Desmoplastic Melanoma

UID: 10579

Author(s): Shain, Alan H., Bastian, Boris C.

Publisher(s): University of California San Francisco (UCSF)

Description: Summary from the GEO: " High resolution aCGH was performed on 10 primary Desmoplastic Melanomas (DMs). DMs are a rare subtype of melanoma known for their pronounced desmoplastic stroma and spindled melanocytes. 10 samples were hybridized to Agilent 1 Million feature two color arrays as compared to a panel of normal male DNA. 6 samples were hybridized to Agilent 244K feature two color arrays as compared to a panel of normal male DNA. 34 samples were hybridized to Agilent 180K feature two color arrays as compared to a panel of normal male DNA."

Overall Design from the GEO: "50 unique primary tumors were hybridized compared to normal male DNA."

Subject of Study

Subject(s)

Subject Gender

Male

OncoTree Cancer Type(s)

Desmoplastic Melanoma
Melanoma

Access via GEO
Plain Text Data of genome variation profiling by genome tiling array
Accession #: GSE55150

Access via BioProject
Information on the overall initiative
Accession #: PRJNA238646
Access Restrictions: Free to All
Access Instructions: The NCBI Gene Expression Omnibus and BioProject databases provide open access to these files.
Associated Publications: Shain A, Garrido M, Botton T, Tet al. Exome sequencing of desmoplastic melanoma identifies recurrent NFKBIE promoter mutations and diverse activating mutations in the MAPK pathway. Nature Genetics. 2015; 47(10):1194-1199.
Data Type: Genomic
Equipment Used: Agilent-014693 Human Genome CGH Microarray 244A
Array Comparative genomic hybridization (CGH) has been developed as a molecular test for chromosomal analysis

Agilent-021529 Human CGH Whole Genome Microarray 1x1M (G4447A)
Array Comparative genomic hybridization (CGH) has been developed as a molecular test for chromosomal analysis

Agilent-022060 SurePrint G3 Human CGH Microarray 4x180K
Array Comparative genomic hybridization (CGH) has been developed as a molecular test for chromosomal analysis
Software Used: GEO2R
Use GEO2R to compare two or more groups of Samples in order to identify genes that are differentially expressed across experimental conditions. Results are presented as a table of genes ordered by significance.
Dataset Format(s): Plain Text, TAR
Dataset Size: 4.5 GB (TAR)

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