on IDEAL Article DEFOG: A Practical Scheme for Deciphering Families of Genes (2009)
Tania Fuchs, Barbora Malecova, Chaim Linhart, Roded Sharan, Miriam Khen, Dmitry Shmulevich, ...
*These authors contributed equally to this work. To whom correspondence and reprint requests should be addressed. Fax: +972-3-6405384.
Monte Carlo analysis of an ODE Model of the Sea Urchin Endomesoderm Network (2009)
Kühn, Clemens, Wierling, Christoph, Kühn, Alexander, Klipp, Edda, Panopoulou, Georgia, Lehrach, Hans, ...
Abstract Background Gene Regulatory Networks (GRNs) control the differentiation, specification and function of cells at the genomic level. The levels of interactions within large GRNs are of enormous...
Chavez, Lukas, Bais, Abha S, Vingron, Martin, Lehrach, Hans, Adjaye, James, Herwig, Ralf
Abstract Background The transcription factor OCT4 is highly expressed in pluripotent embryonic stem cells which are derived from the inner cell mass of mammalian blastocysts. Pluripotency and self...
Baek, Young-Sook, Haas, Stefan, Hackstein, Holger, Bein, Gregor, Hernandez-Santana, Maria, Lehrach, Hans, ...
Abstract Background Monocytes and macrophages play essential role in innate immunity. Understanding the underlying mechanism of macrophage differentiation and the identification of regulatory...
Reverse Engineering of Gene Regulatory Networks: A Comparative Study (2009)
Hendrik Hache, Hans Lehrach, Ralf Herwig
Reverse engineering of gene regulatory networks has been an intensively studied topic in bioinformatics since it constitutes an intermediate step from explorative to causative gene expression...
ConsensusPathDB--a database for integrating human functional interaction networks (2009)
Kamburov, Atanas, Wierling, Christoph, Lehrach, Hans, Herwig, Ralf
ConsensusPathDB is a database system for the integration of human functional interactions. Current knowledge of these interactions is dispersed in more than 200 databases, each having a specific...
GeNGe: systematic generation of gene regulatory networks (2009)
Hache, Hendrik, Wierling, Christoph, Lehrach, Hans, Herwig, Ralf
Summary: The analysis of gene regulatory networks (GRNs) is a central goal of bioinformatics highly accelerated by the advent of new experimental techniques, such as RNA interference. A battery of...
Reverse Engineering of Gene Regulatory Networks: A Comparative Study (2009)
Hendrik Hache, Hans Lehrach, Ralf Herwig
Reverse engineering of gene regulatory networks has been an intensively studied topic in bioinformatics since it constitutes an intermediate step from explorative to causative gene expression...
Transcriptome analysis by strand-specific sequencing of complementary DNA (2009)
Parkhomchuk, Dmitri, Borodina, Tatiana, Amstislavskiy, Vyacheslav, Banaru, Maria, Hallen, Linda, Krobitsch, Sylvia, ...
High-throughput complementary DNA sequencing (RNA-Seq) is a powerful tool for whole-transcriptome analysis, supplying information about a transcript's expression level and structure. However, it is...
Hufton, Andrew L., Mathia, Susanne, Braun, Helene, Georgi, Udo, Lehrach, Hans, Vingron, Martin, ...
Animal genomes possess highly conserved cis-regulatory sequences that are often found near genes that regulate transcription and development. Researchers have proposed that the strong conservation of...
Regenbrecht, Christian RA, Jung, Marc, Lehrach, Hans, Adjaye, James
Abstract Background Genistein is an isoflavonoid present in soybeans that exhibits anti-carcinogenic properties. The issue of genistein as a potential anti-cancer drug has been addressed in some...
Ralser, Markus, Nebel, Almut, Kleindorp, Rabea, Krobitsch, Sylvia, Lehrach, Hans, Schreiber, Stefan, ...
Abstract Background Triosephosphate isomerase (TPI) is a central and conserved glycolytic enzyme. In humans, TPI is encoded by a single gene on 12p13, and associated with a rare genetic disorder, TPI...
Fiebitz, Andrea, Nyarsik, Lajos, Haendler, Bernard, Hu, Yu-Hui, Wagner, Florian, Thamm, Sabine, ...
Abstract Background Most of the biological processes rely on the formation of protein complexes. Investigation of protein-protein interactions (PPI) is therefore essential for understanding of...
Hufton, Andrew L., Groth, Detlef, Vingron, Martin, Lehrach, Hans, Poustka, Albert, Panopoulou, Georgia
Researchers, supported by data from polyploid plants, have suggested that whole genome duplication (WGD) may induce genomic instability and rearrangement, an idea which could have important...
Sultan, Marc, Schulz, Marcel H., Hugues, Richard, Magen, Alon, Klingenhoff, Andreas, Scherf, Matthias, ...
The functional complexity of the human transcriptome is not yet fully elucidated. We report a high-throughput sequence of the human transcriptome from a human embryonic kidney and a B cell line. We...
Brink, Thore C., Demetrius, Lloyd, Lehrach, Hans, Adjaye, James A.
Individual differences in the rate of aging are determined by the efficiency with which an organism transforms resources into metabolic energy thus maintaining the homeostatic condition of its cells...
Fiebitz, Andrea, Nyarsik, Lajos, Haendler, Bernard, Hu, Yu-Hui, Wagner, Florian, Thamm, Sabine, ...
Background Most of the biological processes rely on the formation of protein complexes. Investigation of protein-protein interactions (PPI) is therefore essential for understanding of cellular...
Control of early fate decisions in human ES cells by distinct states of TGFβ pathway activity (2008)
Greber, Boris, Lehrach, Hans, Adjaye, James
The mechanisms controlling self-renewal versus lineage commitment in human embryonic stem (hES) cells are not well understood. Nonetheless, current knowledge suggests a crucial role for TGFβ...
Hufton, Andrew L., Groth, Detlef, Vingron, Martin, Lehrach, Hans, Poustka, Albert J., Panopoulou, Georgia
Researchers, supported by data from polyploid plants, have suggested that whole genome duplication (WGD) may induce genomic instability and rearrangement, an idea which could have important...
ConsensusPathDB—a database for integrating human functional interaction networks (2008)
Kamburov, Atanas, Wierling, Christoph, Lehrach, Hans, Herwig, Ralf
ConsensusPathDB is a database system for the integration of human functional interactions. Current knowledge of these interactions is dispersed in more than 200 databases, each having a specific...
Lange, Martin, Kaynak, Bogac, Forster, Ulrike B., Tönjes, Martje, Fischer, Jenny J., Grimm, Christina, ...
Chromatin remodeling and histone modifications facilitate access of transcription factors to DNA by promoting the unwinding and destabilization of histone–DNA interactions. We present DPF3, a new...
Parsons, Michael J., Grimm, Christina H., Paya-Cano, Jose L., Sugden, Karen, Nietfeld, Wilfried, Lehrach, Hans, ...
Micro-RNAs (miRNAs) are short, single-stranded, noncoding RNAs that are involved in the regulation of protein-coding genes at the level of messenger RNA (mRNA). They are involved in the regulation of...
A catabolic block does not sufficiently explain how 2-deoxy-d-glucose inhibits cell growth (2008)
Ralser, Markus, Wamelink, Mirjam M., Struys, Eduard A., Joppich, Christian, Krobitsch, Sylvia, Jakobs, Cornelis, ...
The glucose analogue 2-deoxy-d-glucose (2-DG) restrains growth of normal and malignant cells, prolongs the lifespan of C. elegans, and is widely used as a glycolytic inhibitor to study metabolic...
Ralser, Markus, Nebel, Almut, Kleindorp, Rabea, Krobitsch, Sylvia, Lehrach, Hans, Schreiber, Stefan, ...
Background Triosephosphate isomerase (TPI) is a central and conserved glycolytic enzyme. In humans, TPI is encoded by a single gene on 12p13, and associated with a rare genetic disorder, TPI...
Regenbrecht, Christian R. A., Jung, Marc, Lehrach, Hans, Adjaye, James
Background Genistein is an isoflavonoid present in soybeans that exhibits anti-carcinogenic properties. The issue of genistein as a potential anti-cancer drug has been addressed in some papers, but...
Stemming cancer : functional genomics of cancer stem cells in solid tumors (2008)
Regenbrecht, Christian R. A., Lehrach, Hans, Adjaye, James
Cancer stem cells (CSCs) were discovered about 15 years ago in hematopoietic cancers. Subsequently, cancer stem cells were discovered in various solid tumors. Based on parallels with normal stem...
Molecular characterisation of signalling pathways in cancer stem cells (2008)
Regenbrecht, C. R. A., Wete, Y., Jodicke, A., Hugel, R., Walden, P., Jung, M., ...
Al-Hajj et al. (2003) were the first to identify and prospectively isolate a minority subpopulation of cells from human solid tumours that contained all of the in vivo tumour-forming abilities. The...
Characterizing the mouse ES cell transcriptome with Illumina sequencing (2008)
Rosenkranz, Ruben, Borodina, Tatiana, Lehrach, Hans, Himmelbauer, Heinz
Large datasets generated by Illumina sequencing are ideally suited to transcriptome characterization. We generated 3,052,501 27-mer reads from F1 mouse embryonic stem (ES) cell cDNA. Using the ELAND...
Lange, Martin, Kaynak, Bogac, Forster, Ulrike B., Tönjes, Martje, Fischer, Jenny J., Grimm, Christina, ...
Chromatin remodeling and histone modifications facilitate access of transcription factors to DNA by promoting the unwinding and destabilization of histone–DNA interactions. We present DPF3, a new...
Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress (2007)
Ralser, Markus, Wamelink, Mirjam M, Kowald, Axel, Gerisch, Birgit, Heeren, Gino, Struys, Eduard A, ...
Abstract Background Eukaryotic cells have evolved various response mechanisms to counteract the deleterious consequences of oxidative stress. Among these processes, metabolic alterations seem to play...
Matthias Steinfath, Henrik Seidel, Hans Lehrach, Uwe Radelof, John O'brien
Automated image analysis for array hybridization experiments
IXDB, an Integrated Database for Genomic Data (2007)
Ulf Leser, Robert Wagner, Hans Lehrach, Hugues Roest Crollius
The generation of physical maps at the chromosomal scale and at a resolution sufficient for large scale sequencing requires more data, experiments and resources than can be produced by a single...
Gene expression variation in Down's syndrome mice allows prioritization of candidate genes (2007)
Sultan, Marc, Piccini, Ilaria, Balzereit, Daniela, Herwig, Ralf, Saran, Nidhi G, Lehrach, Hans, ...
Abstract Background Down's syndrome (DS), or trisomy 21, is a complex developmental disorder that exhibits many clinical signs that vary in occurrence and severity among patients. The molecular...
Greber, Boris, Lehrach, Hans, Adjaye, James
Abstract Background Despite their distinct origins, human embryonic stem (hES) and embryonic carcinoma (hEC) cells share a number of similarities such as surface antigen expression, growth...
Poustka, Albert J, Kühn, Alexander, Groth, Detlef, Weise, Vesna, Yaguchi, Shunsuke, Burke, Robert D, ...
Abstract Background The genome of the sea urchin Strongylocentrotus purpuratus has recently been sequenced because it is a major model system for the study of gene regulatory networks. Embryonic...
Matrix-Assisted Laser Desorption/Ionization Mass Spectrometric Analysis of DNA on Microarrays (2007)
Kepper, Pamela, Reinhardt, Richard, Dahl, Andreas, Lehrach, Hans, Sauer, Sascha
Background: Matrix-assisted laser desorption/ionization (MALDI) mass spectrometry is a powerful tool in biomolecule analysis with a wide range of application possibilities, including genotyping of...
Matrix-Assisted Laser Desorption/Ionization Mass Spectrometric Analysis of DNA on Microarrays (2007)
Kepper, Pamela, Reinhardt, Richard, Dahl, Andreas, Lehrach, Hans, Sauer, Sascha
Background: Matrix-assisted laser desorption/ionization (MALDI) mass spectrometry is a powerful tool in biomolecule analysis with a wide range of application possibilities, including genotyping of...
Adjaye, James, Herwig, Ralf, Brink, Thore C., Herrmann, Doris, Greber, Boris, Sudheer, Smita, ...
The present study investigated mRNA expression profiles of bovine oocytes and blastocysts by using a cross-species hybridization approach employing an array consisting of 15,529 human cDNAs as probe,...
Nodal signaling activates differentiation genes during zebrafish gastrulation (2007)
Bennett, James D., Joubin, Katherine, Cheng, Simon, Aanstad, Pia, Herwig, Ralf, Clark, Matthew, ...
Nodal signals induce mesodermal and endodermal progenitors during vertebrate development. To determine the role of Nodal signaling at a genomic level, we isolated Nodal-regulated genes by expression...
Quantitative PCR based expression analysis on a nanoliter scale using polymer nano-well chips (2007)
Dahl, Andreas, Sultan, Marc, Jung, Alexander, Schwartz, Regine, Lange, Matthias, Steinwand, Michael, ...
The analysis of gene expression is an essential element of functional genomics. Expression analysis is mainly based on DNA microarrays due to highly parallel readout and high throughput. Quantitative...
Gerisch, Birgit, Rottiers, Veerle, Li, Dongling, Motola, Daniel L., Cummins, Carolyn L., Lehrach, Hans, ...
Broad aspects of Caenorhabditis elegans life history, including larval developmental timing, arrest at the dauer diapause, and longevity, are regulated by the nuclear receptor DAF-12. Endogenous...
Greber, Boris, Lehrach, Hans, Adjaye, James
Background Despite their distinct origins, human embryonic stem (hES) and embryonic carcinoma (hEC) cells share a number of similarities such as surface antigen expression, growth characteristics,...
Reconstruction and validation of gene regulatory networks with neural networks (2007)
Hache, Hendrik, Wierling, Christoph, Lehrach, Hans, Herwig, Ralf
Liu, Jian-Ping, Drungowski, Mario, Nyarsik, Lajos, Schwartz, Regine, Lehrach, Hans, Herwig, Ralf, ...
Recently, we established a robust method for the detection of hybridization events using a DNA microarray deposited on a nanoporous membrane. Here, in a follow-up study, we demonstrate the...
Nonhoff, Ute, Ralser, Markus, Welzel, Franziska, Piccini, Ilaria, Balzereit, Daniela, Yaspo, Marie-Laure, ...
