Case Studies

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A single data processing platform that enables novel MS-based methods for in-depth characterization of biopharmaceuticals

This Case Study focuses on the work of the Merck Serono structural characterization laboratory in Guidonia, Italy, and describes how they developed novel and efficient MS-based methods for the analysis of charge-variants, glycoforms, and released glycans in biopharmaceuticals. Optimizing sample prep and separation procedures and streamlining MS data processing, analysis, and management enabled in-depth characterization with time-savings of up to 80% compared to conventional methods.   

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Swift implementation of tailored enterprise software solutions for MS-based analysis of novel biotherapeutics

In this Case Study, Juliet Padden PhD from Bayer Pharmaceuticals describes swift implementation of an automated MS-data processing system that delivered high-quality results and significant time-savings in characterization of novel classes of biopharmaceuticals.  

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Cell Painting Assay Results Using Deep Learning

In this application note, we show that using the deep-learning based solution Genedata Imagence, it was possible to analyze Cell Painting data for over 1500 test compounds within a few hours. Imagence produced classifications consistent with previously published compound clusters and uncovered additional test compounds belonging to each group.

Request HCS, Imaging
Pfizer Builds on the Genedata Biopharma E2E Workflow Platform

After an aborted attempt with a develop-as-you-go approach, Pfizer decided to evaluate the market in search of a commercial enterprise data management system for their large-molecule R&D groups. Pfizer chose the Genedata platform to serve as a central data backbone and application environment upon which they could build tools to flexibly address Pfizer-specific requirements and to drive innovation. After only four years, the system is now used by more than 250 people in 15 groups located at 6 Pfizer R&D sites around the globe and supports 200+ distinct projects.

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Automated Software-Driven Implementation of the Multi-Attribute Method (MAM) for Biotherapeutic Characterization

In this Case Study, Dr Rich Rogers of Just Biotherapeutics, Inc. describes how intelligent automation of MS data processing using Genedata Expressionist increases throughput, boosts productivity, and ensures high-quality results that can be easily shared across organizations, making Genedata Expressionist the software of choice for Multi-Attribute Method (MAM) implementations.

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Genedata Selector for Efficient and High Quality CHO Cell Line Development

This application note describes how Genedata Selector® can be used to analyze next generation sequencing (NGS) data from Cergentis' TLA technology in CHO cell line development and quality control. Cergentis' proprietary Targeted Locus Amplification (TLA) technology is a powerful tool to completely sequence expression constructs and their integration sites. Genedata Selector software simplifies the analysis of TLA data, providing scientists with the ability to generate and interpret results with confidence.

Request Cell Line Development, NGS
Efficient, automated data processing for a novel MS-based high-throughput screening platform

Genedata worked together with scientists at AstraZeneca to develop a flexible, automated data processing workflow for efficiently processing the large amounts of data generated by a new MS-based screening platform. Adopting Genedata Expressionist led to a seven-fold decrease in processing time with elimination of potentially error-inducing manual interactions. Full integration with Genedata Screener provides plate-wise visualization of results as a heat map, enabling routine QC and fast identification of potential hits.

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Precise Genome Editing with Genedata Selector

This application note describes how Genedata Selector can be used to improve efficiency and optimize
performance of genome editing techniques like CRISPR/Cas9.
With Genedata Selector, it is possible to:

  • Identify potential CRISPR target genes or pathways from either public or proprietary genomes
  • Predict gRNAs across the genome within a single secure software platform
  • Easily visualize unique gRNAs based on genomic location
  • Integrate genomic and phenotypic data for efficient validation of genome editing experiments
Request NGS, Cell Line Engineering, Strain Development, Cell Line Development
Metagenomics and Genedata Selector: Deciphering the Unknown

This application note describes how Genedata Selector can be used to optimize microbiome investigations. With Genedata Selector, it is possible to:

  • Perform NGS based metagenomics and transcriptomics analysis to enable taxonomic and functional profiling
  • Establish a centralized knowledge base of raw and metadata, metabolic pathways, and bio-marker panels
  • Support bio-monitoring and bio-orientation for process optimization and product development
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Genedata Selector for NGS-based Biosafety

