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Integrative analysi...
Integrative analysis of genome-wide gene copy number changes and gene expression in non-small cell lung cancer
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- Jabs, Verena (författare)
- TU Dortmund Univ, Fac Stat, Dortmund, Germany.
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- Edlund, Karolina (författare)
- Dortmund Univ, Leibniz Res Ctr Working Environm & Human Factors, Dortmund, Germany.
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- Koenig, Helena (författare)
- TU Dortmund Univ, Fac Stat, Dortmund, Germany.
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- Grinberg, Marianna (författare)
- TU Dortmund Univ, Fac Stat, Dortmund, Germany.
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- Madjar, Katrin (författare)
- TU Dortmund Univ, Fac Stat, Dortmund, Germany.
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- Rahnenfuehrer, Joerg (författare)
- TU Dortmund Univ, Fac Stat, Dortmund, Germany.
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- Ekman, Simon (författare)
- Karolinska Institutet
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- Bergkvist, Michael (författare)
- Gavle Cent Hosp, Dept Oncol, Gavle, Sweden.
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- Holmberg, Lars (författare)
- Uppsala universitet,Endokrinkirurgi,Reg Canc Ctr Uppsala Orebro, Uppsala, Sweden.;Kings Coll London, Fac Life Sci & Med, Div Canc Studies, London, England.
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- Ickstadt, Katja (författare)
- TU Dortmund Univ, Fac Stat, Dortmund, Germany.
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- Botling, Johan (författare)
- Uppsala universitet,Klinisk och experimentell patologi,Johan Botling
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- Hengstler, Jan G. (författare)
- Dortmund Univ, Leibniz Res Ctr Working Environm & Human Factors, Dortmund, Germany.
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- Micke, Patrick (författare)
- Uppsala universitet,Klinisk och experimentell patologi,Patrick Micke
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TU Dortmund Univ, Fac Stat, Dortmund, Germany Dortmund Univ, Leibniz Res Ctr Working Environm & Human Factors, Dortmund, Germany. (creator_code:org_t)
- 2017-11-07
- 2017
- Engelska.
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Ingår i: PLOS ONE. - : Public Library of Science (PLoS). - 1932-6203. ; 12:11
- Relaterad länk:
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https://doi.org/10.1...
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https://uu.diva-port... (primary) (Raw object)
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https://journals.plo...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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http://kipublication...
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Abstract
Ämnesord
Stäng
- Non-small cell lung cancer (NSCLC) represents a genomically unstable cancer type with extensive copy number aberrations. The relationship of gene copy number alterations and subsequent mRNA levels has only fragmentarily been described. The aim of this study was to conduct a genome-wide analysis of gene copy number gains and corresponding gene expression levels in a clinically well annotated NSCLC patient cohort (n = 190) and their association with survival. While more than half of all analyzed gene copy number-gene expression pairs showed statistically significant correlations (10,296 of 18,756 genes), high correlations, with a correlation coefficient >0.7, were obtained only in a subset of 301 genes (1.6%), including KRAS, EGFR and MDM2. Higher correlation coefficients were associated with higher copy number and expression levels. Strong correlations were frequently based on few tumors with high copy number gains and correspondingly increased mRNA expression. Among the highly correlating genes, GO groups associated with posttranslational protein modifications were particularly frequent, including ubiquitination and neddylation. In a meta-analysis including 1,779 patients we found that survival associated genes were overrepresented among highly correlating genes (61 of the 301 highly correlating genes, FDR adjusted p<0.05). Among them are the chaperone CCT2, the core complex protein NUP107 and the ubiquitination and neddylation associated protein CAND1. In conclusion, in a comprehensive analysis we described a distinct set of highly correlating genes. These genes were found to be overrepresented among survival-associated genes based on gene expression in a large collection of publicly available datasets.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Cancer och onkologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Cancer and Oncology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Klinisk laboratoriemedicin (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Clinical Laboratory Medicine (hsv//eng)
Nyckelord
- Pathology
- Patologi
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- ref (ämneskategori)
- art (ämneskategori)
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Jabs, Verena
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Edlund, Karolina
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Koenig, Helena
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Grinberg, Marian ...
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Madjar, Katrin
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Rahnenfuehrer, J ...
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visa fler...
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Ekman, Simon
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Bergkvist, Micha ...
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Holmberg, Lars
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Ickstadt, Katja
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Botling, Johan
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Hengstler, Jan G ...
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Micke, Patrick
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och Cancer och onkol ...
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Uppsala universitet
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Karolinska Institutet