Large-scale RNA-Seq Transcriptome Analysis of 4043 Cancers and 548 Normal Tissue Controls across 12 TCGA Cancer Types
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Title
Large-scale RNA-Seq Transcriptome Analysis of 4043 Cancers and 548 Normal Tissue Controls across 12 TCGA Cancer Types
Authors
Keywords
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Journal
Scientific Reports
Volume 5, Issue 1, Pages -
Publisher
Springer Nature
Online
2015-08-21
DOI
10.1038/srep13413
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Note: Only part of the references are listed.- A Gprc5a Tumor Suppressor Loss of Expression Signature Is Conserved, Prevalent, and Associated with Survival in Human Lung Adenocarcinomas
- (2015) Humam Kadara et al. NEOPLASIA
- An 11-nt sequence polymorphism at the 3′UTR of human SFTPA1 and SFTPA2 gene variants differentially affect gene expression levels and miRNA regulation in cell culture
- (2014) Patricia Silveyra et al. AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY
- Genotype–Phenotype Correlations for Infants and Children with ABCA3 Deficiency
- (2014) Jennifer A. Wambach et al. AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE
- Claudin-18 Deficiency Results in Alveolar Barrier Dysfunction and Impaired Alveologenesis in Mice
- (2014) Michael J. LaFemina et al. AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY
- Identification and examination of a novel 9-bp insert/deletion polymorphism on porcineSFTPA1exon 2 associated with acute lung injury using an oleic acid-acute lung injury model
- (2014) Yuebo Zhang et al. ANIMAL SCIENCE JOURNAL
- FOXM1 and androgen receptor co-regulate CDC6 gene transcription and DNA replication in prostate cancer cells
- (2014) Youhong Liu et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- UHRF1 Overexpression Drives DNA Hypomethylation and Hepatocellular Carcinoma
- (2014) Raksha Mudbhary et al. CANCER CELL
- HMMR Maintains the Stemness and Tumorigenicity of Glioblastoma Stem-like Cells
- (2014) J. Tilghman et al. CANCER RESEARCH
- DNA methylation profile and expression of surfactant protein A2 gene in lung cancer
- (2014) Melissa Grageda et al. EXPERIMENTAL LUNG RESEARCH
- Aberrantly activated claudin 6 and 18.2 as potential therapy targets in non-small-cell lung cancer
- (2014) Patrick Micke et al. INTERNATIONAL JOURNAL OF CANCER
- IL-33 promotes ST2-dependent lung fibrosis by the induction of alternatively activated macrophages and innate lymphoid cells in mice
- (2014) Dong Li et al. JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY
- Spindle and kinetochore-associated protein 1 is overexpressed in gastric cancer and modulates cell growth
- (2014) Wei Sun et al. MOLECULAR AND CELLULAR BIOCHEMISTRY
- Overexpression of CIP2A is an independent prognostic indicator in nasopharyngeal carcinoma and its depletion suppresses cell proliferation and tumor growth
- (2014) Na Liu et al. Molecular Cancer
- A nineteen gene-based risk score classifier predicts prognosis of colorectal cancer patients
- (2014) Seon-Kyu Kim et al. Molecular Oncology
- Alternative rearrangements—targeting ROS1 in NSCLC
- (2014) David Killock Nature Reviews Clinical Oncology
- A large kindred of pulmonary fibrosis associated with a novel ABCA3 gene variant
- (2014) Ilaria Campo et al. RESPIRATORY RESEARCH
- Clinical behavior of chromophobe renal cell carcinoma is less aggressive than that of clear cell renal cell carcinoma, independent of Fuhrman grade or tumor size
- (2014) Sandra Steffens et al. VIRCHOWS ARCHIV