This application note describes how Genedata Selector can be used to efficiently and reliably analyze and
manage next generation sequencing (NGS) data for the detection of adventitious agents, cell line identification, cell bank characterization. Genedata Selector, enables:

  • Bench scientists to easily perform NGS based adventitious agent detection, cell line identification and characterization in an automated and reproducible way, without the need for expert bioinformatics support
  • The implementation of an in-house end-to-end solution that is compliant within GMP environments
Request Cell Line Development, Cell Line Engineering, NGS
Developing a generic, high-throughput assay for characterization of DuoBody® Bispecific Ab samples using Genedata Expressionist®

Using Genedata Expressionist, scientists at Genmab established an automated MS-based high-throughput assay that provides qualitative and quantitative information on a bsAb preparation in a fraction of the time and effort required by conventional CEX-based methods. Compared to the CEX-based process, the time required for data acquisition and processing was reduced by 95% and the number of person hours dedicated to data processing was reduced by 70%.

Request Biologics, Mass Spectrometry
MorphoSys Accelerates Antibody R&D with Genedata Biologics

The MorphoSys implementation of Genedata Biologics® as their end-to-end workflow platform has resulted in a significant increase of efficiency across all R&D functions, including library generation, screening and selection, molecular biology, antibody screening, protein engineering, expression, purification, and analytics.

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Case Study: Immuno-oncology

Genedata Profiler™ enables translational and clinical researchers to overcome major clinical trial challenges. In a recent immuno-oncology (I-O) clinical trial, scientists used Genedata Profiler to analyze data from 45 patients and identify predictive biomarkers by integrating genomic, transcriptomic, and metabolomic data, and immunohistochemistry (IHC) tumor profiles. The biomarkers enable further definition of tumor subtypes and thus identification and selection of patient profiles that will benefit from the I-O therapy, consequently improving the outcome of the treatment.

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HCS Analysis Workflow at Amgen

This application note is a summary of a webinar given by Amgen, describing how Genedata Screener supports the Amgen high content screening (HCS) workflow, including image display, feature selection, and some of the improvements in the new version of Screener.

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Using Additional Metrics in Ion Channel Screening Analysis to Better Understand Underlying Mechanisms

This application note describes how Genedata Screener for Ion Channel Screening was used to introduce an additional informative parameter (the time constant tau) for high-throughput analysis of ion channel modulation from automatic patch clamping (APC) experiments.

A collaboration with Pfizer Neuroscience and Pain Research Unit (Cambridge, UK).

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Reducing Analysis Times for Large-Scale ThermoFluor Assays - A Collaboration With Bayer Pharma AG

This work outlines a universal solution for the analysis of ThermoFluor experiments, using Genedata Screener software. The analysis workflow before this integration consisted of conventional hit selection or an individual review of each melting curve. With the introduction of Screener, the total analysis time was decreased from three days to three hours, and the number of false positives was improved.

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Combination Colloquium Digest: Current Practices and Open Issues in Combination Screening

Compound Combination Screening is rapidly gaining ground as a new lead-finding technique for oncology, infectious diseases, and drug repurposing. At the Genedata SLAS2015 Combination Screening Colloquium, some of the industry's most experienced Combination screening scientists discussed combination screening analysis challenges and methods to meet these challenges. The following short report represents a digest of the colloquium and covers the main discussion topics.

Request Hit & Lead Identification, Compound Combinations
Automating Analysis of Mass Spectrometry Data to Quantify PTMs with Genedata Expressionist

Data analysis of mass spectrometry data can be automated and standardized to maximize productivity and drive quick, reproducible decisions. Analytical scientists at Janssen R&D’s established a streamlined protocol for the efficient analysis of biotherapeutics.

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Setting Up an HCS Data Analysis System

This case study describes the typical HCS infrastructures and goals, concept, and results for setting up an integrated HCA platform using Genedata Screener® for High Content Screening.

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