Genedata Expressionist
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Application data |
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| Created by | Genedata AG |
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| Biological application domain(s) | Genomics, Epigenetics, SNP detection, Indel detection, ChIP-seq, RNA-Seq, Transcriptomics, Sequencing, Indel detection, Copy number estimation, Gene structure, DNA methylation, Laboratory information management |
| Principal bioinformatics method(s) | Sequence alignment, Annotation, Bisulfite mapping, Clustering, Gene expression analysis, Genome visualisation, Read mapping, Sequencing quality control, RNA-Seq analysis, Sequence analysis, Statistical calculation |
| Technology | Any |
| Created at | Basel, Switzerland |
| Maintained? | Yes |
| Input format(s) | 2bit, FASTA, nib, FASTQ, QSEQ, BAM, SAM, bedGraph, VCF, BED, GDC, GFF, GTF, and many others. |
| Software features | Data processing, Data management, Data analysis, Data storage, Downstream analysis, Pipeline Management, Workflows, Reporting, Audit Trail, User Management, Data Visualisation |
| Programming language(s) | Java |
| Software libraries | Shell API, a generic interface for easily calling external programs (e.g. Bash, Perl, Python and R). |
| Licence | Commercial |
| Operating system(s) | Windows, Linux |
| Contact: | europe@genedata.com |
Summary: Genedata Expressionist performs efficient and quality compliant analysis of next generation sequencing (NGS) and other genomic profiling data 200px|right
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Description
Genedata Expressionist is the leading software platform for the efficient and quality compliant analysis of next generation sequencing (NGS) and other genomic profiling data, often used in translational research. The highly scalable enterprise system can simultaneously process thousands of experiments in high throughput. By utilizing standardized and end-to-end traceable NGS data analysis workflows, an adaptable data management system with strict user management, audit trailing, and reporting, the platform fully meets the highest regulatory/compliance standards in the pharmaceutical industry.
Relied on by researchers applying high-density analytical technologies, Genedata Expressionist integrates and analyzes all genomics (DNA-Seq.), transcriptomics (RNA-Seq.), epigenomics (ChIP-seq. and Methyl-Seq.) and phenotypic data within a single high-throughput system. Built on an adaptable and flexible client-server architecture, the solution thrives on large and complex experimental data sets from all major vendors and technology platforms and can be easily integrated into existing research IT environments. Advanced interactive data mining and visualizations (e.g. the most advanced interactive genome browser) are complemented by statistical applications including t-Test, ANOVA, linear models, Principal Components Analysis (PCA), classification algorithms, survival time analysis, and many more. Via a flexible application program interface (Shell API), the Expressionist platform provides a generic interface for easily federating the latest algorithms (i.e. R-, Bash-, Perl-, and Python-scripts). The underlying and fully integrated data management system structures all raw and processed data, workflows, analysis steps and results in projects and allows interdisciplinary teams to efficiently collaborate. Strict access control, audit trailing, and high data security standards allow the deployment in a quality controlled environment.
Key enterprise features that sets this platform apart from other solutions include:
• Complete auditing trail and reporting of all processes
• Fine grained user management and access authorization
• QC workflows and approval processes
• Best-in-class graphical workflows ensure enterprise-wide standardization and reproduction
• A detailed method management system that allows SOP approval and execution
• Out of the box cluster support, also for third party tools that don’t support parallel environments themselves
• Automatic creation of detailed reports with optional approval process
• Data protection and privacy of personal information
• Advanced Data Management functionality & Life Cycle Management
• Proven scalability, 100s of users, 1000s of NGS experiments
• Rich statistical toolbox covers a wide range of data analysis requirements
• Unified multi-omics enterprise system for data integration, analysis, and management
Designed for high quality data within a secure enterprise framework, Genedata Expressionist delivers, out-of-the-box, a high degree of built-in business logic that automates complex analysis workflows to provide compliance with clinical and pharmaceutical standards. Its uniqueness is based on highly scalable database functionalities combined with quality control features, sophisticated statistical analysis and visualization capabilities, which enable scientists to efficiently solve important scientific problems in today’s drug discovery and related life science research.
• Full, source-independent data integration maximizes value of NGS data
• Integration of diverse in-house and public data maximizes productivity
• Unified system guarantees high quality results and traceable data management
• Strengthens collaboration within interdisciplinary teams of scientists
• Significantly reduces time and cost of NGS data analysis and data management
• GxP compliance facilitates FDA submissions
• Integrated biological knowledge helps to bridge the gap between statistics and biology
Links
- Genedata Expressionist Homepage [ edit link ]
- Genedata Expressionist Publication full text [ edit link ]
References
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