- GSAASeqSP: A Toolset for Gene Set Association Analysis of RNA-Seq Data
- (2014) Qing Xiong et al. Scientific Reports
- Biomolecular Events in Cancer Revealed by Attractor Metagenes
- (2014) Wei-Yi Cheng et al. PLoS Computational Biology
- Pathway-Centric Integrative Analysis Identifies RRM2 as a Prognostic Marker in Breast Cancer Associated with Poor Survival and Tamoxifen Resistance
- (2014) Nagireddy Putluri et al. NEOPLASIA
- DNA Methyltransferases: A Novel Target for Prevention and Therapy
- (2014) Dharmalingam Subramaniam et al. Frontiers in Oncology
- Childhood lung function and the association with β2-adrenergic receptor haplotypes
- (2013) Tale M Torjussen et al. ACTA PAEDIATRICA
- CIP2A Modulates Cell-Cycle Progression in Human Cancer Cells by Regulating the Stability and Activity of Plk1
- (2013) J.-S. Kim et al. CANCER RESEARCH
- The Exomes of the NCI-60 Panel: A Genomic Resource for Cancer Biology and Systems Pharmacology
- (2013) O. D. Abaan et al. CANCER RESEARCH
- Oncogenic role of kinesin proteins and targeting kinesin therapy
- (2013) Xinran Liu et al. CANCER SCIENCE
- Long-term IL-33–producing epithelial progenitor cells in chronic obstructive lung disease
- (2013) Derek E. Byers et al. JOURNAL OF CLINICAL INVESTIGATION
- Mahanine restores RASSF1A expression by down-regulating DNMT1 and DNMT3B in prostate cancer cells
- (2013) Soumik Agarwal et al. Molecular Cancer
- Signatures of mutational processes in human cancer
- (2013) Ludmil B. Alexandrov et al. NATURE
- WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013
- (2013) Jing Wang et al. NUCLEIC ACIDS RESEARCH
- Data, information, knowledge and principle: back to metabolism in KEGG
- (2013) Minoru Kanehisa et al. NUCLEIC ACIDS RESEARCH
- The Motor Protein KIF14 Inhibits Tumor Growth and Cancer Metastasis in Lung Adenocarcinoma
- (2013) Pei-Fang Hung et al. PLoS One
- Comprehensive identification of mutational cancer driver genes across 12 tumor types
- (2013) David Tamborero et al. Scientific Reports
- Deciphering Signatures of Mutational Processes Operative in Human Cancer
- (2013) Ludmil B. Alexandrov et al. Cell Reports
- DNMT1 genetic polymorphisms affect breast cancer risk in the central European Caucasian population
- (2013) Kathrin Kullmann et al. Clinical Epigenetics
- DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer
- (2013) Ali Bashashati et al. GENOME BIOLOGY
- Targeting FOXM1 in cancer
- (2012) Marianna Halasi et al. BIOCHEMICAL PHARMACOLOGY
- Chromosome Instability Modulated by BMI1-AURKA Signaling Drives Progression in Head and Neck Cancer
- (2012) C.-H. Chou et al. CANCER RESEARCH
- Regulation of Embryonic and Induced Pluripotency by Aurora Kinase-p53 Signaling
- (2012) Dung-Fang Lee et al. Cell Stem Cell
- UbcH10 overexpression in human lung carcinomas and its correlation with EGFR and p53 mutational status
- (2012) Pierlorenzo Pallante et al. EUROPEAN JOURNAL OF CANCER
- STAT3 activation and aberrant ligand-dependent sonic hedgehog signaling in human pulmonary adenocarcinoma
- (2012) Qin Yang et al. EXPERIMENTAL AND MOLECULAR PATHOLOGY
- E2F7, a novel target, is up-regulated by p53 and mediates DNA damage-dependent transcriptional repression
- (2012) L. A. Carvajal et al. GENES & DEVELOPMENT
- The transcriptional landscape and mutational profile of lung adenocarcinoma
- (2012) J.-S. Seo et al. GENOME RESEARCH
- Ki-67 expression in axillary lymph node metastases in breast cancer is prognostically significant
- (2012) Kareem Tawfik et al. HUMAN PATHOLOGY
