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![Page 1: LiveBASE, the Bioinformatics Application SuitE. Introduction: Mission Statement Leading Provider of Business Process Integration Solutions for Life Science.](https://reader030.fdocuments.us/reader030/viewer/2022033101/56649f305503460f94c4b1e8/html5/thumbnails/1.jpg)
LiveBASE, the Bioinformatics Application SuitE
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Introduction:Mission Statement
Leading Provider of
Business Process Integration
Solutions for
Life Science Industry
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BPI for Life Sciences
Application Management
KnowledgeManagement
DataManagement
Databases Web Contents
Legacy Systems(e.g. HR, CRM, Analytical)
Equipment Process System
KM Tools
22 Nov 2002, Computerworld
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Features of LiveBASE
• Integrate databases and applications
• Integrate public domain and commercial systems that visualize DNA sequences, proteins, etc.
• Include connectors to manage data formats
• Run applications from legacy Operating Systems
LiveQuest
Connectors
EMBOSS
IBM DiscoveryLink LION SRS
LiveBASE
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How LiveBASE Works
Drag-and-dropapplications
to form process
PersonalizeProcess
Schedule andExecute
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Features of LiveBASE
• Distributed and parallel computing
• Applications can be distributed across geographical boundaries
• Applications can be run in parallel
• Allow interactive or fully automated processing
• Process can be stopped halfway to receive inputs from users
• Include Viewer for images, XML, structures, movies, etc.
• Process can be automated if default values for applications are filled
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A Demo of LiveBASE
OpenWorkflow
OpenBubblelist LinkBubble
InsertBubble
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An application of LiveBASE: Genomics and Proteomics Studies
chromatogram DNA
Sequence Modification
Sequence Similarity
Search for Regulatory Sites
Suggest Coding Regions
Translation
Protein Properties
merger: join two sequences
revcomp: make a complementary strand
abiview: convert ABI chromatogram to a sequence in AGCT
search many sequences :(BLAST, FASTA)
pair wise :water, needle, seqmatchall
multiple :emma + (clustalW)
fuzznuc: pattern matching
getorf: ORF extraction
cpgreport: infer CpG islands
chips: codon usage
wobble: 3-base periodicity
motif search :fuzzpro, patmotifs
sequence-feature extraction :antigenic, pepcoil, sigcleave, tfscan
Protein Functions
translate: tranlation to amino acids
motif search, specialized :digest: restriction enzyme sites
physical-chemical properties :iep: isoelectric point
charge: charge plotpepwindow: average hydropathy
secondary-structure prediction :
garnier
Phylogenetics
Pasimony, Distance Matrices
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An application of LiveBASE: ABIView for Chromatograph viewing
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An application of LiveBASE: Genomics and Proteomics Studies
Sequence Alignment Translation & Site Searching
Protein Function AnalysisProtein Property Analysis
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KO
OP
LAT
FO
RM
LIVE
PO
RT
AL
Technologies of KOOPrime:KOOPrime Solutions
HIGH THROUGHPUT SCREENING
GENOMICS, PROTEOMICS LAB MGT AND ANALYSIS
HOSPITAL HL7 EXCHANGE
CLINICAL TRIAL SYSTEM
KOOP-EDUCATION SYSTEM
HEALTH TRACKING SYSTEM
PRE-CLINICAL TRIAL SYSTEM
TISSUE REGISTRY
LiveBASE
LiveLINKS
LiveXchange
LiveQuest
LiveIDEA
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Different modes of deployment
Individual Classroom Based
Enterprise Wide
LiveBASE Lite LiveBASE Enterprise (APBioBox)
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Why LiveBASE?All for One and One for All!
End-to-end Integration and Automation
Support EMBOSS, MS Excel and other tools
Distributed Computing to manage compute workload
Connectors to support BLAST, EMBL and other formats
Open-ended to integrate more tools
Reduce learning curve
Set of processes for jump-start
Sample Data/Files as inputs for processes
Knowledge based
Visual drilling interfaces facilitate top-down learning