Tight control of translation is fundamental for eukaryotic cells, and deregulation of proteins implicated contributes to numerous human diseases. The neurodegenerative disorder spinocerebellar ataxia...
Nordhoff, Eckhard, Lehrach, Hans, Gobom, Johan
We have used a non-contact piezo-electric liquid dispensing workstation to transfer 200 pL aliquots of both a sample solution containing 12 peptides, each at a concentration of 5 or 50 fmol/μL, and...
Poustka, Albert J., Kühn, Alexander, Groth, Detlef, Weise, Vesna, Yaguchi, Shunsuke, Burke, Robert D., ...
Background The genome of the sea urchin Strongylocentrotus purpuratus has recently been sequenced because it is a major model system for the study of gene regulatory networks. Embryonic expression...
Genomic organization of transcriptomes in mammals: coregulation and cofunctionality (2007)
Purmann, Antje, Toedling, Joern, Schueler, Markus, Carninci, Piero, Lehrach, Hans, Hayashizaki, Yoshihide, ...
In studies of their transcriptional activity, genomes have shown a high order of organization. We assessed the question of how genomically neighboring genes are transcriptionally coupled across...
Gene expression variation in Down's syndrome mice allows prioritization of candidate genes (2007)
Sultan, Marc, Piccini, Ilaria, Balzereit, Daniela, Herwig, Ralf, Saran, Nidhi G., Lehrach, Hans, ...
Background Down's syndrome (DS), or trisomy 21, is a complex developmental disorder that exhibits many clinical signs that vary in occurrence and severity among patients. The molecular mechanisms...
Resources, standards and tools for systems biology (2007)
Wierling, Christoph, Herwig, Ralf, Lehrach, Hans
Modelling and simulation techniques are valuable tools for the understanding of complex biological systems. The design of a computer model necessarily has many diverse inputs, such as information on...
TLR2 has a detrimental role in mouse transient focal cerebral ischemia (2007)
Ziegler, Gina, Harhausen, Denise, Schepers, Claudia, Hoffmann, Olaf, Röhr, Christina, Prinz, Vincent, ...
A significant up-regulation of Toll-like-receptor (TLR) mRNAs between 3 and 48 h reperfusion time after induction of transient focal cerebral ischemia for 1 h was revealed by applying global gene...
Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress (2007)
Ralser, Markus, Wamelink, Mirjam M., Kowald, Axel, Gerisch, Birgit, Heeren, Gino, Struys, Eduard A., ...
Background Eukaryotic cells have evolved various response mechanisms to counteract the deleterious consequences of oxidative stress. Among these processes, metabolic alterations seem to play an...
Resources, standards and tools for systems biology (2007)
Wierling, Christoph, Herwig, Ralf, Lehrach, Hans
Modelling and simulation techniques are valuable tools for the understanding of complex biological systems. The design of a computer model necessarily has many diverse inputs, such as information on...
Analytical model of peptide mass cluster centres with applications (2006)
Wolski, Witold E, Farrow, Malcolm, Emde, Anne-Katrin, Lehrach, Hans, Lalowski, Maciej, Reinert, Knut
Abstract Background The elemental composition of peptides results in formation of distinct, equidistantly spaced clusters across the mass range. The property of peptide mass clustering is used to...
Hu, Yu-Hui, Warnatz, Hans-Jörg, Vanhecke, Dominique, Wagner, Florian, Fiebitz, Andrea, Thamm, Sabine, ...
Abstract Background Trisomy of human chromosome 21 (Chr21) results in Down's syndrome, a complex developmental and neurodegenerative disease. Molecular analysis of Down's syndrome, however, poses a...
The bovine IGF2 gene is differentially methylated in oocyte and sperm DNA (2006)
Gebert, Claudia, Wrenzycki, Christine, Herrmann, Doris, Gröger, Daniela, Reinhardt, Richard, Hajkova, Petra, ...
The insulin-like growth factor 2 gene (IGF2) encodes an essential growth factor and is imprinted in various mammalian species. Differentially methylated regions (DMRs) are often located within CpG...
The bovine IGF2 gene is differentially methylated in oocyte and sperm DNA (2006)
Gebert, Claudia, Wrenzycki, Christine, Herrmann, Doris, Gröger, Daniela, Reinhardt, Richard, Hajkova, Petra, ...
The insulin-like growth factor 2 gene (IGF2) encodes an essential growth factor and is imprinted in various mammalian species. Differentially methylated regions (DMRs) are often located within CpG...
The DNA sequence, annotation and analysis of human chromosome 3 (2006)
Muzny, Donna M., Scherer, Steven E., Kaul, Rajinder, Wang, Jing, Yu, Jun, ...
The DNA sequence, annotation and analysis of human chromosome 3 (2006)
Muzny, Donna M., Scherer, Steven E., Kaul, Rajinder, Wang, Jing, Yu, Jun, ...
Babaie, Yasmin, Herwig, Ralf, Greber, Boris, Brink, Thore C., Wruck, Wasco, Groth, Detlef, ...
The POU domain transcription factor OCT4 is a key regulator of pluripotency in the early mammalian embryo and is highly expressed in the inner cell mass of the blastocyst. Consistent with its...
Greber, Boris, Lehrach, Hans, Adjaye, James
Fibroblast growth factor 2 (FGF2) is known to promote self-renewal of human embryonic stem cells (hESCs). In addition, it has been shown that transforming growth factor ß (TGFß) signaling is...
Expression profiling of drug response-from genes to pathways (2006)
Understanding individual response to a drug—what determines its efficacy and tolerability—is the major bottleneck in current drug development and clinical trials. Intracellular response and...
Horn, Sabine, Lueking, Angelika, Murphy, Derek, Staudt, Alexander, Gutjahr, Claudia, Schulte, Kirsten, ...
Dilated cardiomyopathy (DCM) is a myocardial disease characterized by progressive depression of myocardial contractile function and ventricular dilatation. Thirty percent of DCM patients belong to...
Hu, Yu-Hui, Warnatz, Hans-Jörg, Vanhecke, Dominique, Wagner, Florian, Fiebitz, Andrea, Thamm, Sabine, ...
Background Trisomy of human chromosome 21 (Chr21) results in Down's syndrome, a complex developmental and neurodegenerative disease. Molecular analysis of Down's syndrome, however, poses a particular...
Recent advances of protein microarrays (2006)
Hultschig, Claus, Kreutzberger, Jürgen, Seitz, Harald, Konthur, Zoltán, Büssow, Konrad, Lehrach, Hans
Technological innovations and novel applications have greatly advanced the field of protein microarrays. Over the past two years, different types of protein microarrays have been used for serum...
Makrantonaki, Evgenia, Adjaye, James, Herwig, Ralf, Brink, Thore C., Groth, Detlef, Hultschig, Claus, ...
The importance of hormones in endogenous aging has been displayed by recent studies performed on animal models and humans. To decipher the molecular mechanisms involved in aging we maintained human...
Aging of human sebocytes in vitro induced by exposure to a defined hormone environment (2006)
Makrantonaki, E., Adjaye, J., Herwig, R., Brink, T. C., Groth, D., Hultschig, C., ...
The DNA sequence, annotation and analysis of human chromosome 3 (2006)
Muzny, Donna M., Scherer, Steven E., Kaul, Rajinder, Wang, Jing, Yu, Jun, ...
Otterhag, Lotta, Gustavsson, Niklas, Alsterfjord, Magnus, Pical, Christophe, Lehrach, Hans, Gobom, Johan, ...
The Arabidopsis thaliana protein kinase AtPDK1 was identified as a homologue of the mammalian 3-phosphoinositide-dependent protein kinase-1 (PDK1), which is involved in a number of physiological...
Ralser, Markus, Heeren, Gino, Breitenbach, Michael, Lehrach, Hans, Krobitsch, Sylvia
Triosephosphate isomerase (TPI) deficiency is an autosomal recessive disorder caused by various mutations in the gene encoding the key glycolytic enzyme TPI. A drastic decrease in TPI activity and an...
An efficient and economic enhancer mix for PCR (2006)
Ralser, Markus, Querfurth, Robert, Warnatz, Hans-Jörg, Lehrach, Hans, Yaspo, Marie-Laure, Krobitsch, Sylvia
Polymerase chain reaction (PCR) has become a fundamental technique in molecular biology. Nonetheless, further improvements of the existing protocols are required to broaden the applicability of PCR...
Single-nucleotide polymorphisms: analysis by mass spectrometry (2006)
Sauer, Sascha, Reinhardt, Richard, Lehrach, Hans, Gut, Ivo G.
Matrix-assisted laser desorption-ionization (MALDI) mass spectrometry has evolved as a powerful method for analyzing nucleic acids. Here we provide protocols for genotyping single-nucleotide...
Analysis of NOD2-mediated Proteome Response to Muramyl Dipeptide in HEK293 Cells (2006)
Weichart, Dieter, Gobom, Johan, Klopfleisch, Sina, Häsler, Robert, Gustavsson, Niklas, Billmann, Susanne, ...
NOD2, a cytosolic receptor for the bacterial proteoglycan fragment muramyl dipeptide (MDP), plays an important role in the recognition of intracellular pathogens. Variants in the bacterial sensor...
Analytical model of peptide mass cluster centres with applications (2006)
Wolski, Witold E., Farrow, Malcolm, Emde, Anne-Katrin, Lehrach, Hans, Lalowski, Maciej, Reinert, Knut
Background The elemental composition of peptides results in formation of distinct, equidistantly spaced clusters across the mass range. The property of peptide mass clustering is used to calibrate...
Witold E Wolski, Malcolm Farrow, Anne-katrin Emde, Hans Lehrach
© 2006 Wolski et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License
Wolski, Witold E, Lalowski, Maciej, Martus, Peter, Herwig, Ralf, Giavalisco, Patrick, Gobom, Johan, ...
Abstract Background: Biological Mass Spectrometry is used to analyse peptides and proteins. A mass spectrum generates a list of measured mass to charge ratios and intensities of ionised peptides,...
Dissection of the Inflammatory Bowel Disease Transcriptome Using Genome-Wide cDNA Microarrays (2005)
Christine M. Costello, Nancy Mah, Robert Häsler, Philip Rosenstiel, Georg H. Waetzig, Andreas Hahn, ...
cDNA analysis of colonic samples from patients with Crohn disease and ulcerative colitis suggests substantial differences in pathophysiology between the two diseases.
Dissection of the Inflammatory Bowel Disease Transcriptome Using Genome-Wide cDNA Microarrays (2005)
Christine M. Costello, Nancy Mah, Robert Häsler, Philip Rosenstiel, Georg H. Waetzig, Andreas Hahn, ...
Background The differential pathophysiologic mechanisms that trigger and maintain the two forms of inflammatory bowel disease (IBD), Crohn disease (CD), and ulcerative colitis (UC) are only partially...
Büssow, Konrad, Scheich, Christoph, Sievert, Volker, Harttig, Ulrich, Schultz, Jörg, Simon, Bernd, ...
Abstract Background The availability of suitable recombinant protein is still a major bottleneck in protein structure analysis. The Protein Structure Factory, part of the international structural...
Adjaye, James, Huntriss, John, Herwig, Ralf, BenKahla, Alia, Brink, Thore C., Wierling, Christoph, ...
The primary differentiation event during mammalian development occurs at the blastocyst stage and leads to the delineation of the inner cell mass (ICM) and the trophectoderm (TE). We provide the...
Subnanoliter enzymatic assays on microarrays (2005)
Angenendt, Philipp, Lehrach, Hans, Kreutzberger, Jürgen, Glökler, Jörn
Many areas of research today are based on enzymatic assays most of which are still performed as enzyme-linked immunosorbent assays in microtiter plates. The demand for highly parallel screening of...
Bürkle, Lukas, Meyer, Svenja, Dortay, Hakan, Lehrach, Hans, Heyl, Alexander
In the postgenomic era many experiments rely on the availability of transcript sequence for cloning. As these clones usually originate from cDNA libraries, the quality of these libraries is crucial....
Büssow, Konrad, Scheich, Christoph, Sievert, Volker, Harttig, Ulrich, Schultz, Jörg, Simon, Bernd, ...
Background The availability of suitable recombinant protein is still a major bottleneck in protein structure analysis. The Protein Structure Factory, part of the international structural genomics...
Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays (2005)
Costello, Christine M., Mah, Nancy, Häsler, Robert, Rosenstiel, Philip, Waetzig, Georg H., Hahn, Andreas, ...
Background The differential pathophysiologic mechanisms that trigger and maintain the two forms of inflammatory bowel disease (IBD), Crohn disease (CD), and ulcerative colitis (UC) are only partially...
Feilner, Tanja, Hultschig, Claus, Lee, Justin, Meyer, Svenja, Immink, Richard G. H., Koenig, Andrea, ...
Mitogen-activated protein kinase (MAPK) cascades are universal and highly conserved signal transduction modules in eucaryotes, including plants. These protein phosphorylation cascades link...
Gade, Dörte, Theiss, Dorothea, Lange, Daniela, Mirgorodskaya, Ekaterina, Lombardot, Thierry, Glöckner, Frank Oliver, ...
The marine bacterium Rhodopirellula baltica, a member of the phylum Planctomycetes, has distinct morphological properties and contributes to remineralization of biomass in the natural environment. On...
High heterogeneity within the ribosomal proteins of the Arabidopsis thaliana 80S ribosome (2005)
Giavalisco, Patrick, Wilson, Daniel, Kreitler, Thomas, Lehrach, Hans, Klose, Joachim, Gobom, Johan, ...
Proteomic studies have addressed the composition of plant chloroplast ribosomes and 70S ribosomes from the unicellular organism Chlamydomonas reinhardtii But comprehensive characterization of...
Giavalisco, Patrick, Nordhoff, Eckhard, Kreitler, Thomas, Klöppel, Klaus-Dieter, Lehrach, Hans, Klose, Joachim, ...
In the present study we show results of a large-scale proteome analysis of the recently sequenced plant Arabidopsis thaliana. On the basis of a previously published sequential protein extraction...
Greber, Boris, Tandara, Helena, Lehrach, Hans, Himmelbauer, Heinz
Reverse genetic approaches to generate mutants of model species are useful tools to assess functions of unknown genes. Recent work has demonstrated the feasibility of such strategies in several...
Mouse splice mutant generation from ENU-treated ES cells — a gene-driven approach (2005)
Greber, Boris, Lehrach, Hans, Himmelbauer, Heinz
Mutant mice are important for elucidating mammalian gene functions and for modeling human disease phenotypes. In recent years, chemical mutagenesis has become an increasingly popular method to...