- The IL6R variation Asp358Ala is a potential modifier of lung function in subjects with asthma
- (2012) Gregory A. Hawkins et al. JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY
- ROS1 Rearrangements Define a Unique Molecular Class of Lung Cancers
- (2012) Kristin Bergethon et al. JOURNAL OF CLINICAL ONCOLOGY
- MicroRNA-203 suppresses cell proliferation and migration by targeting BIRC5 and LASP1 in human triple-negative breast cancer cells
- (2012) Chen Wang et al. JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH
- Hepatoma-derived growth factor regulates breast cancer cell invasion by modulating epithelial-mesenchymal transition
- (2012) San-Cher Chen et al. JOURNAL OF PATHOLOGY
- g-Protein Coupled Receptor Family C, Group 5, Member A ( gprc5a ) Expression Is Decreased in the Adjacent Field and Normal Bronchial Epithelia of Patients with Chronic Obstructive Pulmonary Disease and Non–Small-Cell Lung Cancer
- (2012) Junya Fujimoto et al. Journal of Thoracic Oncology
- Enhancement of lung tumorigenesis in a Gprc5a Knockout mouse by chronic extrinsic airway inflammation
- (2012) Peter Barta et al. Molecular Cancer
- p53 mutations in cancer
- (2012) Patricia A. J. Muller et al. NATURE CELL BIOLOGY
- Interferon (Alpha, Beta and Omega) Receptor 2 Is a Prognostic Biomarker for Lung Cancer
- (2012) Sonosuke Tanaka et al. PATHOBIOLOGY
- An intronic ABCA3 mutation that is responsible for respiratory disease
- (2012) Amit Agrawal et al. PEDIATRIC RESEARCH
- Methylation of Wnt7a Is Modulated by DNMT1 and Cigarette Smoke Condensate in Non-Small Cell Lung Cancer
- (2012) Meredith A. Tennis et al. PLoS One
- Secreted protein, acidic and rich in cysteine-like 1 (SPARCL1) is down regulated in aggressive prostate cancers and is prognostic for poor clinical outcome
- (2012) P. J. Hurley et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Mutant surfactant A2 proteins associated with familial pulmonary fibrosis and lung cancer induce TGF- 1 secretion
- (2012) M. Maitra et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Pulmonary alveolar microlithiasis. State-of-the-art review
- (2012) Flávia Angélica Ferreira Francisco et al. RESPIRATORY MEDICINE
- Polymorphisms in ADRB2 gene can modulate the response to bronchodilators and the severity of cystic fibrosis
- (2012) Fernando A L Marson et al. BMC Pulmonary Medicine
- Thymidine Kinase 1 Upregulation Is an Early Event in Breast Tumor Formation
- (2012) Melissa M. Alegre et al. Journal of Oncology
- Syndecan-1 in Breast Cancer Stroma Fibroblasts Regulates Extracellular Matrix Fiber Organization and Carcinoma Cell Motility
- (2011) Ning Yang et al. AMERICAN JOURNAL OF PATHOLOGY
- Thymidylate Synthase as a Prognostic Biomarker for Locally Advanced Rectal Cancer after multimodal Treatment
- (2011) Lena-Christin Conradi et al. ANNALS OF SURGICAL ONCOLOGY
- APCluster: an R package for affinity propagation clustering
- (2011) U. Bodenhofer et al. BIOINFORMATICS
- Loss of aquaporin-4 expression and putative function in non-small cell lung cancer
- (2011) Arne Warth et al. BMC CANCER
- p53 Negatively Regulates the Hepatoma Growth Factor HDGF
- (2011) Y. Sasaki et al. CANCER RESEARCH
- FoxM1: A Master Regulator of Tumor Metastasis
- (2011) P. Raychaudhuri et al. CANCER RESEARCH
- Aberrations of EZH2 in Cancer
- (2011) A. Chase et al. CLINICAL CANCER RESEARCH
- Genetic variant associations of human SP-A and SP-D with acute and chronic lung injury
- (2011) Patricia Silveyra Frontiers in Bioscience-Landmark
