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Protocols and Applications

Application

Benchling for Antibody R&D

Innovations in monoclonal antibody technology, bispecifics, and antibody-drug conjugates continue to push the envelope of antibody efficacy and safety. But the industry requires a new kind of digital solution that can offer a holistic view of antibody research and development, integrating large and ... More


Application

Benchling for Gene Therapy & Gene Editing R&D

Modern gene therapy requires investigation of a wide variety of genes of interest, engineering of delivery vectors, and optimization of vector production processes. This necessitates a strong digital foundation to comprehensively characterize gene therapy candidates to bring the best products into t... More


Application

The Benchling Life Sciences R&D Cloud

Life science R&D is becoming more complex. Companies need software built for the new way of doing science, or they risk falling behind the next generation of therapeutic development. Enter Benchling. Benchling connects the entire R&D lifecycle — from project documentation and data acquisition to seq... More


Protocol

Rapid metabolic phenotyping in SARS-CoV-2 patients using the impact II QTOF MS system

The impact II QTOF system meets the critical elements of sensitivity, selectivity, accuracy, and precision for targeted metabolite analysis. The continuous collection of both MS and MS/MS data provides an exponentially deeper and broader pool of data valuable for subsequent retrospective discovery o... More


Protocol

4D-Lipidomics™ workflow for increased throughput

Lipid profiling from complex lipid extracts can be a challenging and time consuming task. The high complexity of samples and co-elution of isobaric or isomeric compounds complicate the confident annotation of lipids. The presented 4D-Lipidomics workflow simplifies and streamlines the annotation and ... More


Protocol

Lentiviral titering by crystal violet staining

This protocol provides an example for titering lentiviral particles using crystal violet staining in a 6-well format to obtain transducing units per mL (TU/mL). Once lentiviral particles are packaged and collected, small aliquots should be frozen at –80°C. One aliquot should be thawed on ice and use... More


Protocol

Multiplexed, trackable CRISPR-based genome engineering for optimization of heterologous protein expression and activity in E. coli

This work demonstrates the use of the Onyx platform for interrogation and optimization of heterologous proteins in E. coli. Compared to traditional methods for protein engineering, such as random mutagenesis or targeted site-directed mutagenesis approaches, the Onyx technology dramatically increases... More


Protocol

Massively parallel genome engineering followed by pooled growth selections for rapid target discovery in microbes

The ability to engineer the entire genome of microorganisms at a massively parallel scale using the Onyx platform will reshape the manner in which researchers perform pooled cultivation experiments (such as ALE) and generate data sets. Here, Onyx technology was used to rapidly generate genomewide k... More


Protocol

Dharmacon Edit-R crRNA Libraries

Libraries of predesigned synthetic crRNAs provide an opportunity to apply the CRISPR-Cas9 system for functional gene knockout analysis, or dCas9-VPR system for transcriptional gene activation, in an arrayed format. Dharmacon crRNA libraries for functional gene knockout consist of Edit-R synthetic cr... More


Application

Rebuilding evolutionary success: Using Inscripta’s Onyx Digital Genome Engineering Platform to ease and enhance Adaptive Laboratory Evolution experiments

Adaptive Laboratory Evolution (ALE) is a powerful approach to leverage biology’s evolutionary capacity to develop strains that thrive in challenging growth environments, with applications to biotechnology and bioproduction and for basic biochemical discovery. ALE experiments have been enabled by nex... More