Eike StaubLabomeOrg

Vendredi 18 déc 2015

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Research Topics

colorectal neoplasmsgene expression profilingneoplastic gene expression regulationoligonucleotide array sequence analysisribosomescell nucleolusribosomal proteinsneoplasmsproto oncogene proteins c mycphylogenyhuman genomebayes theoremgenetic modelsnuclear proteinscytoskeletal proteinsnucleic acid hybridizationarabidopsis proteinschromosome aberrationsintracellular signaling peptides and proteinscell proliferationsaccharomyces cerevisiae proteinsneoplasm invasivenessbrain neoplasmsbreast neoplasmschromosome mappingsaccharomyces cerevisiaetumor cell lineproteomeproteinsnucleic acid independent peptide biosynthesis

Genomes and Genes

WIP productsITIH2 productsEsr2 productsGdf5 productsNog productsLAPTM4B productsITIH5 productsNol10 productslepA Bmpr1b productsBmpr1a productsBmp2 productsLGI1 productsclaudin-1 productsCLDN8 productsCLDN12 productsGDF5 productsITIH3 productssib1

Species

humanmouseratEscherichia coli str. K-12 substr. MG1655Schizosaccharomyces pombe 972h-Eike Staub

Summary

Affiliation: Merck KGaA

Publications

An expression module of WIPF1-coexpressed genes identifies patients with favorable prognosis in three tumor typesEike StaubDepartment of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, GermanyJ Mol Med (Berl) 87:633-44. 2009 Genome-wide expression patterns of invasion front, inner tumor mass and surrounding normal epithelium of colorectal tumorsEike StaubMax Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, Berlin, GermanyMol Cancer 6:79. 2007 A genome-wide map of aberrantly expressed chromosomal islands in colorectal cancerEike StaubMax Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, Berlin, GermanyMol Cancer 5:37. 2006 An inventory of yeast proteins associated with nucleolar and ribosomal componentsEike StaubDepartment of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, GermanyGenome Biol 7:R98. 2006 Predicting the site of origin of tumors by a gene expression signature derived from normal tissuesE StaubMerck KGaA, Merck Serono, Drug Discovery Informatics, Darmstadt, GermanyOncogene 29:4485-92. 2010 Horizontal gene transfer in aminoacyl-tRNA synthetases including leucine-specific subtypesJuliane C DohmMax Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, AG Protein Families and Cellular Evolution, Ihnestrasse 63 73, 14195, Berlin, GermanyJ Mol Evol 63:437-47. 2006 Differential expression of genes encoding tight junction proteins in colorectal cancer: frequent dysregulation of claudin-1, -8 and -12J GroneDepartment of General, Vascular and Thoracic Surgery, Campus Benjamin Franklin, Charite Universitaetsmedizin, Hindenburgdamm 30, 12200, Berlin, GermanyInt J Colorectal Dis 22:651-9. 2007 The highly conserved LepA is a ribosomal elongation factor that back-translocates the ribosomeYan QinMax Planck Institut fur Molekulare Genetik, D 14195 Berlin, GermanyCell 127:721-33. 2006 About the interrelation of evolutionary rate and protein ageHannes LuzComputational Molecular Biology Department, Max Planck Institute for Molecular Genetics, Ihnestr 73, 14195 Berlin, GermanyGenome Inform 17:240-50. 2006 Female sex and estrogen receptor-beta attenuate cardiac remodeling and apoptosis in pressure overloadDaniela FliegnerInstitute of Gender in Medicine, Charité Medical University Berlin, GermanyAm J Physiol Regul Integr Comp Physiol 298:R1597-606. 2010

Collaborators

Christian PilarskyDetlev MennerichBenno MannMartin VingronStefan RoepckeJoern GroeneHannes LuzPetra KnausNorbert PolacekGlen KristiansenThomas MeinelGrit KasperMatthias PeiperVera Regitz-ZagrosekTorsten NeuhofJ Perez-TurDaniel N WilsonJuliane C DohmPawel DurekGennaro ChiappettaC NobileDaniela FliegnerPetra SeemannP TinuperGeorgios KararigasKnud H NierhausSigmar StrickerUlrich KintscherWalter SebaldS StrianoDeborah KrakowMatthias LohrEdgar DahlAntje KrauseJan Ake GustafssonJ J PozaKatarina LehmannEva KlopockiKlaus W KjaerB WeberHans von DöhrenRobert GrutzmannGunter KloppelS TaudienArmin SchmittJ LuttgesJ GroneYan QinA Ayerdi-IzquierdoTorsten SchweckeIngo AlldingerMarina HimmelfarbK HermannE Castanos-VelezS RöpckeM HeinzeH J BuhrA RosenthalI KlamanB HinzmannP DeloukasJ F Marti-MassoRalf DieckmannL LarreaN MoschonasEdda EinfeldtR MichelucciG StavridesOliver VesperT SarafidouA Lopez de MunainNorbert F KäuferP StrianoKirsten GöttlingF BisulliSusanne Zock-EmmenthalInes DueñasU StephaniR SiebertG BovoJ J Sellés-MartínezGustavo BarettonAlberto FuscoDag DittertHans Detlev SaegerRalf JesnowskiDetlef OckertBernd HinzmannIrina KlamanSusanne Grube

