace amount of a sequence variant is identified in a monoclonal antibody (mAb) based therapeutic protein by LC...