Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Antibody microarray profiling of pancreatic cancer using 12 urine samples

ABSTRACT: Antibody microarray based profiling of twelve urine samples.
3 healthy female
3 heatlhy male
3 female with pancreatic cancer
3 male with pancreatic cancer

ORGANISM(S): Homo sapiens

DISEASE(S): pancreatic adenocarcinoma

SUBMITTER: Christoph Schroeder

PROVIDER: E-MEXP-3006 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Assessment and optimisation of normalisation methods for dual-colour antibody microarrays.

Sill Martin M Schröder Christoph C Hoheisel Jörg D JD Benner Axel A Zucknick Manuela M

BMC bioinformatics 20101112

<h4>Background</h4>Recent advances in antibody microarray technology have made it possible to measure the expression of hundreds of proteins simultaneously in a competitive dual-colour approach similar to dual-colour gene expression microarrays. Thus, the established normalisation methods for gene expression microarrays, e.g. loess regression, can in principle be applied to protein microarrays. However, the typical assumptions of such normalisation methods might be violated due to a bias in the ...[more]

PMID: 21073702

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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.

Dataset Information

Antibody microarray profiling of pancreatic cancer using 12 urine samples

Publications

Assessment and optimisation of normalisation methods for dual-colour antibody microarrays.

Similar Datasets

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