Transcriptomics

Dataset Information

9

A microRNA-based primary tumor site classification of liver core biopsies


ABSTRACT: To develop a classifier based on microRNAs for primary tumor site identification of liver core biopsies and to explore the influence of surrounding normal liver tissue on classification. Tissue samples from 333 patients, corresponding to one of the following ten assay classes, were obtained from archives of the pathology department, Copenhagen University Hospital, Rigshospitalet, Denmark: Lung cancer, breast cancer, gastric/cardia cancer, colorectal cancer, bladder cancer, pancreatic cancer, hepatocellular carcinoma, cholangiocarcinoma, squamous cell cancers of different origin, and normal liver tissue

ORGANISM(S): Homo sapiens  

SUBMITTER: Ben Vainer   Mette Madsen  Bodil L Petersen  Niels R Hansen  Katharina Anne Perell  Birgitte Federspiel  Martin Vincent  Gedske Daugaard  Lennart Friis-Hansen  Anne K Møller  Finn C Nielsen  Katharina Perell 

PROVIDER: E-GEOD-51429 | ArrayExpress | 2013-10-19

SECONDARY ACCESSION(S): GSE51429PRJNA223156

REPOSITORIES: GEO, ArrayExpress

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Publications

Modeling tissue contamination to improve molecular identification of the primary tumor site of metastases.

Vincent Martin M   Perell Katharina K   Nielsen Finn Cilius FC   Daugaard Gedske G   Hansen Niels Richard NR  

Bioinformatics (Oxford, England) 20140124 10


MOTIVATION: Contamination of a cancer tissue by the surrounding benign (non-cancerous) tissue is a concern for molecular cancer diagnostics. This is because an observed molecular signature will be distorted by the surrounding benign tissue, possibly leading to an incorrect diagnosis. One example is molecular identification of the primary tumor site of metastases because biopsies of metastases typically contain a significant amount of benign tissue. RESULTS: A model of tissue contamination is pre  ...[more]

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