Gustavsson, Niklas, Greber, Boris, Kreitler, Thomas, Himmelbauer, Heinz, Lehrach, Hans, Gobom, Johan
While several techniques exist for assessing quantitative differences among proteomes representing different cell states, methods for assessing how these differences are mediated are largely missing....
Mouse protein arrays from a TH1 cell cDNA library for antibody screening and serum profiling (2005)
Gutjahr, Claudia, Murphy, Derek, Lueking, Angelika, Koenig, Andrea, Janitz, Michal, O'Brien, John, ...
The mouse is the premier genetic model organism for the study of disease and development. We describe the establishment of a mouse T helper cell type 1 (TH1) protein expression library that provides...
Jankowski, Vera, Vanholder, Raymond, Van Der Giet, Markus, Henning, Lars, Tölle, Markus, Schönfelder, Gilbert, ...
Angiotensin II (Ang II) is the major vasoactive component of the renin-angiotensin system. Several components of the renin-angiotensin system have been demonstrated in different tissues. Whereas the...
Kowald, Axel, Lehrach, Hans, Klipp, Edda
One of the most important antioxidant enzymes is superoxide dismutase (SOD), which catalyses the dismutation of superoxide radicals to hydrogen peroxide. The enzyme plays an important role in...
Profiling of alopecia areata autoantigens based on protein microarray technology (2005)
Lueking, Angelika, Huber, Otmar, Wirths, Christopher, Schulte, Kirsten, Stieler, Karola M., Blume-Peytavi, Ulrike, ...
Protein biochips have a great potential in future parallel processing of complex samples as a research tool and in diagnostics. For the generation of protein biochips, highly automated technologies...
The DNA sequence of the human X chromosome (2005)
Sudbrak, Ralf, Beck, Alfred, Heitmann, Katja, Hennig, Steffen, Klages, Sven, Kosiura, Anna, ...
The human X chromosome has a unique biology that was shaped by its evolution as the sex chromosome shared by males and females. We have determined 99.3% of the euchromatic sequence of the X...
The DNA sequence of the human X chromosome (2005)
Sudbrak, Ralf, Beck, Alfred, Heitmann, Katja, Hennig, Steffen, Klages, Sven, Kosiura, Anna, ...
The human X chromosome has a unique biology that was shaped by its evolution as the sex chromosome shared by males and females. We have determined 99.3% of the euchromatic sequence of the X...
Mirgorodskaya, Ekaterina, Braeuer, Corina, Fucini, Paola, Lehrach, Hans, Gobom, Johan
We report the development of a robust interface for off-line coupling of nano liquid chromatography (LC) to matrix-assisted laser desorption/ionisation-mass spectrometry (MALDI-MS) and its...
Mirgorodskaya, Ekaterina, Braeuer, Corina, Fucini, Paola, Lehrach, Hans, Gobom, Johan
We report the development of a robust interface for off-line coupling of nano liquid chromatography (LC) to matrix-assisted laser desorption/ionisation-mass spectrometry (MALDI-MS) and its...
Mirgorodskaya, Ekaterina, Wanker, Erich E., Otto, Albrecht, Lehrach, Hans, Gobom, Johan
Determining which proteins are unique among one or several protein populations is an often-encountered task in proteomics. To this purpose, we present a new method based on trypsin-catalyzed...
Gade, Dörte, Theiss, Dorothea, Lange, Daniela, Mirgorodskaya, Ekaterina, Lombardot, Thierry, Glöckner, Frank Oliver, ...
The marine bacterium Rhodopirellula baltica, a member of the phylum Planctomycetes, has distinct morphological properties and contributes to remineralization of biomass in the natural environment. On...
Papakonstantinou, Eleni, Aletras, Alexios J., Glass, Evelyn, Tsogas, Panagiotis, Dionyssopoulos, Alexander, Adjaye, James, ...
Acne vulgaris is a skin disorder of the sebaceous follicles, involving hyperkeratinization and perifollicular inflammation. Matrix metalloproteinases (MMP) have a predominant role in inflammatory...
An integrative approach to gain insights into the cellular function of human ataxin-2 (2005)
Ralser, Markus, Albrecht, Mario, Nonhoff, Ute, Lengauer, Thomas, Lehrach, Hans, Krobitsch, Sylvia
Spinocerebellar ataxia type 2 (SCA2) is a hereditary neurodegenerative disorder caused by a trinucleotide expansion in the SCA2 gene, encoding a polyglutamine stretch in the gene product ataxin-2...
Generation of a yeast two-hybrid strain suitable for competitive protein binding analysis (2005)
Ralser, Markus, Goehler, Heike, Wanker, Erich E., Lehrach, Hans, Krobitsch, Sylvia
Ralser, Markus, Nonhoff, Ute, Albrecht, Mario, Lengauer, Thomas, Wanker, Erich E., Lehrach, Hans, ...
Spinocerebellar ataxia type 2 is an inherited neurodegenerative disorder that is caused by an expanded trinucleotide repeat in the SCA2 gene, encoding a polyglutamine stretch in the gene product...
Genome projects and the functional-genomic era (2005)
Sauer, Sascha, Konthur, Zoltan, Lehrach, Hans
The problems we face today in public health as a result of the - fortunately - increasing age of people and the requirements of developing countries create an urgent need for new and innovative...
Miniaturization in functional genomics and proteomics (2005)
Sauer, Sascha, Lange, Bodo M. H., Gobom, Johan, Nyarsik, Lajos, Seitz, Harald, Lehrach, Hans
Proteins are the key components of the cellular machinery responsible for processing changes that are ordered by genomic information. Analysis of most human proteins and nucleic acids is important in...
Systems biology in practice : concepts, implementation and application (2005)
Klipp, Edda, Herwig, Ralf, Kowald, Axel, Wierling, Christoph, Lehrach, Hans
Steller, Sigrid, Angenendt, Philipp, Cahill, Dolores J., Heuberger, Sigrid, Lehrach, Hans, Kreutzberger, Jürgen
Neisseria meningitidis is the most common cause of meningitis and causes epidemic outbreaks. One trait of N. meningitidis, which is associated with most of the currently recognized virulence...
Sperling, Silke, Grimm, Christina H., Dunkel, Ilona, Mebus, Siegrun, Sperling, Hans-Peter, Ebner, Arno, ...
Recent reports have demonstrated that mice lacking the transcription factor Cited2 die in utero showing various cardiac malformations. We present for the first time functionally relevant mutations of...
A human protein-protein interaction network : a resource for annotating the proteome (2005)
Stelzl, Ulrich, Worm, Uwe, Lalowski, Maciej, Haenig, Christian, Brembeck, Felix H., Goehler, Heike, ...
Protein-protein interaction maps provide a valuable framework for a better understanding of the functional organization of the proteome. To detect interacting pairs of human proteins systematically,...
Wolski, Witold E., Lalowski, Maciej, Martus, Peter, Herwig, Ralf, Giavalisco, Patrick, Gobom, Johan, ...
Background: Biological Mass Spectrometry is used to analyse peptides and proteins. A mass spectrum generates a list of measured mass to charge ratios and intensities of ionised peptides, which is...
Tanja Feilner, Claus Hultschig, Justin Lee, Svenja Meyer, Andrea Koenig, ...
Mitogen-activated protein kinase (MAPK) cascades are universal and highly conserved signal transduction modules in eucaryotes, including plants. These protein phosphorylation cascades link...
James Adjaye, John Huntriss, Ralf Herwig, Alia Benkahla, Thore Brink, Claus Hultschig, ...
The online version of this article, along with updated information and services, is located on the World Wide Web at:
Ralser, Markus, Nonhoff, Ute, Albrecht, Mario, Lengauer, Thomas, Wanker, Erich E., Lehrach, Hans, ...
An integrative approach to gain insights into the cellular function of human ataxin-2 (2005)
Ralser, Markus, Albrecht, Mario, Nonhoff, Ute, Lengauer, Thomas, Lehrach, Hans, Krobitsch, Sylvia
Costello, Christine M., Mah, Nancy, Häsler, Robert, Rosenstiel, Philip, Waetzig, Georg H., Hahn, Andreas, ...
Ralser, Markus, Nonhoff, Ute, Albrecht, Mario, Lengauer, Thomas, Wanker, Erich E., Lehrach, Hans, ...
Spinocerebellar ataxia type 2 is an inherited neurodegenerative disorder that is caused by an expanded trinucleotide repeat in the SCA2 gene, encoding a polyglutamine stretch in the gene product...
Volff,Jean-Nicolas, Lehrach,Hans, Reinhardt,Richard, Chourrout,Daniel
Retrotransposable elements have played an important role in shaping eukaryotic DNA, and their activity and turnover rate directly influence the size of genomes. With approximately 15,000 genes within...
d-matrix – database exploration, visualization and analysis (2004)
Seelow, Dominik, Galli, Raffaello, Mebus, Siegrun, Sperling, Hans-Peter, Lehrach, Hans, Sperling, Silke
Abstract Background Motivated by a biomedical database set up by our group, we aimed to develop a generic database front-end with embedded knowledge discovery and analysis features. A major focus was...
Adjaye, James, Herwig, Ralf, Herrmann, Doris, Wruck, Wasco, BenKahla, Alia, Brink, Thore C, ...
Abstract Background Cross-species gene-expression comparison is a powerful tool for the discovery of evolutionarily conserved mechanisms and pathways of expression control. The usefulness of cDNA...
Adjaye,James, Herwig,Ralf, Herrmann,Doris, Wruck,Wasco, BenKahla,Alia, Brink,Thore C., ...
Background Cross-species gene-expression comparison is a powerful tool for the discovery of evolutionarily conserved mechanisms and pathways of expression control. The usefulness of cDNA microarrays...
d-matrix – database exploration, visualization and analysis (2004)
Seelow,Dominik, Galli,Raffaello, Mebus,Sigrun, Sperling,Hans-Peter, Lehrach,Hans, Sperling,Silke
Background Motivated by a biomedical database set up by our group, we aimed to develop a generic database front-end with embedded knowledge discovery and analysis features. A major focus was the...
Borodina,Tatiana A., Lehrach,Hans, Soldatov,Aleksey V.
In this article, we describe a genotyping approach applicable to both individual and multiplexed single nucleotide polymorphism (SNP) analysis, based on a ligation detection reaction (LDR) performed...
Angenendt,Philipp, Wilde,Jeannine, Kijanka,Gregor, Baars,Sabine, Cahill,Dolores J., Kreutzberger,Jürgen, ...
Automation is the key approach for genomewide and proteomewide screening of function and interaction. Especially for proteomics, antibody microarrays are a useful tool for massive parallel profiling...
Edvardsen,Rolf B., Lerat,Emmanuelle, Maeland,Anne Dorthea, Flåt,Mette, Tewari,Rita, Jensen,Marit F., ...
Oikopleura dioica is a pelagic tunicate with a very small genome and a very short life cycle. In order to investigate the intron–exon organizations in Oikopleura, we have isolated and characterized...
Goehler,Heike, Lalowski,Maciej, Stelzl,Ulrich, Waelter,Stephanie, Stroedicke,Martin, Worm,Uwe, ...
Analysis of protein-protein interactions (PPIs) is a valuable approach for characterizing proteins of unknown function. Here, we have developed a strategy combining library and matrix yeast...
Sauer,Sascha, Kepper,Pamela, Smyra,Anett, Dahl,Andreas, Ferse,Falk-Thilo, Lehrach,Hans, ...
In this article, we describe the application of a novel micro elution solid-phase extraction method for purification of short stretches of DNA products of single nucleotide polymorphisms (SNPs) prior...
Seo,Hee-Chan, Edvardsen,Rolf Brudvik, Maeland,Anne Dorthea, Bjordal,Marianne, Jensen,Marit Flo, Hansen,Anette, ...
Tunicate embryos and larvae have small cell numbers and simple anatomical features in comparison with other chordates, including vertebrates. Although they branch near the base of chordate...
Multiplexed real-time PCR using universal reporters (2004)
Rickert,Andreas M., Lehrach,Hans, Sperling,Silke
Real-time quantitative PCR is a sensitive and accurate method for gene expression studies (1). The detection chemistries of all real-time PCR procedures are based on one of two principles for...
Bauer,Oliver, Guerasimova,Anna, Sauer,Sascha, Thamm,Sabine, Steinfath,Matthias, Herwig,Ralf, ...
Peptide nucleic acid (PNA) is a novel class of DNA analogues in which the entire sugar-phosphate backbone is replaced by a pseudopeptide counterpart. Owing to its neutral character and the consequent...
A catalog of human cDNA expression clones and its application to structural genomics (2004)
Büssow, Konrad, Quedenau, Claudia, Sievert, Volker, Tischer, Janett, Scheich, Christoph, Seitz, Harald, ...
Abstract We describe here a systematic approach to the identification of human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli . A cDNA expression library...
A catalog of human cDNA expression clones and its application to structural genomics (2004)
Büssow,Konrad, Quedenau,Claudia, Sievert,Volker, Tischer,Janett, Scheich,Christoph, Seitz,Harald, ...
We describe here a systematic approach to the identification of human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli. A cDNA expression library of 10,825...
Kahlem,Pascal, Sultan,Marc, Herwig,Ralf, Steinfath,Matthias, Balzereit,Daniela, Eppens,Barbara, ...
Human trisomy 21, which results in Down syndrome (DS), is one of the most complicated congenital genetic anomalies compatible with life, yet little is known about the molecular basis of DS. It is...
Khorasani,Maryam Zadeh, Hennig,Steffen, Imre,Gabriele, Asakawa,Shuichi, Palczewski,Stefanie, Berger,Anja, ...
In order to realize the full potential of the medaka as a model system for developmental biology and genetics, characterized genomic resources need to be established, culminating in the sequence of...
Poustka,Albert J., Kühn,Alexander, Radosavljevic,Vesna, Wellenreuther,Ruth, Lehrach,Hans, Panopoulou,Georgia
We identified a transcription factor of the onecut class in the sea urchin Strongylocentrotus purpuratus that represents an ortholog of the mammalian gene HNF6, the founding member of the onecut...
Large-scale expression screening by automated whole-mount in situ hybridization (2004)
Quiring,Rebecca, Wittbrodt,Beate, Henrich,Thorsten, Ramialison,Mirana, Burgtorf,Carola, Lehrach,Hans, ...
