| Mission and Central activities: |
| The GBG's mission is to manage and assess molecular interaction data obtained through multiple platforms,
increase the understanding of the effect of those interactions on the chemosensitivity of cancer, and create tools
that will facilitate that process. Translation of that information will be directed towards the recognition of
diagnostic and therapeutic cancer biomarkers, and directed cancer therapy. |
| Freely available for public use are our professional grade Miner Suite bioinformatics software package, as well as
our characterization and annalysis of the NCI-60 cancer cell lines, the DNA, RNA, protein, epigenetic and pharmacological
levels (accessible through CellMiner).
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| The Miner Suite of bioinformatic software packages and data analysis. |
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SpliceCenter: A suite of very user-friendly tools
designed for use by every bench biologist who needs to check for the impact of gene splice variation on common molecular biology technologies
including RT-PCR, RNAi, expression microarrays, and peptide-based assays.
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SpliceMiner: A web application for mapping microarrray probes to
transcripts in an exon-specific manner.
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CIMminer: A tool that produces Clustered Image Maps (CIMs) (i.e., clustered heat maps).
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GoMiner: A tool that leverages the Gene Ontology for biological interpretation of microarrays
data.
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High-Throughput GoMiner: A tool for batch processing of multiple microarrays and
integrated CIMs of the GoMiner results.
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MIMminer: A repository of the electronically navigatable Kohn Molecular Interaction Maps.
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MatchMiner:
A tool for batch-translation among many types of gene and protein identifiers.
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| Molecular databases for integromic research on the NCI-60 cancer cells |
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- CellMiner: A database and query tool
designed for the cancer research community to facilitate integration of the molecular datasets generated by the GBG
and its collaborators on the NCI-60.
The datasets accessible through CellMiner are:
- DNA fingerprinting of the NCI-60 cell line panel (Lorenzi et al, 2009)
 DNA: Roche NimbleGen 385K aCGH- DNA: aCGH Agilent 44K
- DNA: Bisulfite sequencing of E-cadherin promoter for DNA methylation
- DNA: Sequence mutation analysis of 24 known cancer genes
- RNA: Affymetrix HG-U133 Plus 2.0
- RNA: Agilent mRNA
- RNA: Agilent Human miRNA (V2)
- RNA: Ionizing Radiation 6727 probe, 2-color microarray
- RNA: microRNA expression using the OSU-CCC-hsa-miRNA-chip-V3 array
- RNA: Affymetrix HG-U133 44K probeset microarray
- RNA: Affymetrix HG-U95 65K probeset microarray
- RNA: RT-PCR analysis for 48 ABC transporters
- RNA: Ohio State Univ. membrane transporter and channel gene microarray
- RNA: cDNA 2-color array using the Incyte, Inc. 9700 clone microarray
- Protein: Reverse-phase Lysate array
- Drug: A118 - Activities of 118 drugs with known 2D structure, mechanism of action and tested at least 4 times
- Drug: A1429 - Activities of 1429 drugs with known 2D structure and tested at least 4 times
- Drug: A4463 - Activities of 4463 drugs with known 2D structure and tested at least 2 times
- DNA: Spectral karyotyping of chromosomal aberrations
available at NCBI SKY/M-FISH and CGH Database
or SKYGRAMS at NCI DTP
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