Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcription profling of human neuroblastoma samples to construct, validate and evalute a gene expression based classification of outcome of treatment

ABSTRACT: This set of 320 profiles was utilized to construct, validate and evaluate a gene-expression based classifier of outcome of neuroblastoma patients

ORGANISM(S): Homo sapiens

SUBMITTER: Yvonne Kahlert

PROVIDER: E-TABM-38 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Customized oligonucleotide microarray gene expression-based classification of neuroblastoma patients outperforms current clinical risk stratification.

Oberthuer André A Berthold Frank F Warnat Patrick P Hero Barbara B Kahlert Yvonne Y Spitz Rüdiger R Ernestus Karen K König Rainer R Haas Stefan S Eils Roland R Schwab Manfred M Brors Benedikt B Westermann Frank F Fischer Matthias M

Journal of clinical oncology : official journal of the American Society of Clinical Oncology 20061101 31

<h4>Purpose</h4>To develop a gene expression-based classifier for neuroblastoma patients that reliably predicts courses of the disease.<h4>Patients and methods</h4>Two hundred fifty-one neuroblastoma specimens were analyzed using a customized oligonucleotide microarray comprising 10,163 probes for transcripts with differential expression in clinical subgroups of the disease. Subsequently, the prediction analysis for microarrays (PAM) was applied to a first set of patients with maximally divergen ...[more]

PMID: 17075126

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Project description:Phenotypic plasticity, the ability of one genotype to express different phenotypes in response to changing environmental conditions, is one of the most common phenomena characterising the living world and is not only relevant for the ecology but also for the evolution of species. Daphnia, the waterflea, is a textbook example for predator induced phenotypic plastic defences including changes in life-history, behaviour and morphology. However, the analysis of molecular mechanisms underlying these inducible defences is still in its early stages.<br><br>We exposed Daphnia magna to chemical cues of the predator Triops cancriformis to identify key processes underlying plastic defensive trait formation. D. magna is known to develop an array of morphological changes in the presence of T. cancriformis including changes of carapace morphology and cuticle hardening. To get a more comprehensive idea of this phenomenon, we studied four different genotypes originating from habitats with different predation history, reaching from predator-free to temporary habitats containing T. cancriformis.<br><br>We analysed the morphologies as well as proteomes of predator-exposed and control animals. Three genotypes showed morphological changes when the predator was present. Using a high-throughput proteomics approach, we found 294 proteins which were significantly altered in their abundance after predator exposure in a general or genotype dependant manner. Proteins connected to genotype dependant responses were related to the cuticle, protein synthesis and calcium binding whereas the yolk protein vitellogenin increased in abundance in all genotypes, indicating their involvement in a more general response. Furthermore, genotype dependant responses at the proteome level correlated well with local adaptation to Triops predation.<br><br>Altogether, our study provides new insights concerning genotype dependant and general molecular processes involved in predator-induced phenotypic plasticity in D. magna.

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Dataset Information

Transcription profling of human neuroblastoma samples to construct, validate and evalute a gene expression based classification of outcome of treatment

Publications

Customized oligonucleotide microarray gene expression-based classification of neuroblastoma patients outperforms current clinical risk stratification.

Similar Datasets

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