Gene expression profiling is an important component of functional genomics. We present a time and cost efficient high-throughput whole-mount in situ technique to perform a large-scale gene expression...
Rickert,Andreas M., Borodina,Tatiana A., Kuhn,Eckehard J., Lehrach,Hans, Sperling,Silke
Single-nucleotide polymorphisms (SNPs) have proven to be powerful genetic markers for a variety of genetic applications, e.g., association studies leading to dissection of both monogenetic and...
A European focus on proteomics (2004)
Spahn, Christian MT, Lehrach, Hans, Jungblut, Peter R
A report on the First International Symposium of the Austrian Proteomics Platform, Seefeld, Austria, 26-29 January 2004.
A European focus on proteomics (2004)
Spahn,Christian M., Lehrach,Hans, Jungblut,Peter R.
A report on the First International Symposium of the Austrian Proteomics Platform, Seefeld, Austria, 26-29 January 2004.
Cell-free protein expression and functional assay in nanowell chip format (2004)
Angenendt,Philipp, Nyarsik,Lajos, Szaflarski,Witold, Glokler,Joern, Nierhaus,Knud H., Lehrach,Hans, ...
The expression and characterization of large protein libraries requires high-throughput tools for rapid and cost-effective expression and screening. A promising tool to meet these requirements is...
Cell-free protein expression and functional assay in nanowell chip format (2004)
Angenendt,Philipp, Nyarsik,Lajos, Szaflarski,Witold, Glökler,Jörn, Nierhaus,Knud H., Lehrach,Hans, ...
The expression and characterization of large protein libraries requires high-throughput tools for rapid and cost-effective expression and screening. A promising tool to meet these requirements is...
Cell-free protein expression and functional assay in nanowell chip format (2004)
Angenendt,Philipp, Nyarsik,Lajos, Szaflarski,Witold, Glökler,Jörn, Nierhaus,Knud H., Lehrach,Hans, ...
The expression and characterization of large protein libraries requires high-throughput tools for rapid and cost-effective expression and screening. A promising tool to meet these requirements is...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski,Martin, Wallis,John, Goesele,Claudia, Bosdet,Ian, Chiu,Readman, Graves,Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Genome sequence of the Brown Norway rat yields insights into mammalian evolution (2004)
Gibbs,Richard A. ..., Himmelbauer,Heinz, Lehrach,Hans ..., Collins,Francis
The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome...
The genomic sequence and comparative analysis of the rat major histocompatibility complex (2004)
Hurt,Peter, Walter,Lutz, Sudbrak,Ralf, Klages,Sven, Mueller,Ines, Shiina,Takashi, ...
We have determined the sequence of a 4-Mb interval on rat chromosome 20p12 that encompasses the rat major histocompatibility complex (MHC). This is the first report of a finished sequence for a...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski,Martin, Wallis,John, Goesele,Claaudia, Bosdet,Ian, Chiu,Readman, Graves,Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
A comparison of oligonucleotide and cDNA-based microarray systems (2004)
Mah,Nancy, Thelin,Anders, Lu,Tim, Nikolaus,Susanna, Kuhbacher,Tanja, Gurbuz,Yesim, ...
Large-scale public data mining will become more common as public release of microarray data sets becomes a corequisite for publication. Therefore, there is an urgent need to clarify whether data from...
A comparison of oligonucleotide and cDNA-based microarray systems (2004)
Mah,Nancy, Thelin,Anders, Lu,Tim, Nikolaus,Susanna, Kuehbacher,Tanja, Gurbuz,Yesim, ...
Large-scale public data mining will become more common as public release of microarray data sets becomes a corequisite for publication. Therefore, there is an urgent need to clarify whether data from...
Immunomics in inflammatory rheumatic diseases (2004)
Konthur,Zoltan, Adolph,Kenneth W., Burguera,G., Sternjak,A., Forster,Alan, Lehrach,Hans, ...
Autoimmune diseases such as rheumatoid arthritis (RA) are characterized by autoantibodies to different autoantigenic proteins. Using proteomic 2D immunoblots, we identified a new 40 kDa autoantigen...
Von Heydebreck,Anja, Sperling,Silke, Kaynak,Bogac, Lehrach,Hans, Vingron,Martin
In a genome-wide gene expression study, normal and congenitally malformed human hearts were examined using cDNA arrays. Statistical and bioinformatic methods were used in order to identify tissue-...
Heydebreck,Anja Von, Sperling,Silke, Kaynak,Bogac, Lehrach,Hans, Vingron,Martin
Zusammenfassung: In einer genomweiten Genexpressionsstudie wurden normale und fehlgebildete menschliche Herzen mittels cDNS-Arrays untersucht. Statistische und bioinformatische Methoden wurden...
Chip-Technologie als Werkzeug in der Systembiologie (2004)
Lehrach,Hans, Nietfeld,Wilfried, Falter,Claudia
Das Genom, die Umwelt und einige zufällige Ereignisse sind die drei Hauptkomponenten, die den Phänotyp eines Organismus bestimmen. In diesem Sinne kann in der Biologie Leben als eine Art...
GOblet: a platform for Gene Ontology annotation of anonymous sequence data (2004)
Groth,Detlef, Lehrach,Hans, Hennig,Steffen
GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines,...
A comparison of oligonucleotide and cDNA-based microarray systems (2004)
Mah, Nancy, Thelin, Anders, Lu, Tim, Nikolaus, Susanna, Kuhbacher, Tanja, Gurbuz, Yesim, ...
Large-scale public data mining will become more common as public release of microarray data sets becomes a corequisite for publication. Therefore, there is an urgent need to clarify whether data from...
Cell-free protein expression and functional assay in nanowell chip format (2004)
Angenendt, Philipp, Nyarsik, Lajos, Szaflarski, Witold, Glokler, Joern, Nierhaus, Knud H., Lehrach, Hans, ...
The expression and characterization of large protein libraries requires high-throughput tools for rapid and cost-effective expression and screening. A promising tool to meet these requirements is...
The genomic sequence and comparative analysis of the rat major histocompatibility complex (2004)
Hurt, Peter, Walter, Lutz, Sudbrak, Ralf, Klages, Sven, Mueller, Ines, Shiina, Takashi, ...
We have determined the sequence of a 4-Mb interval on rat chromosome 20p12 that encompasses the rat major histocompatibility complex (MHC). This is the first report of a finished sequence for a...
Immunomics in inflammatory rheumatic diseases (2004)
Konthur, Zoltan, Adolph, Kenneth W., Burguera, G., Sternjak, A., Forster, Alan, Lehrach, Hans, ...
Autoimmune diseases such as rheumatoid arthritis (RA) are characterized by autoantibodies to different autoantigenic proteins. Using proteomic 2D immunoblots, we identified a new 40 kDa autoantigen...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski, Martin, Wallis, John, Goesele, Claaudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Heydebreck, Anja Von, Sperling, Silke, Kaynak, Bogac, Lehrach, Hans, Vingron, Martin
Zusammenfassung: In einer genomweiten Genexpressionsstudie wurden normale und fehlgebildete menschliche Herzen mittels cDNS-Arrays untersucht. Statistische und bioinformatische Methoden wurden...
Cell-free protein expression and functional assay in nanowell chip format (2004)
Angenendt, Philipp, Nyarsik, Lajos, Szaflarski, Witold, Glökler, Jörn, Nierhaus, Knud H., Lehrach, Hans, ...
The expression and characterization of large protein libraries requires high-throughput tools for rapid and cost-effective expression and screening. A promising tool to meet these requirements is...
Von Heydebreck, Anja, Sperling, Silke, Kaynak, Bogac, Lehrach, Hans, Vingron, Martin
In a genome-wide gene expression study, normal and congenitally malformed human hearts were examined using cDNA arrays. Statistical and bioinformatic methods were used in order to identify tissue-...
Adjaye, James, Herwig, Ralf, Herrmann, Doris, Wruck, Wasco, BenKahla, Alia, Brink, Thore C., ...
Background Cross-species gene-expression comparison is a powerful tool for the discovery of evolutionarily conserved mechanisms and pathways of expression control. The usefulness of cDNA microarrays...
Angenendt, Philipp, Wilde, Jeannine, Kijanka, Gregor, Baars, Sabine, Cahill, Dolores J., Kreutzberger, Jürgen, ...
Automation is the key approach for genomewide and proteomewide screening of function and interaction. Especially for proteomics, antibody microarrays are a useful tool for massive parallel profiling...
Cell-free protein expression and functional assay in nanowell chip format (2004)
Angenendt, Philipp, Nyarsik, Lajos, Szaflarski, Witold, Glökler, Jörn, Nierhaus, Knud H., Lehrach, Hans, ...
The expression and characterization of large protein libraries requires high-throughput tools for rapid and cost-effective expression and screening. A promising tool to meet these requirements is...
Bauer, Oliver, Guerasimova, Anna, Sauer, Sascha, Thamm, Sabine, Steinfath, Matthias, Herwig, Ralf, ...
Peptide nucleic acid (PNA) is a novel class of DNA analogues in which the entire sugar-phosphate backbone is replaced by a pseudopeptide counterpart. Owing to its neutral character and the consequent...
Borodina, Tatiana A., Lehrach, Hans, Soldatov, Aleksey V.
In this article, we describe a genotyping approach applicable to both individual and multiplexed single nucleotide polymorphism (SNP) analysis, based on a ligation detection reaction (LDR) performed...
A catalog of human cDNA expression clones and its application to structural genomics (2004)
Büssow, Konrad, Quedenau, Claudia, Sievert, Volker, Tischer, Janett, Scheich, Christoph, Seitz, Harald, ...
We describe here a systematic approach to the identification of human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli. A cDNA expression library of 10,825...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski, Martin, Wallis, John, Goesele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
A comparison of oligonucleotide and cDNA-based microarray systems (2004)
Mah, Nancy, Thelin, Anders, Lu, Tim, Nikolaus, Susanna, Kuehbacher, Tanja, Gurbuz, Yesim, ...
Large-scale public data mining will become more common as public release of microarray data sets becomes a corequisite for publication. Therefore, there is an urgent need to clarify whether data from...
Edvardsen, Rolf B., Lerat, Emmanuelle, Maeland, Anne Dorthea, Flåt, Mette, Tewari, Rita, Jensen, Marit F., ...
Oikopleura dioica is a pelagic tunicate with a very small genome and a very short life cycle. In order to investigate the intron–exon organizations in Oikopleura, we have isolated and characterized...
Chip-Technologie als Werkzeug in der Systembiologie (2004)
Lehrach, Hans, Nietfeld, Wilfried, Falter, Claudia
Das Genom, die Umwelt und einige zufällige Ereignisse sind die drei Hauptkomponenten, die den Phänotyp eines Organismus bestimmen. In diesem Sinne kann in der Biologie Leben als eine Art...
Genome sequence of the Brown Norway rat yields insights into mammalian evolution (2004)
Gibbs, Richard A. ..., Himmelbauer, Heinz, Lehrach, Hans ..., Collins, Francis
The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome...
Goehler, Heike, Lalowski, Maciej, Stelzl, Ulrich, Waelter, Stephanie, Stroedicke, Martin, Worm, Uwe, ...
Analysis of protein-protein interactions (PPIs) is a valuable approach for characterizing proteins of unknown function. Here, we have developed a strategy combining library and matrix yeast...
GOblet: a platform for Gene Ontology annotation of anonymous sequence data (2004)
Groth, Detlef, Lehrach, Hans, Hennig, Steffen
GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines,...
Kahlem, Pascal, Sultan, Marc, Herwig, Ralf, Steinfath, Matthias, Balzereit, Daniela, Eppens, Barbara, ...
Human trisomy 21, which results in Down syndrome (DS), is one of the most complicated congenital genetic anomalies compatible with life, yet little is known about the molecular basis of DS. It is...
Khorasani, Maryam Zadeh, Hennig, Steffen, Imre, Gabriele, Asakawa, Shuichi, Palczewski, Stefanie, Berger, Anja, ...
In order to realize the full potential of the medaka as a model system for developmental biology and genetics, characterized genomic resources need to be established, culminating in the sequence of...
Poustka, Albert J., Kühn, Alexander, Radosavljevic, Vesna, Wellenreuther, Ruth, Lehrach, Hans, Panopoulou, Georgia
We identified a transcription factor of the onecut class in the sea urchin Strongylocentrotus purpuratus that represents an ortholog of the mammalian gene HNF6, the founding member of the onecut...
Large-scale expression screening by automated whole-mount in situ hybridization (2004)
Quiring, Rebecca, Wittbrodt, Beate, Henrich, Thorsten, Ramialison, Mirana, Burgtorf, Carola, Lehrach, Hans, ...
Gene expression profiling is an important component of functional genomics. We present a time and cost efficient high-throughput whole-mount in situ technique to perform a large-scale gene expression...
Rickert, Andreas M., Borodina, Tatiana A., Kuhn, Eckehard J., Lehrach, Hans, Sperling, Silke
Single-nucleotide polymorphisms (SNPs) have proven to be powerful genetic markers for a variety of genetic applications, e.g., association studies leading to dissection of both monogenetic and...
Multiplexed real-time PCR using universal reporters (2004)
Rickert, Andreas M., Lehrach, Hans, Sperling, Silke
Real-time quantitative PCR is a sensitive and accurate method for gene expression studies (1). The detection chemistries of all real-time PCR procedures are based on one of two principles for...
Sauer, Sascha, Kepper, Pamela, Smyra, Anett, Dahl, Andreas, Ferse, Falk-Thilo, Lehrach, Hans, ...
In this article, we describe the application of a novel micro elution solid-phase extraction method for purification of short stretches of DNA products of single nucleotide polymorphisms (SNPs) prior...
d-matrix – database exploration, visualization and analysis (2004)
Seelow, Dominik, Galli, Raffaello, Mebus, Sigrun, Sperling, Hans-Peter, Lehrach, Hans, Sperling, Silke
Background Motivated by a biomedical database set up by our group, we aimed to develop a generic database front-end with embedded knowledge discovery and analysis features. A major focus was the...
Seo, Hee-Chan, Edvardsen, Rolf Brudvik, Maeland, Anne Dorthea, Bjordal, Marianne, Jensen, Marit Flo, Hansen, Anette, ...
Tunicate embryos and larvae have small cell numbers and simple anatomical features in comparison with other chordates, including vertebrates. Although they branch near the base of chordate...