Detail Information

Publications23 An expression module of WIPF1-coexpressed genes identifies patients with favorable prognosis in three tumor typesEike StaubDepartment of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, GermanyJ Mol Med (Berl) 87:633-44. 2009…. Genome-wide expression patterns of invasion front, inner tumor mass and surrounding normal epithelium of colorectal tumorsEike StaubMax Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, Berlin, GermanyMol Cancer 6:79. 2007…. A genome-wide map of aberrantly expressed chromosomal islands in colorectal cancerEike StaubMax Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, Berlin, GermanyMol Cancer 5:37. 2006..Cancer development is accompanied by genetic phenomena like deletion and amplification of chromosome parts or alterations of chromatin structure. It is expected that these mechanisms have a strong effect on regional gene expression… An inventory of yeast proteins associated with nucleolar and ribosomal componentsEike StaubDepartment of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, GermanyGenome Biol 7:R98. 2006..Phylogenetic profiling and gene expression analysis were carried out to shed light on evolutionary and regulatory aspects of nucleoli and ribosome assembly… Predicting the site of origin of tumors by a gene expression signature derived from normal tissuesE StaubMerck KGaA, Merck Serono, Drug Discovery Informatics, Darmstadt, GermanyOncogene 29:4485-92. 2010..We conclude that gene expression patterns of normal tissues harbor phenotypic information that is retained in tumors and can be sufficient to recover the type of primary tumor from expression patterns alone… Horizontal gene transfer in aminoacyl-tRNA synthetases including leucine-specific subtypesJuliane C DohmMax Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, AG Protein Families and Cellular Evolution, Ihnestrasse 63 73, 14195, Berlin, GermanyJ Mol Evol 63:437-47. 2006..We argue that the traditional division of life into Prokaryota (non-chimeric) and Eukaryota (chimeric) is favorable compared to Woese’s trichotomy into Archaea/Bacteria/Eukaryota… Differential expression of genes encoding tight junction proteins in colorectal cancer: frequent dysregulation of claudin-1, -8 and -12J GroneDepartment of General, Vascular and Thoracic Surgery, Campus Benjamin Franklin, Charite Universitaetsmedizin, Hindenburgdamm 30, 12200, Berlin, GermanyInt J Colorectal Dis 22:651-9. 2007..We performed an expression analysis of genes encoding tight junction proteins to display differential gene expression on RNA and protein level and to identify and validate potential targets for colorectal cancer (CRC) therapy… The highly conserved LepA is a ribosomal elongation factor that back-translocates the ribosomeYan QinMax Planck Institut fur Molekulare Genetik, D 14195 Berlin, GermanyCell 127:721-33. 2006..We suggest renaming LepA as elongation factor 4 (EF4)… About the interrelation of evolutionary rate and protein ageHannes LuzComputational Molecular Biology Department, Max Planck Institute for Molecular Genetics, Ihnestr 73, 14195 Berlin, GermanyGenome Inform 17:240-50. 2006..We estimate time points of duplication events that gave rise to novel protein functions and show that younger proteins were duplicated more recently than older ones… Female sex and estrogen receptor-beta attenuate cardiac remodeling and apoptosis in pressure overloadDaniela FliegnerInstitute of Gender in Medicine, Charité Medical University Berlin, GermanyAm J Physiol Regul Integr Comp Physiol 298:R1597-606. 2010..Female sex offers protection against ventricular chamber dilation in the TAC model. Both female sex and ERbeta attenuate the development of fibrosis and apoptosis, thus slowing the progression to heart failure… Transcriptional census of 36 microdissected colorectal cancers yields a gene signature to distinguish UICC II and IIIJoern GroeneDepartment of General, Vascular and Thoracic Surgery, Campus Benjamin Franklin, Charite Universitaetsmedizin, Berlin, GermanyInt J Cancer 119:1829-36. 2006…. Genetic analysis of the LGI/Epitempin gene family in sporadic and familial lateral temporal lobe epilepsyA Ayerdi-IzquierdoUnitat de Genetica Molecular, Dept de Genòmica i Proteòmica, Institut de Biomedicina de València CSIC, Jaume Roig, 11 E46010 València, SpainEpilepsy Res 70:118-26. 