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Since its inception, the Cancer Informatics Shared Resource (CISR) has promoted high quality, innovative
cancer research by providing members of the UW Carbone Cancer Center (UWCCC) with an informatics intellectual resource, including
advancements in Bioinformatics, Clinical Informatics, Image Analysis and Computational Biology.
Recent
developments include progress toward new computational facilities and new CISR faculty from the
Department of Biostatistics and Medical Informatics. These faculty bring expertise in genetics/genomics,
bioinformatics, imaging and visualization techniques. We have also made significant progress in clinical
informatics.
The UW Bioinfo-Service Virtual Center (http://bioinfo.wisc.edu/) has evolved as the multi-functional service center for laboratory researchers from various fields. The key feature of the services is the “group” functionality inherited from the so called BxAF framework: researchers can team up and share their research data. More tools/systems are being added daily and every researcher is guaranteed to be able to find something useful. Here is a list of main systems:
- BxAF BioInfoMan: for molecular biologists, covers protein and DNA sequence analysis, molecular cloning, and management of molecular biological data, e.g. DNA gel images, constructs, oligos…
- BxAF EzArray: for researchers (both non-experts and experts!) with microarray data, provides web-based Affymetric data management and instant on-line analysis from data pre-processing, quality assessment, statistical testing, to gene annotation. Users can even provide their own R scripts for data processing.
- BxAF mLIMS: for animal researchers, provides a perfect web location to manage laboratory animal information, including mice, cages, animal events (mouse pregnancy, littering…), and animal-related research results.
- BxAF LabStorage: for all laboratory members, provides a convenient way to organize every laboratory item, from freezer boxes to bookshelf items. It is powered with barcoding technologies: you can manage your laboratory in a similar way as supermarkets and scan an item barcode to retrieve all related information.
- BxAF InvMan: for all laboratory members, is a web-based group inventory management system. It solves the needs for an integrated, centralized, easy-to-use, and low cost system for inventory purchase requisition, inventory item ordering, item receiving, item positioning/repositioning, and item reserving/issuing procedures. Still writing down purchase requests on paper in your laboratory? It is time to switch to use a electronic one now.
- BxAF DIY DataMan: for all laboratory members, provides a way to manage and share data online for those with no training in programming and database designing. Without writing any codes, everybody can design professional databases, publishing their data, and freely share them with any specified persons on the system.
The CISR faculty and staff are members of the Department of Biostatistics and Medical Informatics and are
part of the Department’s training and research missions. CISR faculty participate in a training grant in bioinformatics funded by the National Library of Medicine. Pre- and postdoctoral students contribute to the cancer research activities as part of their training by developing new methods and refining existing methods, at no cost to the CISR.
In addition, faculty have their own research grants which also develop new methods, often stimulated by their collaborations with UWCCC investigators. This synergy between methodology research and collaboration has been a hallmark of this shared resource. In addition, bioinformatics faculty have adjunct appointments in the Department of Computer Sciences which also provides access to additional expertise. Finally, since the CISR faculty and staff are part of the Department of Biostatistics and Medical Informatics, they can also interact with leading biostatisticians.
Contact Information:
Jude Shavlik (608) 262-7784
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