- Identification of a chronic obstructive pulmonary disease genetic determinant that regulates HHIP
- (2011) Xiaobo Zhou et al. HUMAN MOLECULAR GENETICS
- A Top-r Feature Selection Algorithm for Microarray Gene Expression Data
- (2011) S. Imoto et al. IEEE-ACM Transactions on Computational Biology and Bioinformatics
- Importance of hedgehog interacting protein and other lung function genes in asthma
- (2011) Xingnan Li et al. JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY
- The cell cycle and cancer
- (2011) Gareth H Williams et al. JOURNAL OF PATHOLOGY
- Mutations in BRIP1 confer high risk of ovarian cancer
- (2011) Thorunn Rafnar et al. NATURE GENETICS
- TOPK/PBK promotes cell migration via modulation of the PI3K/PTEN/AKT pathway and is associated with poor prognosis in lung cancer
- (2011) M-C Shih et al. ONCOGENE
- Cytokine Effects on Gap Junction Communication and Connexin Expression in Human Bladder Smooth Muscle Cells and Suburothelial Myofibroblasts
- (2011) Marco Heinrich et al. PLoS One
- Identification of Common Differentially Expressed Genes in Urinary Bladder Cancer
- (2011) Apostolos Zaravinos et al. PLoS One
- Overexpression of centromere protein H is significantly associated with breast cancer progression and overall patient survival
- (2011) Wen-Ting Liao et al. Chinese Journal of Cancer
- Gene expression profiling of peripheral blood leukocytes identifies potential novel biomarkers of chronic obstructive pulmonary disease in current and former smokers
- (2010) Jeffery S. Edmiston et al. BIOMARKERS
- Aurora kinases A and B are up-regulated by Myc and are essential for maintenance of the malignant state
- (2010) J. den Hollander et al. BLOOD
- Small molecule FGF receptor inhibitors block FGFR-dependent urothelial carcinoma growth in vitro and in vivo
- (2010) F R Lamont et al. BRITISH JOURNAL OF CANCER
- Value of integrated positron emission tomography revised using a phantom study to evaluate malignancy grade of lung adenocarcinoma
- (2010) Haruhiko Nakayama et al. CANCER
- Pancreatic cancerDNMT1expression and sensitivity toDNMT1inhibitors
- (2010) Ang Li et al. CANCER BIOLOGY & THERAPY
- Knockout of the Tumor Suppressor Gene Gprc5a in Mice Leads to NF- B Activation in Airway Epithelium and Promotes Lung Inflammation and Tumorigenesis
- (2010) J. Deng et al. Cancer Prevention Research
- Gprc5a Deletion Enhances the Transformed Phenotype in Normal and Malignant Lung Epithelial Cells by Eliciting Persistent Stat3 Signaling Induced by Autocrine Leukemia Inhibitory Factor
- (2010) Y. Chen et al. CANCER RESEARCH
- System-Level Analysis of Neuroblastoma Tumor-Initiating Cells Implicates AURKB as a Novel Drug Target for Neuroblastoma
- (2010) O. Morozova et al. CLINICAL CANCER RESEARCH
- Targeting Polo-like Kinase in Cancer Therapy
- (2010) Y. Degenhardt et al. CLINICAL CANCER RESEARCH
- Surfactant Protein A2 Mutations Associated with Pulmonary Fibrosis Lead to Protein Instability and Endoplasmic Reticulum Stress
- (2010) Meenakshi Maitra et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Interruption ofcenphCauses Mitotic Failure and Embryonic Death, and Its Haploinsufficiency Suppresses Cancer in Zebrafish
- (2010) Xinyi Zhao et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- CIP2A expression is increased in prostate cancer
- (2010) Markku H Vaarala et al. JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH
- Fatal Familial Lung Disease Caused by ABCA3 Deficiency without Identified ABCA3 Mutations
- (2010) W. Adam Gower et al. JOURNAL OF PEDIATRICS