A European focus on proteomics (2004)
Spahn, Christian M., Lehrach, Hans, Jungblut, Peter R.
A report on the First International Symposium of the Austrian Proteomics Platform, Seefeld, Austria, 26-29 January 2004.
Volff, Jean-Nicolas, Lehrach, Hans, Reinhardt, Richard, Chourrout, Daniel
Retrotransposable elements have played an important role in shaping eukaryotic DNA, and their activity and turnover rate directly influence the size of genomes. With approximately 15,000 genes within...
GOblet: a platform for Gene Ontology annotation of anonymous sequence data (2004)
Detlef Groth, Hans Lehrach, Steffen Hennig
GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines,...
Volff, Jean-Nicolas, Lehrach, Hans, Reinhardt, Richard, Chourrout, Daniel
Retrotransposable elements have played an important role in shaping eukaryotic DNA, and their activity and turnover rate directly influenced the size of genomes. With approximately 15,000 genes...
Volff, Jean-Nicolas, Lehrach, Hans, Reinhardt, Richard, Chourrout, Daniel
Retrotransposable elements have played an important role in shaping eukaryotic DNA, and their activity and turnover rate directly influence the size of genomes. With approximately 15,000 genes within...
Kahlem, Pascal, Sultan, Marc, Herwig, Ralf, Steinfath, Matthias, Balzereit, Daniela, Eppens, Barbara, ...
Human trisomy 21, which results in Down syndrome (DS), is one of the most complicated congenital genetic anomalies compatible with life, yet little is known about the molecular basis of DS. It is...
GOblet: a platform for Gene Ontology annotation of anonymous sequence data (2004)
Groth, Detlef, Lehrach, Hans, Hennig, Steffen
GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines,...
The Genomic Sequence and Comparative Analysis of the Rat Major Histocompatibility Complex (2004)
Hurt, Peter, Walter, Lutz, Sudbrak, Ralf, Klages, Sven, Müller, Ines, Shiina, Takashi, ...
We have determined the sequence of a 4-Mb interval on rat chromosome 20p12 that encompasses the rat major histocompatibility complex (MHC). This is the first report of a finished sequence for a...
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome (2004)
Krzywinski, Martin, Wallis, John, Gösele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Hilson, Pierre, Allemeersch, Joke, Altmann, Thomas, Aubourg, Sébastien, Avon, Alexandra, Beynon, Jim, ...
Microarray transcript profiling and RNA interference are two new technologies crucial for large-scale gene function studies in multicellular eukaryotes. Both rely on sequence-specific hybridization...
Volff, Jean-Nicolas, Lehrach, Hans, Reinhardt, Richard, Chourrout, Daniel
Retrotransposable elements have played an important role in shaping eukaryotic DNA, and their activity and turnover rate directly influenced the size of genomes. With approximately 15,000 genes...
Burgtorf,Carola, Kepper,Pamela, Hoehe,Margret, Schmitt,Carsten, Reinhardt,Richard, Lehrach,Hans, ...
We present a novel methodology to determine the phase of single-nucleotide polymorphisms (SNPs) on a chromosome, which we term clone-based systematic haplotyping (CSH). The CSH procedure is based on...
Poustka,Albert J., Groth,Detlef, Hennig,Steffen, Thamm,Sabine, Cameron,Andrew, Beck,Alfred, ...
Together with the hemichordates, sea urchins represent basal groups of nonchordate invertebrate deuterostomes that occupy a key position in bilaterian evolution. Because sea urchin embryos are also...
A nonredundant human protein chip for antibody screening and serum profiling (2003)
Lueking,Angelika, Possling,Alexandra, Huber,Otmar, Beveridge,Allan, Horn,Martin, Eickhoff,Holger, ...
There is burgeoning interest in protein microarrays, but a source of thousands of nonredundant, purified proteins was not previously available. Here we show a glass chip containing 2413 nonredundant...
Hoehe,Margret R., Timmermann,Bernd, Lehrach,Hans
The identification of genes predisposing to human diseases is of paramount importance for understanding the molecular basis of the disease and individually different drug response, and will establish...
Busch,Anne, Engemann,Sabine, Lurz,Rudi, Okazawa,Hitoshi, Lehrach,Hans, Wanker,Erich E.
Aggregation of huntingtin (htt) in neuronal inclusions is associated with the development of Huntington's disease (HD). Previously, we have shown that mutant htt fragments with polyglutamine (polyQ)...
Busch,Anne, Engemann,Sabine, Lurz,Rudi, Okazawa,Hitoshi, Lehrach,Hans, Wanker,Erich E.
Aggregation of huntingtin (htt) in neuronal inclusions is associated with the development of Huntington's disease (HD). Previously, we have shown that mutant htt fragments with polyglutamine (polyQ)...
DNA purification on homemade silica spin-columns (2003)
Borodina,Tatiana A., Lehrach,Hans, Soldatov,Aleksey V.
No abstract available.
A genome-wide transcriptional fingerprint of normal and malformed human hearts (2003)
Kaynak,Bogac, Von Heydebreck,Anja, Mebas,Siegrun, Seelow,Dominic, Vogel,Jan, Sperling,Hans-Peter, ...
Background— We present the first genome-wide cDNA array analysis of human congenitally malformed hearts and attempted to partially elucidate these complex phenotypes. Most congential heart defects,...
3D protein microarrays: Performing multiplex immunoassays on a single chip (2003)
Angenendt,Philip, Glokler,Jörn, Konthur,Zoltán, Lehrach,Hans, Cahill,Dolores J.
The enzyme-linked immunosorbent assay (ELISA) is typically applied in the format of microtiter plates. To increase throughput and reduce consumption of precious samples, efforts have been made to...
Differential expression of human adipose-tissue genes in obesity-hypertension (2003)
Engeli,S., Baranov,S., Soldatov,A., Lehrach,Hans, Luft,F. C., Sharma,A. M.
Abstract: From the 57th Annual Fall Conference of the Council for High Blood Pressure Research in Association with the Council on Kidney in Cardiovascular Disease
Angenendt,Philipp, Glökler,Jörn, Sobek,Jens, Lehrach,Hans, Cahill,Dolores J.
The performance of protein and antibody microarrays is dependent on various factors, one of which is the use of an appropriate microarray surface for the immobilisation of either protein or antibody...
Expression profiling of human idiopathic dilated cardiomyopathy (2003)
Grzeskowiak,Rafal, Witt,Henning, Drungowski,Mario, Thermann,Rolf, Hennig,Steffen, Perrot,Andreas, ...
Objective: To investigate the global changes accompanying human dilated cardiomyopathy (DCM) we performed a large-scale expression screen using myocardial biopsies from a group of DCM patients with...
Identification of downstream targets of the nodal signaling pathway. (2003)
Bennett,James, Joubin,Kathy, Cheng,Simon, Aanstad,Pia, Lehrach,Hans, Schier,Alexander F.
Nodal signaling is critical for a variety of processes during vertebrate development, including gastrulation and left—right patterning. Although many of the molecules that play a role in the...
Ligation-based synthesis of oligonucleotides with block structure (2003)
Borodina,Tatiana A., Lehrach,Hans, Soldatov,Aleksey V.
We describe here a method for the synthesis of oligonucleotides with block structure (padlock probes, primers for multiplex polymerase chain reaction (PCR), and ligation-independent cloning), based...
Automated Gene Ontology annotation for anonymous sequence data (2003)
Hennig,Steffen, Groth,Detlef, Lehrach,Hans
Gene Ontology (GO) is the most widely accepted attempt to construct a unified and structured vocabulary for the description of genes and their products in any organism. Annotation by GO terms is...
Generation of Arabidopsis protein chips for antibody and serum screening (2003)
Kersten,Birgit, Feilner,Tanja, Kramer,A., Wehrmeyer,Silke, Possling,Alexandra, Witt,Iris, ...
Protein array technology has emerged as a new tool to enable ordered screening of proteins for expression and molecular interactions in high throughput. Besides classical solid-phase substrates, such...
Sauer,Sascha, Lehrach,Hans, Reinhardt,Richard
High-throughput procedures are an important requirement for future large-scale genetic studies such as genotyping of single nucleotide polymorphisms (SNPs). Matrix-assisted laser desorption/...
Panopoulou,Georgia, Hennig,Steffen, Groth,Detlef, Krause,Antje, Poustka,Albert J., Herwig,Ralf, ...
The 2R hypothesis predicting two genome duplications at the origin of vertebrates is highly controversial. Studies published so far include limited sequence data from organisms close to the...
Genome-wide array analysis of normal and malformed human hearts (2003)
Kaynak,Bogac, Von Heydebreck,Anja, Mebus,Sigrun, Seelow,Dominik, Hennig,Steffen, Vogel,Jan, ...
Background We present the first genome-wide cDNA array analysis of human congenitally malformed hearts and attempted to partially elucidate these complex phenotypes. Most congential heart defects,...
Characterization of trimethylpsoralen as a mutagen for mouse embryonic stem cells (2003)
Greber,Boris, Lehrach,Hans, Himmelbauer,Heinz
Given a large number of genes with unknown functions in model organisms, collections of mutants are valuable resources for studying gene function. For the mouse, embryonic stem cell technology offers...
Nordhoff,Eckhard, Schurenberg,Martin, Thiele,Gabriela, Luebbert,Christine, Kloeppel,Klaus-Dieter, Theiss,Dorothea, ...
This contribution provides a set of protocols for MALDI-MS sample preparation of peptides and oligonucleotides on prestructured sample supports. The protocols have been optimized for high detection...
Kodzius,Rimantas, Rhyner,Claudius, Konthur,Zoltan, Buczek,Donald, Lehrach,Hans, Walter,Gerald, ...
We describe a high-throughput, quantitative technology for fast identification of all different clones present in selectively enriched phage surface-displayed cDNA libraries. The strategy is based on...
RA-specific expression profiles and new candidate genes (2003)
Ungethuem,U., Haeupl,T., Koczan,D., Huber,H., Von Helversen,T., Ruiz,Patricia, ...
Objective: To identify rheumatoid arthritis- (RA)-specific profiles of differentially expressed genes. Methods: Synovial tissues from RA and osteoarthritis (OA) patients and from normal joints were...
Malecova,Barbora, Ramser,Juliane, O'Brien,John K., Janitz,Michal, Judova,Jana, Lehrach,Hans, ...
Mrjp1 gene belongs to the honeybee mrjp gene family encoding the major royal jelly proteins (MRJPs), secreted by nurse bees into the royal jelly. In this study, we have isolated the genomic clone...
Extraction of proteins from plant tissues for two-dimensional electrophoresis analysis (2003)
Giavalisco,Patrick, Nordhoff,Eckhard, Lehrach,Hans, Gobom,Joerg, Klose,Joachim
To increase the number of proteins detectable by two-dimensional electrophoresis (2-DE) in plants, we present a new procedure for extracting total proteins from plant tissue. This method avoids any...
Comparative and evolutionary analysis of the rhesus macaque extended MHC class II region (2003)
Sudbrak,Ralf, Reinhardt,Richard, Hennig,Steffen, Lehrach,Hans, Gunther,Eberhard, Walter,Lutz
The sequence-based map of a part of the rhesus macaque major histocompatibility complex (MHC) extended class II region is presented. The sequenced region encompasses 67,401 bp and contains the...
3D protein microarrays: Performing multiplex immunoassays on a single chip (2003)
Angenendt, Philip, Glokler, Jörn, Konthur, Zoltán, Lehrach, Hans, Cahill, Dolores J.
The enzyme-linked immunosorbent assay (ELISA) is typically applied in the format of microtiter plates. To increase throughput and reduce consumption of precious samples, efforts have been made to...
A genome-wide transcriptional fingerprint of normal and malformed human hearts (2003)
Kaynak, Bogac, Von Heydebreck, Anja, Mebas, Siegrun, Seelow, Dominic, Vogel, Jan, Sperling, Hans-Peter, ...
Background— We present the first genome-wide cDNA array analysis of human congenitally malformed hearts and attempted to partially elucidate these complex phenotypes. Most congential heart defects,...
Angenendt, Philipp, Glökler, Jörn, Sobek, Jens, Lehrach, Hans, Cahill, Dolores J.
The performance of protein and antibody microarrays is dependent on various factors, one of which is the use of an appropriate microarray surface for the immobilisation of either protein or antibody...
Identification of downstream targets of the nodal signaling pathway. (2003)
Bennett, James, Joubin, Kathy, Cheng, Simon, Aanstad, Pia, Lehrach, Hans, Schier, Alexander F.
Nodal signaling is critical for a variety of processes during vertebrate development, including gastrulation and left—right patterning. Although many of the molecules that play a role in the...
DNA purification on homemade silica spin-columns (2003)
Borodina, Tatiana A., Lehrach, Hans, Soldatov, Aleksey V.
No abstract available.
Ligation-based synthesis of oligonucleotides with block structure (2003)
Borodina, Tatiana A., Lehrach, Hans, Soldatov, Aleksey V.
We describe here a method for the synthesis of oligonucleotides with block structure (padlock probes, primers for multiplex polymerase chain reaction (PCR), and ligation-independent cloning), based...
Burgtorf, Carola, Kepper, Pamela, Hoehe, Margret, Schmitt, Carsten, Reinhardt, Richard, Lehrach, Hans, ...
We present a novel methodology to determine the phase of single-nucleotide polymorphisms (SNPs) on a chromosome, which we term clone-based systematic haplotyping (CSH). The CSH procedure is based on...
Busch, Anne, Engemann, Sabine, Lurz, Rudi, Okazawa, Hitoshi, Lehrach, Hans, Wanker, Erich E.
Aggregation of huntingtin (htt) in neuronal inclusions is associated with the development of Huntington's disease (HD). Previously, we have shown that mutant htt fragments with polyglutamine (polyQ)...
Busch, Anne, Engemann, Sabine, Lurz, Rudi, Okazawa, Hitoshi, Lehrach, Hans, Wanker, Erich E.
Aggregation of huntingtin (htt) in neuronal inclusions is associated with the development of Huntington's disease (HD). Previously, we have shown that mutant htt fragments with polyglutamine (polyQ)...
Extraction of proteins from plant tissues for two-dimensional electrophoresis analysis (2003)
Giavalisco, Patrick, Nordhoff, Eckhard, Lehrach, Hans, Gobom, Joerg, Klose, Joachim
To increase the number of proteins detectable by two-dimensional electrophoresis (2-DE) in plants, we present a new procedure for extracting total proteins from plant tissue. This method avoids any...
