Influence of DNA copy number and mRNA levels on the expression of breast cancer related proteins
Simen Myhre,Ole Christian Lingjærde,Ole Christian Lingjærde,Bryan T. Hennessy,Bryan T. Hennessy,Miriam Ragle Aure,Miriam Ragle Aure,Mark S. Carey,Jan Alsner,Trine Tramm,Jens Overgaard,Gordon B. Mills,Anne Lise Børresen-Dale,Anne Lise Børresen-Dale,Therese Sørlie +14 more
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TLDR
Stratification of tumors according to intrinsic subtype enabled identification of positive correlations between copy number levels, mRNA and protein expression that were undetectable when considering the entire sample set, and suggested subtype‐specific regulation that was not evident across the entire study set.About:
This article is published in Molecular Oncology.The article was published on 2013-06-01 and is currently open access. It has received 69 citations till now. The article focuses on the topics: Gene expression & Gene.read more
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MicroRNAs: Target Recognition and Regulatory Functions
TL;DR: In this article, a review outlines the current understanding of miRNA target recognition in animals and discusses the widespread impact of miRNAs on both the expression and evolution of protein-coding genes.
Journal ArticleDOI
A pan-cancer proteomic perspective on The Cancer Genome Atlas
Rehan Akbani,Patrick Kwok Shing Ng,Henrica M.J. Werner,Maria Shahmoradgoli,Fan Zhang,Zhenlin Ju,Wenbin Liu,Ji Yeon Yang,Kosuke Yoshihara,Jun Li,Shiyun Ling,Elena G. Seviour,Prahlad T. Ram,John D. Minna,Lixia Diao,Pan Tong,John V. Heymach,Steven M. Hill,Frank Dondelinger,Nicolas Städler,Nicolas Städler,Lauren Averett Byers,Funda Meric-Bernstam,John N. Weinstein,Bradley M. Broom,Roeland Verhaak,Han Liang,Sach Mukherjee,Sach Mukherjee,Yiling Lu,Gordon B. Mills +30 more
TL;DR: R reverse-phase protein arrays are used to analyze 3,467 patient samples from 11 TCGA “Pan-Cancer” diseases, using 181 high-quality antibodies that target 128 total proteins and 53 post-translationally modified proteins to provide a framework for determining the prognostic, predictive and therapeutic relevance of the functional proteome.
Journal ArticleDOI
Cancer-Associated Protein Kinase C Mutations Reveal Kinase’s Role as Tumor Suppressor
Corina E. Antal,Andrew M Hudson,Emily Kang,Ciro Zanca,Christopher Wirth,Natalie L. Stephenson,Eleanor W. Trotter,Lisa L. Gallegos,Crispin J. Miller,Frank B. Furnari,Tony Hunter,John Brognard,Alexandra C. Newton +12 more
TL;DR: It is established that PKC isozymes generally function as tumor suppressors, indicating that therapies should focus on restoring, not inhibiting, PKC activity.
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Breast cancer quantitative proteome and proteogenomic landscape
Henrik J. Johansson,Fabio Socciarelli,Nathaniel M. Vacanti,Nathaniel M. Vacanti,Mads H. Haugen,Yafeng Zhu,Ioannis Siavelis,Alejandro Fernandez-Woodbridge,Miriam Ragle Aure,Bengt Sennblad,Mattias Vesterlund,Rui M. M. Branca,Lukas M. Orre,Mikael Huss,Erik Fredlund,Elsa Beraki,Øystein Garred,Jorrit Boekel,Torill Sauer,Wei Zhao,Silje Nord,Elen K. Höglander,Daniel C. Jans,Hjalmar Brismar,Hjalmar Brismar,Tonje Husby Haukaas,Tone Frost Bathen,Ellen Schlichting,Bjørn Naume,Torben Lüders,Torben Lüders,Elin Borgen,Vessela N. Kristensen,Vessela N. Kristensen,Vessela N. Kristensen,Hege G. Russnes,Ole Christian Lingjærde,Ole Christian Lingjærde,Gordon B. Mills,Kristine Kleivi Sahlberg,Kristine Kleivi Sahlberg,Anne Lise Børresen-Dale,Anne Lise Børresen-Dale,Janne Lehtiö +43 more
TL;DR: An in-depth quantitative profiling of the proteome of 45 breast tumors is performed, and the authors show they can recapitulate the transcriptome-based classifications and identify many potentially antigenic tumour-specific peptides.
Journal ArticleDOI
Integrated Omics of Metastatic Colorectal Cancer
Chen Li,Chen Li,Yidi Sun,Guan Yu Yu,Jing Ru Cui,Zheng Lou,Hang Zhang,Ya Huang,Ya Huang,Chen Guang Bai,Lu Lu Deng,Peng Liu,Kuo Zheng,Yan Hua Wang,Yan Hua Wang,Qin Qin Wang,Qin Qin Wang,Qing Run Li,Qingqing Wu,Qi Liu,Yu Shyr,Yixue Li,Yixue Li,Yixue Li,Luo Nan Chen,Luo Nan Chen,Jia Rui Wu,Jia Rui Wu,Wei Zhang,Rong Zeng,Rong Zeng +30 more
TL;DR: The genomics, proteomics, and phosphoproteomics of 480 clinical tissues from 146 patients in a Chinese colorectal cancer cohort, among which 70 had metastatic CRC (mCRC), provide a valuable resource for better understanding of mCRC and has potential for clinical application.
References
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MicroRNAs: Target Recognition and Regulatory Functions
TL;DR: The current understanding of miRNA target recognition in animals is outlined and the widespread impact of miRNAs on both the expression and evolution of protein-coding genes is discussed.
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Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications
Therese Sørlie,Charles M. Perou,Robert Tibshirani,Turid Aas,Stephanie Geisler,Hilde Johnsen,Trevor Hastie,Michael B. Eisen,Matt van de Rijn,Stefanie S. Jeffrey,T. Thorsen,Hanne Quist,John C. Matese,Patrick O. Brown,David Botstein,Per Eystein Lønning,Anne Lise Børresen-Dale +16 more
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Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals
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Repeated observation of breast tumor subtypes in independent gene expression data sets
Therese Sørlie,Robert Tibshirani,Joel S. Parker,Trevor Hastie,James Stephen Marron,Andrew B. Nobel,Shibing Deng,Hilde Johnsen,Robert Pesich,Stephanie Geisler,Janos Demeter,Charles M. Perou,Per Eystein Lønning,Patrick O. Brown,Anne Lise Børresen-Dale,David Botstein +15 more
TL;DR: The results strongly support the idea that many of these breast tumor subtypes represent biologically distinct disease entities.
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Tamoxifen for early breast cancer: An overview of the randomised trials
TL;DR: The absolute improvement in recurrence was greater during the first 5 years, whereas the improvement in survival grew steadily larger throughout the first 10 years, and these benefits appeared to be largely irrespective of age, menopausal status, daily tamoxifen dose, and of whether chemotherapy had been given to both groups.
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