- The ribonucleotide reductase large subunit (RRM1) as a predictive factor in patients with cancer
- (2010) Lars Petter Jordheim et al. LANCET ONCOLOGY
- Skp2 targeting suppresses tumorigenesis by Arf-p53-independent cellular senescence
- (2010) Hui-Kuan Lin et al. NATURE
- International network of cancer genome projects
- (2010) Thomas J. Hudson (Chairperson) et al. NATURE
- Tackling the widespread and critical impact of batch effects in high-throughput data
- (2010) Jeffrey T. Leek et al. NATURE REVIEWS GENETICS
- Genomic instability — an evolving hallmark of cancer
- (2010) Simona Negrini et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Pathway Commons, a web resource for biological pathway data
- (2010) E. G. Cerami et al. NUCLEIC ACIDS RESEARCH
- PBK/TOPK interacts with the DBD domain of tumor suppressor p53 and modulates expression of transcriptional targets including p21
- (2010) F Hu et al. ONCOGENE
- Cystic diseases of the kidney: ciliary dysfunction and cystogenic mechanisms
- (2010) Cecilia Gascue et al. PEDIATRIC NEPHROLOGY
- Differential expression analysis for sequence count data
- (2010) Simon Anders et al. GENOME BIOLOGY
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- Centromere protein H is a novel prognostic marker for human nonsmall cell lung cancer progression and overall patient survival
- (2009) Wen-Ting Liao et al. CANCER
- E2F7 Can Regulate Proliferation, Differentiation, and Apoptotic Responses in Human Keratinocytes: Implications for Cutaneous Squamous Cell Carcinoma Formation
- (2009) L. Endo-Munoz et al. CANCER RESEARCH
- RNAi-mediated knockdown of AURKB and EGFR shows enhanced therapeutic efficacy in prostate tumor regression
- (2009) M K Addepalli et al. GENE THERAPY
- Overexpression of RRM2 decreases thrombspondin-1 and increases VEGF production in human cancer cells in vitro and in vivo: implication of RRM2 in angiogenesis
- (2009) Keqiang Zhang et al. Molecular Cancer
- The cancer genome
- (2009) Michael R. Stratton et al. NATURE
- Survivin and Caspase-3 Expression in Breast Cancer: Correlation With Prognostic Parameters, Proliferation, Angiogenesis, and Outcome
- (2009) Aziza Nassar et al. APPLIED IMMUNOHISTOCHEMISTRY & MOLECULAR MORPHOLOGY
- Genetic Defects in Surfactant Protein A2 Are Associated with Pulmonary Fibrosis and Lung Cancer
- (2008) Yongyu Wang et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Analysis of EGFR, HER2, and TOP2A gene status and chromosomal polysomy in gastric adenocarcinoma from Chinese patients
- (2008) Zhiyong Liang et al. BMC CANCER
- Clinicopathological relevance of UbcH10 in breast cancer
- (2008) Takeo Fujita et al. CANCER SCIENCE
- A Novel Breast Cancer-Associated BRIP1 (FANCJ/BACH1) Germ-line Mutation Impairs Protein Stability and Function
- (2008) A. De Nicolo et al. CLINICAL CANCER RESEARCH
- The expression of BIRC5 is correlated with loss of specific chromosomal regions in breast carcinomas
- (2008) Romain Boidot et al. GENES CHROMOSOMES & CANCER
- Genomic analysis of the HER2/TOP2A amplicon in breast cancer and breast cancer cell lines
- (2008) Edurne Arriola et al. LABORATORY INVESTIGATION
- Dysregulation of GIMAP genes in non-small cell lung cancer
- (2008) Yu-Ming Shiao et al. LUNG CANCER
- RNA-Seq: a revolutionary tool for transcriptomics
- (2008) Zhong Wang et al. NATURE REVIEWS GENETICS
- A Precisely Regulated Gene Expression Cassette Potently Modulates Metastasis and Survival in Multiple Solid Cancers
- (2008) Kun Yu et al. PLoS Genetics
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