Comparative and evolutionary analysis of the rhesus macaque extended MHC class II region (2003)
Sudbrak, Ralf, Reinhardt, Richard, Hennig, Steffen, Lehrach, Hans, Gunther, Eberhard, Walter, Lutz
The sequence-based map of a part of the rhesus macaque major histocompatibility complex (MHC) extended class II region is presented. The sequenced region encompasses 67,401 bp and contains the...
Characterization of trimethylpsoralen as a mutagen for mouse embryonic stem cells (2003)
Greber, Boris, Lehrach, Hans, Himmelbauer, Heinz
Given a large number of genes with unknown functions in model organisms, collections of mutants are valuable resources for studying gene function. For the mouse, embryonic stem cell technology offers...
Sauer, Sascha, Lehrach, Hans, Reinhardt, Richard
High-throughput procedures are an important requirement for future large-scale genetic studies such as genotyping of single nucleotide polymorphisms (SNPs). Matrix-assisted laser desorption/...
Automated Gene Ontology annotation for anonymous sequence data (2003)
Hennig, Steffen, Groth, Detlef, Lehrach, Hans
Gene Ontology (GO) is the most widely accepted attempt to construct a unified and structured vocabulary for the description of genes and their products in any organism. Annotation by GO terms is...
Poustka, Albert J., Groth, Detlef, Hennig, Steffen, Thamm, Sabine, Cameron, Andrew, Beck, Alfred, ...
Together with the hemichordates, sea urchins represent basal groups of nonchordate invertebrate deuterostomes that occupy a key position in bilaterian evolution. Because sea urchin embryos are also...
Genome-wide array analysis of normal and malformed human hearts (2003)
Kaynak, Bogac, Von Heydebreck, Anja, Mebus, Sigrun, Seelow, Dominik, Hennig, Steffen, Vogel, Jan, ...
Background We present the first genome-wide cDNA array analysis of human congenitally malformed hearts and attempted to partially elucidate these complex phenotypes. Most congential heart defects,...
Generation of Arabidopsis protein chips for antibody and serum screening (2003)
Kersten, Birgit, Feilner, Tanja, Kramer, A., Wehrmeyer, Silke, Possling, Alexandra, Witt, Iris, ...
Protein array technology has emerged as a new tool to enable ordered screening of proteins for expression and molecular interactions in high throughput. Besides classical solid-phase substrates, such...
Kodzius, Rimantas, Rhyner, Claudius, Konthur, Zoltan, Buczek, Donald, Lehrach, Hans, Walter, Gerald, ...
We describe a high-throughput, quantitative technology for fast identification of all different clones present in selectively enriched phage surface-displayed cDNA libraries. The strategy is based on...
A nonredundant human protein chip for antibody screening and serum profiling (2003)
Lueking, Angelika, Possling, Alexandra, Huber, Otmar, Beveridge, Allan, Horn, Martin, Eickhoff, Holger, ...
There is burgeoning interest in protein microarrays, but a source of thousands of nonredundant, purified proteins was not previously available. Here we show a glass chip containing 2413 nonredundant...
Malecova, Barbora, Ramser, Juliane, O'Brien, John K., Janitz, Michal, Judova, Jana, Lehrach, Hans, ...
Mrjp1 gene belongs to the honeybee mrjp gene family encoding the major royal jelly proteins (MRJPs), secreted by nurse bees into the royal jelly. In this study, we have isolated the genomic clone...
Nordhoff, Eckhard, Schurenberg, Martin, Thiele, Gabriela, Luebbert, Christine, Kloeppel, Klaus-Dieter, Theiss, Dorothea, ...
This contribution provides a set of protocols for MALDI-MS sample preparation of peptides and oligonucleotides on prestructured sample supports. The protocols have been optimized for high detection...
Differential expression of human adipose-tissue genes in obesity-hypertension (2003)
Engeli, S., Baranov, S., Soldatov, A., Lehrach, Hans, Luft, F. C., Sharma, A. M.
Abstract: From the 57th Annual Fall Conference of the Council for High Blood Pressure Research in Association with the Council on Kidney in Cardiovascular Disease
Expression profiling of human idiopathic dilated cardiomyopathy (2003)
Grzeskowiak, Rafal, Witt, Henning, Drungowski, Mario, Thermann, Rolf, Hennig, Steffen, Perrot, Andreas, ...
Objective: To investigate the global changes accompanying human dilated cardiomyopathy (DCM) we performed a large-scale expression screen using myocardial biopsies from a group of DCM patients with...
Panopoulou, Georgia, Hennig, Steffen, Groth, Detlef, Krause, Antje, Poustka, Albert J., Herwig, Ralf, ...
The 2R hypothesis predicting two genome duplications at the origin of vertebrates is highly controversial. Studies published so far include limited sequence data from organisms close to the...
RA-specific expression profiles and new candidate genes (2003)
Ungethuem, U., Haeupl, T., Koczan, D., Huber, H., Von Helversen, T., Ruiz, Patricia, ...
Objective: To identify rheumatoid arthritis- (RA)-specific profiles of differentially expressed genes. Methods: Synovial tissues from RA and osteoarthritis (OA) patients and from normal joints were...
Hoehe, Margret R., Timmermann, Bernd, Lehrach, Hans
The identification of genes predisposing to human diseases is of paramount importance for understanding the molecular basis of the disease and individually different drug response, and will establish...
Panopoulou, Georgia, Hennig, Steffen, Groth, Detlef, Krause, Antje, Poustka, Albert J., Herwig, Ralf, ...
The 2R hypothesis predicting two genome duplications at the origin of vertebrates is highly controversial. Studies published so far include limited sequence data from organisms close to the...
Automated Gene Ontology annotation for anonymous sequence data (2003)
Hennig, Steffen, Groth, Detlef, Lehrach, Hans
Gene Ontology (GO) is the most widely accepted attempt to construct a unified and structured vocabulary for the description of genes and their products in any organism. Annotation by GO terms is...
Burgtorf, Carola, Kepper, Pamela, Hoehe, Margret, Schmitt, Carsten, Reinhardt, Richard, Lehrach, Hans, ...
[Supplemental material is available online at www.genome.org. The following individuals kindly provided reagents, samples, or unpublished information as indicated in the paper: R. Pawlik.] We...
Poustka, Albert J., Groth, Detlef, Hennig, Steffen, Thamm, Sabine, Cameron, Andrew, Beck, Alfred, ...
Together with the hemichordates, sea urchins represent basal groups of nonchordate invertebrate deuterostomes that occupy a key position in bilaterian evolution. Because sea urchin embryos are also...
Sauer, Sascha, Lehrach, Hans, Reinhardt, Richard
High‐throughput procedures are an important requirement for future large‐scale genetic studies such as genotyping of single nucleotide polymorphisms (SNPs). Matrix‐assisted laser...
Expression profiling of human idiopathic dilated cardiomyopathy (2003)
Grzeskowiak, Rafal, Witt, Henning, Drungowski, Mario, Thermann, Rolf, Hennig, Steffen, Perrot, Andreas, ...
Objective: To investigate the global changes accompanying human dilated cardiomyopathy (DCM) we performed a large-scale expression screen using myocardial biopsies from a group of DCM patients with...
Heiser,Volker, Engernann,Sabine, Brocker,Wolfgang, Dunkel,Ilona, Boeddrich,Annett, Waelter,Stefanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Comparative expressed sequence tag analysis (2002)
Hennig,Steffen, Panopoulou,Georgia, Lehrach,Hans, Poustka,Albert
Herwig,Ralf, Schulz,Britta, Weisshaar,Bernd, Hennig,Steffen, Steinfath,Matthias, Drungowski,Mario, ...
Access to the complete gene inventory of an organism is crucial to understanding physiological processes like development, differentiation, pathogenesis, or adaptation to the environment. Transcripts...
Wierling, Christoph K, Steinfath, Matthias, Elge, Thorsten, Schulze-Kremer, Steffen, Aanstad, Pia, Clark, Matthew, ...
Abstract Background Gene expression analyses based on complex hybridization measurements have increased rapidly in recent years and have given rise to a huge amount of bioinformatic tools such as...
Wierling,Christoph K., Steinfath,Matthias, Elge,Thorsten, Schulze-Kremer,Steffen, Aanstad,Pia, Clark,Matthew, ...
Background: Gene expression analyses based on complex hybridization measurements have increased rapidly in recent years and have given rise to a huge amount of bioinformatic tools such as image...
Toward optimized antibody microarrays: a comparison of current microarray support materials (2002)
Angenend,Philipp, Glökler,Jörn, Murphy,Derek, Lehrach,Hans, Cahil,Dolores J.
With the advent of protein and antibody microarray technology several different coatings and protocols have been published, which may be broadly divided into two types: gel-coated surfaces and plain...
A gene expression map of human chromosome 21 orthologues in the mouse (2002)
Gitton,Yorick, Dahmane,Nadia, Baik,Sonya, I Altaba,Ariel Ruiz, Neidhardt,Lorenz, Scholze,Manuela, ...
The DNA sequence of human chromosome 21 (HSA21) has opened the route for a systematic molecular characterization of all of its genes. Trisomy 21 is associated with Down's syndrome, the most common...
DEFOG: A Practical Scheme for Deciphering Families of Genes (2002)
Fuchs,Tania, Malecova,Barbora, Linhart,Chaim, Sharan,Roded, Khen,Miriam, Herwig,Ralf, ...
We developed a novel efficient scheme, DEFOG (for "deciphering families of genes"), for determining sequences of numerous genes from a family of interest. The scheme provides a powerful means to...
Heiser,Volker, Engemann,Sabine, Bröcker,Wolfgang, Dunkel,Ilona, Boeddrich,Annett, Waelter,Stephanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Heiser,Volker, Engemann,Sabine, Bröcker,Wolfgang, Dunke,Ilona, Boeddrich,Annett, Waelter,Stephanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Gobom,Johan, Mueller,Martin, Egelhofer,Volker, Theiss,Dorothea, Lehrach,Hans, Nordhoff,Eckhard
The use of delayed ion extraction in MALDI time-of-flight mass spectrometry distorts the linear relationship between m/z and the square of the ion flight time (t2) with the consequence that, if a...
Genetic analysis of the mouse brain proteome (2002)
Klose,Joachim, Nock,Christina, Herrmann,Marion, Stühler,Kai, Marcus,Katrin, Blüggel,Martin, ...
Proteome analysis is a fundamental step in systematic functional genomics. Here we have resolved 8,767 proteins from the mouse brain proteome by large-gel two-dimensional electrophoresis. We detected...
Protein Identification by MALDI-TOF-MS Peptide Mapping: A New Strategy (2002)
Egelhofer,Volker, Gobom,Johan, Seitz,Harald, Giavalisco,Patrick, Lehrach,Hans, Nordhoff,Eckhard
A new strategy for identifying proteins by MALDI-TOF-MS peptide mapping is reported. In contrast to current approaches, the strategy does not rely on a good relative or absolute mass accuracy as the...
Schmidt,Frank, Lueking,Angelika, Nordhoff,Eckhard, Gobom,Johan, Klose,Joachim, Seitz,Harald, ...
We describe the technical feasibility and methodology to characterize a protein by a minimal set of structural information generated by matrix assisted laser desorption/ionization (MALDI)-mass...
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry (2002)
Olbrich,Heike, Häffner,Karsten, Kispert,Andreas, Völkel,Alexander, Volz,Andreas, Sasmaz,Gürsel, ...
Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected...
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry (2002)
Olbrich,Heike, Häffner,Karsten, Kispert,Andreas, Völkel,Alexander, Volz,Andreas, Sasmaz,Gürsel, ...
Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected...
Xdigitise: visualization of hybridization experiments (2002)
Wruck,Wasco, Griffiths,Huw, Steinfath,Matthias, Lehrach,Hans, Radelof,Uwe, O'Brien,John
Xdigitise is a software system for visualization of hybridization experiments giving the user facilities to analyze the corresponding images manually or automatically. Images of the high-density DNA...
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry (2002)
Olbrich,Heike, Häffner,Karsten, Kispert,Andreas, Völkel,Alexander, Volz,Andreas, Sasmaz,Gürsel, ...
Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected...
Protein Array Technology: The Tool to Bridge Genomics and Proteomics (2002)
Eickhoff,Holger, Konthur,Zoltán, Lueking,Angelika, Lehrach,Hans, Walter,Gerald, Nordhoff,Eckhard, ...
The generation of protein chips requires much more efforts than DNA microchips. While DNA is DNA and a variety of different DNA molecules behave stable in a hybridisation experiment, proteins are...
Hoehe,Margret R., Timmermann,Bernd, Lehrach,Hans
Wesentliche Ziele der modernen Genomforschung/ Pharmakogenomik sind die Identifikation von Krankheitsgenen, die Aufklärung der genetischen Variabilität von „Drug Targets“ und ihrer...
Datenanalyse von Biochips: Von der Sequenz zum System (2002)
Herwig,Ralf, Schuchhardt,Johannes, Eickhoff,Holger, Herzel,Hanspeter, Lehrach,Hans
Die Zunahme unserer Kenntnisse über die molekularen Mechanismen u.a. von Wachstums-, Entwicklungs- und Differenzierungsprozessen hat die Grundlagen der molekularen Medizin innerhalb weniger Jahre...
Oligonucleotide fingerprinting including differental cDNA library screning (2002)
Bauer,Oliver, Janitz,Michal, Guerasimova,Anna, Herwig,Ralf, Lehrach,Hans, Radelof,Uwe
This book combines the experience of 225 experts on 900 pages. Scientists worldwide are currently overwhelmed by the ever-increasing number and diversity of genome projects. This handbook is your...
Clustering gene expression profiles (2002)
This book combines the experience of 225 experts on 900 pages. Scientists worldwide are currently overwhelmed by the ever-increasing number and diversity of genome projects. This handbook is your...
Construction and Analysis of a Human-Chimpanzee Comparative Clone Map (2002)
Fujiyama,Asao, Watanabe,Hidemi, Toyoda,Atsushi, Taylor,Todd D., Itoh,Takehiko, Tsai,Shih-Feng, ...
The recently released human genome sequences provide us with reference data to conduct comparative genomic research on primates, which will be important to understand what genetic information makes...
