An antibody campaign is the top
structure under which all antibody related data will be
generated and organized. In a campaign,
libraries - or pools of antibodies
- are created by registering an animal immunization or by
panning a recombinant library
against a target.
Individual clones from a library are isolated into
library samples, and can be
placed in microtiter plates.
Bionamic’s sample and plate system does not require any fixed
templates or workflows, instead it provides a powerful tool to
select and move any samples into new plates.
Sample assays can be uploaded
using a flexible import tool where assay values are assigned to
individual samples. The samples may, depending on your workflow,
also have antibody sequence data associated with them. The
sample assay selection
tool is a simple but powerful way to select samples based on
performance across multiple types of assays. The tool lets the
user use Bionamic’s tagging system to group samples containing
antibodies with interesting binding properties. The tag can
subsequently be used to identify the complete set of unique
variable region sequences after sequencing.
Antibody sequences are mapped to
the individual library samples in which they are identified.
Sequences may be registered on the
DNA or
protein level. If DNA sequences
are registered, they are automatically validated, transcribed to
RNA and translated into protein
sequences. Each unique combination of variable region sequences
are stored as VH-VL pairs and
carefully traced across all antibodies in the system. The VH-VLs
are IMGT numbered, lineage traced, and analyzed for common PTM
motifs.
During development, mutations may be introduced in VH-VL
sequences using Bionamic's IMGT based custom mutation
schemes, called
transformations.
Transformations can be applied in batch and will connect each
mutated VH-VL with the full history
of its parental sequences, eliminating any future confusion
about the variant origin.
Bionamic’s
molecular templates
provide an easy and efficient way to generate new antibodies
based on constant regions, VH-VLs and ligand sequences. The
templates allow batch generation of any type of antibodies
construct, including multispecific or antibodies fused with
other proteins. The templates work both on the protein and
(optionally) DNA level and are able to generate, name and
register both
antibodies and associated plasmids.
Production and
purification of antibodies
can also be registered and tracked with fast and simple tools.
The resulting batches and lots can be annotated with custom
protocols for production (cell line, volume, ...) and purification (column, buffer, ...). The
system automatically identifies the combinations of plasmids (if
available) that can be used to produce any antibody.
Analysis of data from
functional assays and quality control
of
purified antibody samples
can be performed using the same tools used to do
hit picking of library samples
during the screening phase.
The full discovery and development history of an
antibody is available and
accessible by simple navigation throughout this network of
relations. It can be used to answer questions like:
-
Has the VH-VL contained in this antibody been mutated, if
so, how and from what?
-
Which other antibodies use this (or some variant of this)
VH-VL?
-
Which productions and purifications have been made from this
antibody (or any antibody containing this VH-VL)?
