Biobanks and repositories for biospecimens are vital for today’s clinical and bioindustry research. Full utilization of biobanks depends on their level of data standardization and availability of information about the housed biorepositories. As this information is generated in different environments, enforcement of standards may become challenging. Automation of sample registration reduces chances for human error, and is the best opportunity for conversions, cleaning and other data curation tasks. BC Platforms offers many versatile modules for clinical data standardization and sample tracking, which can be used in combination to create a powerful data warehouse inside your biobank.
BC Platforms have strong experience in building centralized data administration for distributed collections. We can advice you with your specific needs for connectivity and data accessibility, and integrate your dispersed data nodes to create a manageable view into your various data sources.
BC|SAMPLE is a multipurpose sample tracking and process management tool. BC|SAMPLE supports plate and sample –oriented workflows, location tracking, plate creation and processing, and instrument interfaces. Sample accumulation and processing reports are easily created, and protocols can be exported for liquid handling, or other, instruments. BC|SAMPLE stores repeated sample processing results for easy viewing of sample status and history.
BC|SAMPLE communicates with BC|DATA, BC|CLIN, and BC|GENOME allowing sample data to be cross-referenced with subject information. BC|SAMPLE conforms to the same data security features and standards as BC|DATA, providing group, role and dataset-level permission control, and full trail of sample ownership and history.
Genomic sample collections and laboratories
- Provides structured sample registration schemes with automated IDs
Synchronizes data input and editing with BC|DATA, when required
Follows repeated sample processing and provides results for reporting
Pipetting schemes and dilution calculations
Comes with a light-weight label editor supporting commonly used barcode formats
Reporting on sample processing and selected parameters
BC|CLIN is a flexible and scalable platform for managing patient data collections of all kinds. BC|CLIN offers easy implementation of web-based patient questionnaires for longitudinal studies, and comprehensive and easy tools for queries, reports, and stratification. Statistical programs can be used on data exports to create reports and to guide patient profiling. The platform facilitates harmonized data input from different sources, reducing risk of human error, and increasing the quality of the data collection. BC|CLIN conforms to strictest data security standards and controls user permissions at group, role and dataset levels.
BC|CLIN coexist seamlessly with BC|GENOME, presenting collected clinical data directly for analysis by the powerful tool pack in BC|GENOME, and embedding genomic analysis results within the patient data. BC|CLIN facilitates cross-queries to BC|SAMPLE for sample processing information, and stratification of patient collections based on sample information in BC|SAMPLE.
Epidemiology studies and clinical collections
Complex queries into patient data and history
Longitudinal clinical data accumulation
Genetic and sample –based stratification of patients
Global collaboration with assured data security
Complex patient questionnaires made simple – printed or as web forms
The core strength of BC operating system is in the ability to tie conventional database queries to complex statistical analysis workflows seamlessly – regardless of data volume or type of analysis. This core is a well-suited starting point for in-house development, and adapting established workflows for automation and parallelization. BC|DATA includes the foundation framework on top of which database administrators and bioinformaticians can build their own customized platforms, user interfaces, and community portals. It is therefore ideal for pioneering projects where very established or published tools do not yet exist, or are in need of optimization.
Pioneering data collections
Flexible data models for discovery
In-house method development
Ability to integrate custom-built statistical tools and scripts
Community interfaces and portals
Data schema for interacting with genomic database
API for user interface to pull data for queries
Hardware for massive data storage and heavy calculations does not come cheap. The development of cloud technologies has greatly improved the accessibility, usability and economy of rented resources. BC|RESOURCE is a bundle of options for archiving, backups, and extendable computation capacity implemented in the cloud services of the world’s best known providers. BC|RESOURCE provides an easily managed interface for renting and using cloud resources depending on your project’s needs. Options include long-term contracts for storage and backup, and peak-demand rentals for analysis capacity. Our cloud-team is very experienced with numerous varying scenarios and is happy to discuss with you about your specific needs and most economical options available.
Backups and archiving
Amazon S3 implementation for archives and rarely used data, which nevertheless is accessed regularly
Amazon Glacier implementation for backups and disaster-recovery, the ultimate data freezer
Analysis and computational resources
Amazon S2 cloud-servers as dedicated calculation nodes, directly connected to BC analysis queue and result collection system
IBM SoftLayer virtual and bare-metal servers as dedicated calculation nodes, directly connected to BC analysis queue and result collection system
IBM SoftLayer virtual and bare-metal servers for running integrated BC Operating System setups for distributed projects
Integration of various data sources into an accessible and harmonized collection is the greatest challenge in modern biological and medical research. The need for integration is two-dimensional: harmonization of data generated in different environments and by varying instrumentation, and converging of data hosted in distributed collections. BC|MERGE tackles both dimensions utilizing innovative BC Virtual File System, and automated workflows for data curation and harmonizing.
Geographically dispersed collections
BC Virtual File System implements gateways for databases, and file sharing nodes
Access to protected URLs, and private web services
Moving data across firewalls, and from provider to consumer
Public resources as external datasets
Collections combining data from varying environments
Conversion of data in different formats into harmonized collection
Manipulation of data to address typing mistakes, and constraints for measurable data
Enforcement of chosen data standards
Association between subject identifiers and respective biological sample identifiers
Manipulation of genomic data to tackle strand orientation, compatibility issues, and renaming of markers