Heiser, Volker, Engemann, Sabine, Bröcker, Wolfgang, Dunkel, Ilona, Boeddrich, Annett, Waelter, Stephanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry (2002)
Olbrich, Heike, Häffner, Karsten, Kispert, Andreas, Völkel, Alexander, Volz, Andreas, Sasmaz, Gürsel, ...
Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected...
Toward optimized antibody microarrays: a comparison of current microarray support materials (2002)
Angenend, Philipp, Glökler, Jörn, Murphy, Derek, Lehrach, Hans, Cahil, Dolores J.
With the advent of protein and antibody microarray technology several different coatings and protocols have been published, which may be broadly divided into two types: gel-coated surfaces and plain...
Schmidt, Frank, Lueking, Angelika, Nordhoff, Eckhard, Gobom, Johan, Klose, Joachim, Seitz, Harald, ...
We describe the technical feasibility and methodology to characterize a protein by a minimal set of structural information generated by matrix assisted laser desorption/ionization (MALDI)-mass...
Gobom, Johan, Mueller, Martin, Egelhofer, Volker, Theiss, Dorothea, Lehrach, Hans, Nordhoff, Eckhard
The use of delayed ion extraction in MALDI time-of-flight mass spectrometry distorts the linear relationship between m/z and the square of the ion flight time (t2) with the consequence that, if a...
Protein Identification by MALDI-TOF-MS Peptide Mapping: A New Strategy (2002)
Egelhofer, Volker, Gobom, Johan, Seitz, Harald, Giavalisco, Patrick, Lehrach, Hans, Nordhoff, Eckhard
A new strategy for identifying proteins by MALDI-TOF-MS peptide mapping is reported. In contrast to current approaches, the strategy does not rely on a good relative or absolute mass accuracy as the...
Comparative expressed sequence tag analysis (2002)
Hennig, Steffen, Panopoulou, Georgia, Lehrach, Hans, Poustka, Albert
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry (2002)
Olbrich, Heike, Häffner, Karsten, Kispert, Andreas, Völkel, Alexander, Volz, Andreas, Sasmaz, Gürsel, ...
Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected...
A gene expression map of human chromosome 21 orthologues in the mouse (2002)
Gitton, Yorick, Dahmane, Nadia, Baik, Sonya, I Altaba, Ariel Ruiz, Neidhardt, Lorenz, Scholze, Manuela, ...
The DNA sequence of human chromosome 21 (HSA21) has opened the route for a systematic molecular characterization of all of its genes. Trisomy 21 is associated with Down's syndrome, the most common...
Wierling, Christoph K., Steinfath, Matthias, Elge, Thorsten, Schulze-Kremer, Steffen, Aanstad, Pia, Clark, Matthew, ...
Background: Gene expression analyses based on complex hybridization measurements have increased rapidly in recent years and have given rise to a huge amount of bioinformatic tools such as image...
Herwig, Ralf, Schulz, Britta, Weisshaar, Bernd, Hennig, Steffen, Steinfath, Matthias, Drungowski, Mario, ...
Access to the complete gene inventory of an organism is crucial to understanding physiological processes like development, differentiation, pathogenesis, or adaptation to the environment. Transcripts...
DEFOG: A Practical Scheme for Deciphering Families of Genes (2002)
Fuchs, Tania, Malecova, Barbora, Linhart, Chaim, Sharan, Roded, Khen, Miriam, Herwig, Ralf, ...
We developed a novel efficient scheme, DEFOG (for "deciphering families of genes"), for determining sequences of numerous genes from a family of interest. The scheme provides a powerful means to...
Xdigitise: visualization of hybridization experiments (2002)
Wruck, Wasco, Griffiths, Huw, Steinfath, Matthias, Lehrach, Hans, Radelof, Uwe, O'Brien, John
Xdigitise is a software system for visualization of hybridization experiments giving the user facilities to analyze the corresponding images manually or automatically. Images of the high-density DNA...
Genetic analysis of the mouse brain proteome (2002)
Klose, Joachim, Nock, Christina, Herrmann, Marion, Stühler, Kai, Marcus, Katrin, Blüggel, Martin, ...
Proteome analysis is a fundamental step in systematic functional genomics. Here we have resolved 8,767 proteins from the mouse brain proteome by large-gel two-dimensional electrophoresis. We detected...
Protein Array Technology: The Tool to Bridge Genomics and Proteomics (2002)
Eickhoff, Holger, Konthur, Zoltán, Lueking, Angelika, Lehrach, Hans, Walter, Gerald, Nordhoff, Eckhard, ...
The generation of protein chips requires much more efforts than DNA microchips. While DNA is DNA and a variety of different DNA molecules behave stable in a hybridisation experiment, proteins are...
Hoehe, Margret R., Timmermann, Bernd, Lehrach, Hans
Wesentliche Ziele der modernen Genomforschung/ Pharmakogenomik sind die Identifikation von Krankheitsgenen, die Aufklärung der genetischen Variabilität von „Drug Targets“ und ihrer...
Datenanalyse von Biochips: Von der Sequenz zum System (2002)
Herwig, Ralf, Schuchhardt, Johannes, Eickhoff, Holger, Herzel, Hanspeter, Lehrach, Hans
Die Zunahme unserer Kenntnisse über die molekularen Mechanismen u.a. von Wachstums-, Entwicklungs- und Differenzierungsprozessen hat die Grundlagen der molekularen Medizin innerhalb weniger Jahre...
Oligonucleotide fingerprinting including differental cDNA library screning (2002)
Bauer, Oliver, Janitz, Michal, Guerasimova, Anna, Herwig, Ralf, Lehrach, Hans, Radelof, Uwe
This book combines the experience of 225 experts on 900 pages. Scientists worldwide are currently overwhelmed by the ever-increasing number and diversity of genome projects. This handbook is your...
Clustering gene expression profiles (2002)
This book combines the experience of 225 experts on 900 pages. Scientists worldwide are currently overwhelmed by the ever-increasing number and diversity of genome projects. This handbook is your...
Heiser, Volker, Engemann, Sabine, Bröcker, Wolfgang, Dunke, Ilona, Boeddrich, Annett, Waelter, Stephanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry (2002)
Olbrich, Heike, Häffner, Karsten, Kispert, Andreas, Völkel, Alexander, Volz, Andreas, Sasmaz, Gürsel, ...
Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected...
Construction and Analysis of a Human-Chimpanzee Comparative Clone Map (2002)
Fujiyama, Asao, Watanabe, Hidemi, Toyoda, Atsushi, Taylor, Todd D., Itoh, Takehiko, Tsai, Shih-Feng, ...
The recently released human genome sequences provide us with reference data to conduct comparative genomic research on primates, which will be important to understand what genetic information makes...
Heiser, Volker, Engernann, Sabine, Brocker, Wolfgang, Dunkel, Ilona, Boeddrich, Annett, Waelter, Stefanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Xdigitise: visualization of hybridization experiments (2002)
Wruck, Wasco, Griffiths, Huw, Steinfath, Matthias, Lehrach, Hans, Radelof, Uwe, O'Brien, John
Xdigitise is a software system for visualization of hybridization experiments giving the user facilities to analyze the corresponding images manually or automatically. Images of the high-density DNA...
Technology Development for DNA Chips (2001)
Eickhoff,Holger, Schneider,Ulrich, Nordhoff,Eckhard, Nyarsik,Lajos, Zehetner,Günther, Nietfeld,Wilfried, ...
Technology Development for DNA Chips (2001)
Eickhoff, Holger, Schneider, Ulrich, Nordhoff, Eckhard, Nyarsik, Lajos, Zehetner, Günther, Nietfeld, Wilfried, ...
Automated image analysis for array hybridization experiments (2001)
Steinfath, Matthias, Wruck, Wasco, Seidel, Henrik, Lehrach, Hans, Radelof, Uwe, OBrien, John
Motivation: Image analysis is a major part of data evaluation for array hybridization experiments in molecular biology. The program presented here is designed to analyze automatically images from...
Sudbrak, Ralf, Wieczorek, Georg, Nuber, Ulrike A., Mann, Wolfgang, Kirchner, Roland, Erdogan, Fikret, ...
Mutant alleles are frequently characterized by low expression levels. Therefore, cDNA array-based gene expression profiling may be a promising strategy for identifying gene defects underlying...
Waelter, Stephanie, Scherzinger, Eberhard, Hasenbank, Renate, Nordhoff, Eckhard, Lurz, Rudi, Goehler, Heike, ...
The huntingtin interacting protein (HIP1) is enriched in membrane-containing cell fractions and has been implicated in vesicle trafficking. It is a multidomain protein containing an N-terminal ENTH...
A Human cDNA Expression Library in Yeast Enriched for Open Reading Frames (2001)
Holz, Caterina, Lueking, Angelika, Bovekamp, Lara, Gutjahr, Claudia, Bolotina, Natalia, Lehrach, Hans, ...
Clark, Matthew D., Hennig, Steffen, Herwig, Ralf, Clifton, Sandy W., Marra, Marco A., Lehrach, Hans, ...
Advanced Integrated Mouse YAC Map Including BAC Framework (2001)
Schalkwyk, Leonard C., Cusack, Brian, Dunkel, Ilona, Hopp, Martina, Kramer, Markus, Palczewski, Stefanie, ...
A Human cDNA Expression Library in Yeast Enriched for Open Reading Frames (2001)
Holz, Caterina, Lueking, Angelika, Bovekamp, Lara, Gutjahr, Claudia, Bolotina, Natalia, Lehrach, Hans, ...
Clark, Matthew D., Hennig, Steffen, Herwig, Ralf, Clifton, Sandy W., Marra, Marco A., Lehrach, Hans, ...
Sittler, Annie, Lurz, Rudi, Lueder, Gerhild, Priller, Josef, Hayer-Hartl, Manajit K., Hartl, F. Ulrich, ...
Huntington’s disease (HD) is a progressive neurodegenerative disorder with no effective treatment. Geldanamycin is a benzoquinone ansamycin that binds to the heat shock protein Hsp90 and activates...
A Human cDNA Expression Library in Yeast Enriched for Open Reading Frames (2001)
Holz, Caterina, Lueking, Angelika, Bovekamp, Lara, Gutjahr, Claudia, Bolotina, Natalia, Lehrach, Hans, ...
Clark, Matthew D., Hennig, Steffen, Herwig, Ralf, Clifton, Sandy W., Marra, Marco A., Lehrach, Hans, ...
A sea urchin genome project: Sequence scan, virtual map, and additional resources (2000)
Cameron, R. Andrew, Mahairas, Gregory, Rast, Jonathan P., Martinez, Pedro, Biondi, Ted R., Swartzell, Steven, ...
Results of a first-stage Sea Urchin Genome Project are summarized here. The species chosen was Strongylocentrotus purpuratus, a research model of major importance in developmental and molecular...
An Algorithm for Clustering cDNA Fingerprints (2000)
Erez Hartuv Armin, Armin O. Schmitt, Jörg Lange, Sebastian Meier-ewert, Hans Lehrach, Ron Shamir
this paper have been presented at the Third International Conference on Computational Molecular Biology (RECOMB '99) (Hartuv et al., 1999)
A novel procedure for efficient genotyping of single nucleotide polymorphisms (2000)
Sauer, Sascha, Lechner, Doris, Berlin, Kurt, Lehrach, Hans, Escary, Jean-Louis, Fox, Nick, ...
Due to the surge in interest in using single nucleotide polymorphisms (SNPs) for genotyping a facile and affordable method for this is an absolute necessity. Here we introduce a procedure that...
Information theoretical probe selection for hybridisation experiments (2000)
Herwig, Ralf, Schmitt, Armin O., Steinfath, Matthias, OBrien, John, Seidel, Henrik, Meier-Ewert, Sebastian, ...
Motivation: The choice of probes is an important feature of hybridisation experiments. In this paper we present an algorithm that optimises probes with respect to a training set of sequences based on...
Tissue Gene Expression Analysis Using Arrayed Normalized cDNA Libraries (2000)
Eickhoff, Holger, Schuchhardt, Johannes, Ivanov, Igor, Meier-Ewert, Sebastian, O'Brien, John, Malik, Arif, ...
Hailey-Hailey disease is caused by mutations in ATP2C1 encoding a novel Ca2+ pump (2000)
Sudbrak, Ralf, Brown, Joanna, Dobson-Stone, Carol, Carter, Simon, Ramser, Juliane, White, Jacqueline, ...
Hailey–Hailey disease (HHD) is an autosomal dominant skin disorder characterized by suprabasal cell separation (acantholysis) of the epidermis. Previous genetic linkage studies localized the gene...
Full flexibility genotyping of single nucleotide polymorphisms by the GOOD assay (2000)
Sauer, Sascha, Lechner, Doris, Berlin, Kurt, Plançon, Christine, Heuermann, Arno, Lehrach, Hans, ...
Recently a facile method for genotyping single nucleotide polymorphisms (SNPs) using MALDI mass spectrometry, termed the GOOD assay, was developed. It does not require any purification and is...
Normalization strategies for cDNA microarrays (2000)
Schuchhardt, Johannes, Beule, Dieter, Malik, Arif, Wolski, Eryc, Eickhoff, Holger, Lehrach, Hans, ...
Multiple Arabidopsis thaliana clones from an experimental series of cDNA microarrays are evaluated in order to identify essential sources of noise in the spotting and hybridization process....
Rapid determination of short DNA sequences by the use of MALDI-MS (2000)
Nordhoff, Eckhard, Luebbert, Christine, Thiele, Gabriela, Heiser, Volker, Lehrach, Hans
We have developed a protocol for rapid sequencing of short DNA stretches (15–20 nt) using MALDI-TOF-MS. The protocol is based on the Sanger concept with the modification that double-stranded...
Interspersed repetitive sequence (IRS)-PCR for typing of whole genome radiation hybrid panels (2000)
Himmelbauer, Heinz, Schalkwyk, Leonard C., Lehrach, Hans
The typing of a radiation hybrid (RH) panel is generally achieved using a unique primer pair for each marker. We here describe a complementing approach utilizing IRS–PCR. Advantages of this...
An Algorithm for Clustering cDNAs for Gene Expression Analysis (1999)
Erez Hartuv, Armin Schmitt, Jörg Lange, Sebastian Meier-Ewert, Hans Lehrach, Ron Shamir
We have developed a novel algorithm for cluster analysis that is based on graph theoretic techniques. A similarity graph is defined and clusters in that graph correspond to highly connected...