2006..No analyzed polymorphisms modified susceptibility in either the familial or sporadic forms of this partial epilepsy… Nonribosomal peptide synthesis in Schizosaccharomyces pombe and the architectures of ferrichrome-type siderophore synthetases in fungiTorsten SchweckeInstitute of Chemistry, Technical University Berlin, Franklinstrasse 29, 10587 Berlin, GermanyChembiochem 7:612-22. 2006..A phylogenetic analysis of both NRPSs and associated L-N5-ornithine monooxygenases revealed that ferrichrome-type siderophore biosynthesis has coevolved in fungi with varying in trans interactions of NRPS domains… Systematic identification of immunoreceptor tyrosine-based inhibitory motifs in the human proteomeEike StaubmetaGen Pharmaceuticals GmbH, Oudenarderstr 16, 13347, Berlin, GermanyCell Signal 16:435-56. 2004..We hypothesise that ITIM signalling is not restricted to immune cells, but also functions in diverse solid organs of mouse and man… ITIH5, a novel member of the inter-alpha-trypsin inhibitor heavy chain family is downregulated in breast cancerMarina HimmelfarbmetaGen Pharmaceuticals GmbH, Oudenarder Str 16, 13347 Berlin, GermanyCancer Lett 204:69-77. 2004..ITIH5 mRNA was neither detectable in cancerous nor benign breast cell lines. We propose that loss of ITIH5 expression may be involved in breast cancer development… Insights into the evolution of the nucleolus by an analysis of its protein domain repertoireEike StaubmetaGen Pharmaceuticals GmbH, Berlin, GermanyBioessays 26:567-81. 2004..Supplementary material for this article can be found on the BioEssays website at http://www.interscience.wiley.com/jpages/0265-9247/suppmat/index.html… The SYSTERS Protein Family Database in 2005Thomas MeinelComputational Molecular Biology Department, Max Planck Institute for Molecular Genetics, Ihnestrasse 63 73, 14195 Berlin, GermanyNucleic Acids Res 33:D226-9. 2005..A new access point, PhyloMatrix, allows the retrieval of phylogenetic profiles of SYSTERS families across organisms with completely sequenced genomes… The human LAPTM4b transcript is upregulated in various types of solid tumours and seems to play a dual functional role during tumour progressionGrit KaspermetaGen Pharmaceuticals GmbH i L, Oudenarderstr 16, 13347 Berlin, GermanyCancer Lett 224:93-103. 2005…. Gene expression analysis of pancreatic cell lines reveals genes overexpressed in pancreatic cancerIngo AlldingerDepartment of Visceral, Thoracic and Vascular Surgery, University Hospital, Dresden, GermanyPancreatology 5:370-9. 2005..Using DNA gene expression analysis based on a custom made Affymetrix cancer array, we investigated the expression pattern of both primary and established pancreatic carcinoma cell lines… Activating and deactivating mutations in the receptor interaction site of GDF5 cause symphalangism or brachydactyly type A2Petra SeemannInstitut fur Medizinische Genetik, Charite, Universitatsmedizin Berlin, Berlin, GermanyJ Clin Invest 115:2373-81. 2005..The presented experiments have identified some of the main determinants of GDF5 receptor-binding specificity in vivo and open new prospects for generating antagonists and superagonists of GDF5… Systematic isolation of genes differentially expressed in normal and cancerous tissue of the pancreasRobert GrutzmannDepartment of Visceral, Thoracic and Vascular Surgery, University Clinic Carl Gustav Carus, Technical University Dresden, Dresden, GermanyPancreatology 3:169-78. 2003..Identification of these genes is essential for understanding the molecular events in the development of PaCa… Gene expression profiles of microdissected pancreatic ductal adenocarcinomaRobert GrutzmannDepartment of Visceral, Thoracic and Vascular Surgery, University Hospital Carl Gustav Carus, Technical University of Dresden, GermanyVirchows Arch 443:508-17. 2003..In conclusion, using microarray technology we were able to identify a set of genes whose aberrant expression was associated with PDAC and may be used to target the disease… Different structural organization of the encephalopsin gene in man and mouseGrit KaspermetaGen Pharmaceuticals, Oudenarderstrasse 16, 13347 Berlin, GermanyGene 295:27-32. 2002..e. the number of genes within a certain cluster may differ between man and mouse. OPN3 provides an exception to this rule, since it is positionally uncoupled from other genes of the opsin family…

 
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