Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Comparative genomic hybridization of human malignant peripheral nerve sheath tumors and normal reference DNA

ABSTRACT: DNA copy number profiling of malignant peripheral nerve sheath tumours

INSTRUMENT(S): Agilent G2565BA

ORGANISM(S): Homo sapiens

DISEASE(S): normal

SUBMITTER: Stine Kresse

PROVIDER: E-MEXP-869 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

DNA copy number changes in high-grade malignant peripheral nerve sheath tumors by array CGH.

Kresse Stine H SH Skårn Magne M Ohnstad Hege O HO Namløs Heidi M HM Bjerkehagen Bodil B Myklebost Ola O Meza-Zepeda Leonardo A LA

Molecular cancer 20080603

<h4>Background</h4>Malignant peripheral nerve sheath tumors (MPNSTs) are rare and highly aggressive soft tissue tumors showing complex chromosomal aberrations. In order to identify recurrent chromosomal regions of gain and loss, and thereby novel gene targets of potential importance for MPNST development and/or progression, we have analyzed DNA copy number changes in seven high-grade MPNSTs using microarray-based comparative genomic hybridization (array CGH).<h4>Results</h4>Considerable more gai ...[more]

PMID: 18522746

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Project description:Approximatively 75% of the genome of S. aureus (“core” genome) are highly conserved between strains, whereas the remaining 25% (“accessory” genome) are composed of variable regions that are mostly composed of mobile genetic elements (MGE), containing virulence and resistance genes. We have developed a composite DNA-microarray (StaphVar Array) which selectively targets 403 genes located on the accessory or core variable genome. Target genes encode antimicrobial resistance factors (35 %), virulence factors (28 %) and adhesins (31%). This microarray was validated with reference strains and used to characterize the genomic DNA of 13 community-acquired methicillin resistant S. aureus (CA-MRSA) strains representative of all the Multilocus Sequence Types (STs) described to date in Belgium. Analysis of gene content of 8 reference strains by the StaphVar Array matched 96 to 99% of the theoretical results. Analysis of CA-MRSA strains showed that 54.4 % of the genes tested were strain-dependent. Strains presented specific exotoxin, enterotoxin, cytolysin and adhesin gene profile by multi-locus sequence typing (MLST) lineage. One exception to these “lineage-specific” gene profile was the variable presence of the Arginin Catabolic Mobile Element (ACME, characteristic of the USA300 clone) within ST8 strains. In conclusion, this novel StaphVar array enables characterization of more than 400 variable resistance and virulence determinants in S. aureus strains. CA-MRSA strains from Belgium displayed extensive diversity in virulence and resistance profile. The presence of the USA 300 clone in our country was confirmed. Although mainly located on MGE, association of virulence genes were highly conserved within strains of the same MLST lineage. CGH microarray was performed on 13 epidemiologically distinct clinical isolates of methicillin resistant S. aureus. S. aureus labeled genomic DNA were hybridized to StaphVar arrays containing 1326 60mer oligonucleotide probes (Eurogentec, Belgium).

Dataset Information

Comparative genomic hybridization of human malignant peripheral nerve sheath tumors and normal reference DNA

Publications

DNA copy number changes in high-grade malignant peripheral nerve sheath tumors by array CGH.

Similar Datasets

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