Protein Co-Expression Analysis as a Strategy to Complement a Standard Quantitative Proteomics Approach: Case of a Glioblastoma Multiforme Study
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T. Le Bihan | R. Deighton | M. Roy | Thierry Le Bihan | Evangelos I Kanonidis | Marcia M Roy | Ruth F Deighton | Evangelos I. Kanonidis
[1] A. Krainer,et al. The alternative splicing repressors hnRNP A1/A2 and PTB influence pyruvate kinase isoform expression and cell metabolism , 2010, Proceedings of the National Academy of Sciences.
[2] S. Groshen,et al. Critical role of the stress chaperone GRP78/BiP in tumor proliferation, survival, and tumor angiogenesis in transgene-induced mammary tumor development. , 2008, Cancer research.
[3] Israel Steinfeld,et al. BMC Bioinformatics BioMed Central , 2008 .
[4] Michael Unser,et al. A chemostat array enables the spatio-temporal analysis of the yeast proteome , 2013, Proceedings of the National Academy of Sciences.
[5] Bruce J. Aronow,et al. ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems , 2010, Nucleic Acids Res..
[6] T. Onda,et al. Ubiquitous mitochondrial creatine kinase downregulated in oral squamous cell carcinoma , 2006, British Journal of Cancer.
[7] Y. Levin. The role of statistical power analysis in quantitative proteomics , 2011, Proteomics.
[8] Davide Heller,et al. STRING v10: protein–protein interaction networks, integrated over the tree of life , 2014, Nucleic Acids Res..
[9] J. Searcy,et al. Proteomic analysis of mitochondria in APOE transgenic mice and in response to an ischemic challenge , 2011, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.
[10] A. Herrmann,et al. Adaptive changes in the neuronal proteome: mitochondrial energy production, endoplasmic reticulum stress, and ribosomal dysfunction in the cellular response to metabolic stress , 2013, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.
[11] B. Snel,et al. STRING: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene. , 2000, Nucleic acids research.
[12] P. Shannon,et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.
[13] Jing Li,et al. dbDEPC 2.0: updated database of differentially expressed proteins in human cancers , 2011, Nucleic Acids Res..
[14] T. Le Bihan,et al. Interactions among mitochondrial proteins altered in glioblastoma , 2014, Journal of Neuro-Oncology.
[15] A. Tischler,et al. LANDSCAPE OF THE MITOCHONDRIAL Hsp90 METABOLOME IN TUMORS , 2013, Nature Communications.
[16] Y. Park,et al. Induction of glucose-regulated protein 78 by chronic hypoxia in human gastric tumor cells through a protein kinase C-epsilon/ERK/AP-1 signaling cascade. , 2001, Cancer research.
[17] John D. Storey,et al. Multiple Locus Linkage Analysis of Genomewide Expression in Yeast , 2005, PLoS biology.
[18] Y. Leea,et al. Analysis of oncogenic signaling networks in glioblastoma identifies ASPM as a molecular target , 2006 .
[19] Ming Yi,et al. bioDBnet: the biological database network , 2009, Bioinform..
[20] R. Caprioli,et al. Proteome analysis of human colon cancer by two‐dimensional difference gel electrophoresis and mass spectrometry , 2004, Proteomics.
[21] H. Tsuda,et al. Overexpression of YWHAZ relates to tumor cell proliferation and malignant outcome of gastric carcinoma , 2013, British Journal of Cancer.
[22] Eugenia G. Giannopoulou,et al. Search for potential markers for prostate cancer diagnosis, prognosis and treatment in clinical tissue specimens using amine-specific isobaric tagging (iTRAQ) with two-dimensional liquid chromatography and tandem mass spectrometry. , 2008, Journal of proteome research.
[23] Ru Wei,et al. The M2 splice isoform of pyruvate kinase is important for cancer metabolism and tumour growth , 2008, Nature.
[24] Xiaohang Zhao,et al. Quantitative proteomic signature of liver cancer cells: tissue transglutaminase 2 could be a novel protein candidate of human hepatocellular carcinoma. , 2008, Journal of proteome research.
[25] W. Lukiw,et al. An Exploratory Analysis of Conservation of Co-Expressed Genes across Alzheimer's disease Progression , 2013 .
[26] L. Alldridge,et al. Proteome profiling of breast tumors by gel electrophoresis and nanoscale electrospray ionization mass spectrometry. , 2008, Journal of proteome research.
[27] Ziyan Wang,et al. Repairing DNA damage by XRCC6/KU70 reverses TLR4-deficiency-worsened HCC development via restoring senescence and autophagic flux , 2013, Autophagy.
[28] T. Simmen,et al. Where the endoplasmic reticulum and the mitochondrion tie the knot: the mitochondria-associated membrane (MAM). , 2013, Biochimica et biophysica acta.
[29] Yingyi Wang,et al. NF-κB/RelA-PKM2 mediates inhibition of glycolysis by fenofibrate in glioblastoma cells , 2015, Oncotarget.
[30] Richard D. Smith,et al. Quantitative proteome analysis of breast cancer cell lines using 18O‐labeling and an accurate mass and time tag strategy , 2006, Proteomics.
[31] J. Bähler,et al. Meta-analysis of genome regulation and expression variability across hundreds of environmental and genetic perturbations in fission yeast. , 2010, Molecular bioSystems.
[32] Hongyu Zhao,et al. Statistical Analysis Reveals Co-Expression Patterns of Many Pairs of Genes in Yeast Are Jointly Regulated by Interacting Loci , 2013, PLoS genetics.
[33] Yongqiang Chen,et al. Mitochondrial electron-transport-chain inhibitors of complexes I and II induce autophagic cell death mediated by reactive oxygen species , 2007, Journal of Cell Science.
[34] Albert-László Barabási,et al. Scale-free networks , 2008, Scholarpedia.
[35] Sylvain Brohée. Using the NeAT toolbox to compare networks to networks, clusters to clusters, and network to clusters. , 2012, Methods in molecular biology.
[36] T. Ueda,et al. Synaptic Vesicle-bound Pyruvate Kinase can Support Vesicular Glutamate Uptake , 2009, Neurochemical Research.
[37] K. Krause,et al. Proteomic profiling of cold thyroid nodules. , 2007, Endocrinology.
[38] Steve Horvath,et al. WGCNA: an R package for weighted correlation network analysis , 2008, BMC Bioinformatics.
[39] Gary D. Bader,et al. An automated method for finding molecular complexes in large protein interaction networks , 2003, BMC Bioinformatics.
[40] H. Lehrach,et al. No evidence for a shift in pyruvate kinase PKM1 to PKM2 expression during tumorigenesis , 2011, Oncotarget.
[41] W. Hancock,et al. Proteomic analysis of high-grade dysplastic cervical cells obtained from ThinPrep slides using laser capture microdissection and mass spectrometry. , 2007, Journal of proteome research.
[42] Richard D. Smith,et al. Protein co-expression network analysis (ProCoNA) , 2013, Journal of Clinical Bioinformatics.
[43] Hsuan-Cheng Huang,et al. Quantitative proteomic and genomic profiling reveals metastasis-related protein expression patterns in gastric cancer cells. , 2006, Journal of proteome research.
[44] Thanura R. Elvitigala,et al. Global Proteomics Reveal an Atypical Strategy for Carbon/Nitrogen Assimilation by a Cyanobacterium Under Diverse Environmental Perturbations* , 2010, Molecular & Cellular Proteomics.
[45] G. Kroemer,et al. The protein disulfide isomerases PDIA4 and PDIA6 mediate resistance to cisplatin-induced cell death in lung adenocarcinoma , 2014, Cell Death and Differentiation.