Quick Examples
ERBB2 - (chr) (gene)
EGFR - (chr) (gene)
hsa-let-7e - (chr) (miRNA)
hsa-mir-17 - (chr) (miRNA)
hsa-mir-31 - (chr) (miRNA)
Quick Search
Search a gene or miRNA:

( ex: TP53 or hsa-mir-200b )


Map of Significant Genes
AD : Gene AD      SCC : Gene SCC
Map of Significant miRNAs
AD : miRNA AD      SCC : miRNA SCC
Advanced search
( ex: Chromosome "20", "14q13.3" or others )
( ex: "Gene Name", "Accession number", "Gene ID", "Marker" or others )

Citation
To cite IGDB.NSCLC:
Kao S, Shiau CK, Gu DL, Ho CM, Su WH, Chen CF, Lin CH, Jou YS. IGDB.NSCLC: Integrated Genomic Database of Non-Small Cell Lung Cancer, Nucleic Acids Res. 2012 Jan 1; 40(D1): D972- D977.

PubMed Link
NAR Link

Tutorial
Chrmomsome view:
Chromesome Location Experimental Evidence Microarray CNA miRNA aCGH CGH-MDR LOH
Chromosome Location:
(1) Chromosome number.
(2) Showed region.
(3) Searched keyword location.

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Lung Cancer Genes with Experimental Evidence:
(1) Gene expression (red : up-regulation; green : down-regulation).
(2) Mutated gene.
(3) Expression or mutation date can be shown when mouse pointer moves over the gene. Then click the gene would hyperlink to gene view.

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Gene Expression Microarray Data:
(1) Show/hide AD or SCC microarray data.
(2) Microarray chip type and dataset name. ( HG_U95 : Affymetrix Human Genome U95A Array; HG_U133A : Affymetrix Human Genome U133A Array; HG_U133_Plus2 : Affymetrix Human Genome U133 Plus 2.0 Array; Stanford : Stanford; Agilent_HS_21.6K : Agilent Homo sapiens 21.6K custom array)
(3) Probeset.
(4) Gene Expression data (Gene name, Fold Change, p value) can be shown when mouse pointer moves over the probeset. Then click the probeset would hyperlink to gene view.
Fold Change (Y) = log2(tumor/normal ratio)
tumor/normal ratio = 2^Y

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Copy Number Alteration Data:
(1) Show/hide AD or SCC SNP data.
(2) Dataset Name, subtype of lung cancer, and data type. (SNP : single-nucleotide polymorphism; aCGH : Array comparative genomic hybridization;)
(3) SGOL : Segment Gain or Loss score ( Bioconductor : cghMCR Package)

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miRNA Expression Data:
(1) Show/hide AD or SCC miRNA expression data.
(2) Dataset Name.
(3) miRNA
(4) miRNA Expression data (miRNA name, mean value) can be shown when mouse pointer moves over the miRNA. Then click the miRNA would hyperlink to miRNA view.

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Paired (U133A/aCGH) AD Sample Data:
(1) U133A Probeset.
(2) Gene Expression data (Gene name, Fold Change, p value) can be shown when mouse pointer moves over the probeset. Then click the probeset would hyperlink to gene view.
Fold Change (Y) = log2(tumor/normal ratio)
tumor/normal ratio = 2^Y
(3) SGOL : Segment Gain or Loss score ( Bioconductor : cghMCR Package)

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Array CGH Data:
(1) Bacterial Artificial Chromosome (BAC) probe.
(2) Probe data (probe name, sample number, percentage %) can be shown when mouse pointer moves over the probe.

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CGH Minimal Deletion Region Data:
(1) Minimal Deletion Region.

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LOH Frequency Data:
(1) microsatellite marker.
(2) microsatellite marker data (marker name, sample number, percentage %) can be shown when mouse pointer moves over the marker.

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