The Mouse Aire Gene: Comparative Genomic Sequencing, Gene Organization, and Expression (1999)
Blechschmidt, Karin, Schweiger, Michal, Wertz, Karin, Poulson, Richard, Christensen, Hoang-My, Rosenthal, Andre, ...
Hildmann, Thomas, Kong, Xianging, O'Brien, John, Riesselman, Lisa, Christensen, Hoang-My, Dagand, Emilie, ...
Schalkwyk, Leonard C., Jung, Martin, Daser, Angelika, Weiher, Michael, Walter, Jörn, Himmelbauer, Heinz, ...
Large-Scale Clustering of cDNA-Fingerprinting Data (1999)
Herwig, Ralf, Poustka, Albert J., Müller, Christine, Bull, Christof, Lehrach, Hans, O'Brien, John
Estimation of distances and map construction using radiation hybrids. Genome Res (1998)
William Newell, Stephan Beck, Hans Lehrach, Andrew Lyall, Email Alerting, William Newell, ...
service
IXDB, an X chromosome integrated database (1998)
Ulf Leser, Robert Wagner, Andrei Grigoriev, Hans Lehrach, Hugues Roest Crollius
The integrated X chromosome database (IXDB) is a repository for physical mapping data of the human X chromosome. Its current content is the result of a strict integration of data stemming from many...
Estimation of Distances and Map Construction Using Radiation Hybrids (1998)
Newell, William, Beck, Stephan, Lehrach, Hans, Lyall, Andrew
Groet, Jürgen, Ives, Jane H., South, Andrew P., Baptista, Pedro R., Jones, Tania A., Yaspo, Marie-Laure, ...
an X chromosome integrated database (1997)
Ulf Leser, Robert Wagner, Andrei Grigoriev, Hans Lehrach
The integrated X chromosome database (IXDB) is a repository for physical mapping data of the human X chromosome. Its current content is the result of a strict integration of data stemming from many...
Francis, Fiona, Strom, Tim M., Hennig, Steffen, Böddrich, Annett, Lorenz, Bettina, Brandau, Oliver, ...
Scholler, Patrik, Karger, Achim E., Meier-Ewert, Sebastian, Lehrach, Hans, Delius, Hajo, Hoheisel, Jörg D.
To test the effectiveness of ordering shotgun DNA- templates prior to sequence analysis, the 450 kb left arm of yeast chromosome XII was randomly subcloned into a phagemid vector. Clones were ordered...
Yaspo, Marie-Laure, Gellen, Lisa, Mott, Richard, Korn, Bernhard, Nizetic, Dean, Poustka, AnneMarie, ...
The construction of a transcriptional map for human chromosome 21 requires the generation of a specific catalogue of genes, together with corresponding mapping information. Towards this goal, we...
A YAC clone map spanning 7.5 megabases of human chromosome band Xq28 (1994)
Rogner, Ute C., Kioschis, Petra, Wilke, Klaus, Gong, Wellong, Pick, Elke, Dietrich, Alexander, ...
Xq28 has been of special Interest in human genetics because a large number of diseases map to this region. As a step In the molecular analysis of the as yet uncloned disease genes, and as a test for...
Breen, Maria, Deakln, Lisa, Macdonald, Bernard, Miller, Steve, Sibson, Ross, Tarttelln, Emma, ...
982 progeny produced by a mouse Interspecific backcross between C57BL/6 and Mus spretus have been scored for at least 3 markers on each chromosome, completing an anchor map of 78 loci across the...
Hummerich, Holger, Baxendale, Sarah, Mott, Richard, F.Kirby, Susan, E.MacDonald, Marcy, Gusella, James, ...
The recent observation that the mutation underlying a number of genetic diseases including fragile sites, FRAXA and FRAXE (associated with mental retardation), myotonic dystrophy, spinal and bulbar...
A.Jones, Karen, M.Black, Donald, A.Brown, Melissa, L.Griffiths, Beatrice, M.Nicolai, Hans, A.Chambers, Julie, ...
We have produced a detailed physical and transcriptional map of a 400 kb region within the narrowest flanking markers known to contain the hereditary breast and ovarian susceptibility gene, BRCA1....
An integrated YAC-overlap and 'cosmid-pocket' map of the human chromosome 21 (1994)
Nizetic, Dean, Gellen, Lisa, Hamvas, Renata M. J., Mott, Richard, Grigorlev, Andrei, Vatcheva, Radost, ...
We describe here the construction of an ordered clone map of human chromosome 21, based on the identification of ordered sets of YAC clones covering >90% of the chromosome, and their use to...
Tommerup, Niels, Aagaard, Lissi, Lund, Connie L., Boel, Esper, Baxendale, Sarah, Bates, Gillian P., ...
Chromosomal aneusomy is a major cause of reproductive wastage and congenital malformations in man. Zinc finger encoding genes would be good candidates for being involved in the multiple developmental...
A method for the generation of YAC transgenic mice by pronuclear microinjection (1993)
Sched, Andreas, Larin, Zonia, Montoliu, Lluéis, Thies, Edda Thies, Kelsey, Gavin, Lehrach, Hans, ...
Yeast artificial chromosomes (YACs) represent the latest generation of vectors which have the great advantage of large insert size. The introduction of YACs into mammalian cells and organisms has...
Mott, Richard, Grigoriev, Andrei, Maier, Elmar, Hoheisel, Jorg, Lehrach, Hans
A complete set of software tools to aid the physical mapping of a genome has been developed and successfully applied to the genomlc mapping of the fission yeast Schlzosaccharomyces pombe. Two...
Knight, Jennifer C., Reeves, Brian R., Kearney, Lyndal, Monaco, Anthony P., Lehrach, Hans, Cooper, Colin S.
A high proportion of synovial sarcomas contain a chromosome translocation t(X;18)(p11.2;q11.2). We have previously used somatic cell hybrids derived from an established cell line, SS255, to map the X...
A novel G protein-coupled receptor kinase gene cloned from 4p16.3 (1992)
Ambrose, Christine, James, Marianne, Barnes, Glenn, Lin, Carol, Bates, Gillian, Altherr, Michael, ...
Within the Huntington's disease (HD) candidate region of 4pl6.3, the D4S127 locus displays strong linkage disequilibrium with the defect and anchors a conserved haplotype found on many HD...
A strategy for the selection of transcribed sequences in the Xq28 region (1992)
Korn, Bernhard, Sedlacek, Zdenek, Manca, Antonella, Kioschis, Petra, Konecki, David, Lehrach, Hans, ...
As an essential step towards an exhaustive analysis of the coding potential of large regions of the genome, we have developed a protocol allowing the rapid isolation of transcripts defmed by...
Molecular cloning and analysis of the fragile X region in man (1991)
Dietrich, Alexander, Kioschis, Petra, Monaco, Anthony P., Gross, Baerbel, Korn, Bernhard, Williams, Sarah V., ...
The fragile X syndrome (FraX), the most common Inherited form of mental retardation, has been located to Xq27.3. As a step In the molecular analysis of this mutation, we have cloned a contiguous 1.8...
W (A or T) sequences as probes and primers suitable for genomic mapping and fingerprinting (1991)
Drmanac, Radoje, Nizetic, Dean, Lennon, Gregory G., Beitverda, Anita, Lehrach, Hans
A limitation to the use of oligonucleotide probes as tools for genetic and physical mapping has been the low hybridization positive frequency obtained by oligonucleotides of sufficient length to...
Patel, Ketan, Cox, Roger, Shipley, Janet, Kiely, Fiona, Frazer, Kelly, Cox, David R., ...
We describe a simple PCR based technique which can be used to isolate sequences adjacent to rare cutter sites and can subsequently be employed for the construction of long range physical maps. The...
Monaco, Anthony P., Lam, Veronica M.S., Zehetner, Günther, Lennon, Gregory G., Douglas, Christal, Nizetic, Dean, ...
A direct hybridization protocol is described for screening cosmid and yeast artificial chromosome libraries with pools of Alu-PCR products from somatic cell or irradiation hybrids. This method...
Control of partial digestion combining the enzymes dam methylase and MboI (1989)
Hoheisel, Jörg D., Nizetic, Dean, Lehrach, Hans
A method is described which allows the preparation of reproducible partial digests without previous establishment of the incubation conditions. It is based on a combined application of dam methylase...
Labelling oligonucleotides to high specific activity (I) (1989)
Craig, Alister G., Nizetic, Dean, Lehrach, Hans
The normal procedure for labelling oligonucleotides radioactively is the use of polynucleotide kinase and γ32P–ATP. However, this has the disadvantage of only introducing one labelled base per...
Whaley, William L., Michiels, Frank, MacDonald, Marcy E., Romano, Donna, Zimmer, Michael, Smith, Barbara, ...
The dominant gene defect in Huntington's disease (HD) is linked to the DNA marker D4S10, near the telomere of the chromosome 4 short arm. Two other markers, D4S43 and D4S95, are closer, but still...
Rappold, Gudrun A., Lehrach, Hans
The analysis of partial digestion products extending from the telomere of the human X and Y chromosomes, visualised by hybridisation to a probe located close to the telomere, was used to establish a...
A computer program package for restriction map analysis and manipulation (1986)
Zehetner, Guenther, Lehrach, Hans
Programs for the calculation, storage and analysis of restriction maps derived from the analysis of partial digestion products from end labelled DNA (1,2,3) and their correlation with digestion-and...
Lukens, Lewis N., Frischauf, Anna Maria, Pawlowski, Philip J., Brierley, George T., Lehrach, Hans
The mRNA for type II collagen was purified from embryonic chick sternum or from purified sternal chondrocytes with guanidine thiocyanate as the extractant. Double-stranded cDNAs to procollagen mRNAs...
Garoff, Henrik, Riedel, Heimo, Lehrach, Hans
We describe a peptide sequencing procedure which can be used to verify an amino acid sequence which is derived from a nucleotide sequence. One first labels the protein with a 3H- and a 14C-labelled...
Braunschweig, Techn. Univ., Naturwiss. Fak., Diss. 1974.
Scherzinger, Eberhard, Sittler, Annie, Schweiger, Katja, Heiser, Volker, Lurz, Rudi, Hasenbank, Renate, ...
Huntington’s disease is a progressive neurodegenerative disorder caused by a polyglutamine [poly(Q)] repeat expansion in the first exon of the huntingtin protein. Previously, we showed that...
A sea urchin genome project: Sequence scan, virtual map, and additional resources
Cameron, R. Andrew, Mahairas, Gregory, Rast, Jonathan P., Martinez, Pedro, Biondi, Ted R., Swartzell, Steven, ...
Results of a first-stage Sea Urchin Genome Project are summarized here. The species chosen was Strongylocentrotus purpuratus, a research model of major importance in developmental and molecular...
Heiser, Volker, Scherzinger, Eberhard, Boeddrich, Annett, Nordhoff, Eckhard, Lurz, Rudi, Schugardt, Nancy, ...
The accumulation of insoluble protein aggregates in intra and perinuclear inclusions is a hallmark of Huntington's disease (HD) and related glutamine-repeat disorders. A central question is whether...
Huntingtin aggregation monitored by dynamic light scattering
Georgalis, Yannis, Starikov, E. B., Hollenbach, Birgit, Lurz, Rudi, Scherzinger, Eberhard, Saenger, Wolfram, ...
An initial stage of fibrillogenesis in solutions of glutathione S-transferase-huntingtin (GST-HD) fusion proteins has been studied by using dynamic light scattering. Two GST-HD systems with...
Waelter, Stephanie, Boeddrich, Annett, Lurz, Rudi, Scherzinger, Eberhard, Lueder, Gerhild, Lehrach, Hans, ...
The huntingtin exon 1 proteins with a polyglutamine repeat in the pathological range (51 or 83 glutamines), but not with a polyglutamine tract in the normal range (20 glutamines), form aggresome-like...
UniGene cDNA array-based monitoring of transcriptome changes during mouse placental development
Hemberger, Myriam, Cross, James C., Ropers, Hans-Hilger, Lehrach, Hans, Fundele, Reinald, Himmelbauer, Heinz
The placenta is a highly specialized organ essential for embryonic growth and development. Here, we have applied cDNA subtraction between extraembryonic tissues of early- (day 7.5 of gestation) and...
Statistical evaluation of differential expression on cDNA nylon arrays with replicated experiments
Herwig, Ralf, Aanstad, Pia, Clark, Matthew, Lehrach, Hans
In this paper we focus on the detection of differentially expressed genes according to changes in hybridization signals using statistical tests. These tests were applied to 14 208 zebrafish cDNA...
Interspersed repetitive sequence (IRS)–PCR for typing of whole genome radiation hybrid panels
Himmelbauer, Heinz, Schalkwyk, Leonard C., Lehrach, Hans
The typing of a radiation hybrid (RH) panel is generally achieved using a unique primer pair for each marker. We here describe a complementing approach utilizing IRS–PCR. Advantages of this...
A novel procedure for efficient genotyping of single nucleotide polymorphisms
Sauer, Sascha, Lechner, Doris, Berlin, Kurt, Lehrach, Hans, Escary, Jean-Louis, Fox, Nick, ...
Due to the surge in interest in using single nucleotide polymorphisms (SNPs) for genotyping a facile and affordable method for this is an absolute necessity. Here we introduce a procedure that...
Normalization strategies for cDNA microarrays
Schuchhardt, Johannes, Beule, Dieter, Malik, Arif, Wolski, Eryc, Eickhoff, Holger, Lehrach, Hans, ...
Multiple Arabidopsis thaliana clones from an experimental series of cDNA microarrays are evaluated in order to identify essential sources of noise in the spotting and hybridization process....
Rapid determination of short DNA sequences by the use of MALDI-MS
Nordhoff, Eckhard, Luebbert, Christine, Thiele, Gabriela, Heiser, Volker, Lehrach, Hans
We have developed a protocol for rapid sequencing of short DNA stretches (15–20 nt) using MALDI-TOF-MS. The protocol is based on the Sanger concept with the modification that double-stranded...
Full flexibility genotyping of single nucleotide polymorphisms by the GOOD assay
Sauer, Sascha, Lechner, Doris, Berlin, Kurt, Plançon, Christine, Heuermann, Arno, Lehrach, Hans, ...
Recently a facile method for genotyping single nucleotide polymorphisms (SNPs) using MALDI mass spectrometry, termed the GOOD assay, was developed. It does not require any purification and is...
Hüttenhofer, Alexander, Kiefmann, Martin, Meier-Ewert, Sebastian, O’Brien, John, Lehrach, Hans, Bachellerie, Jean-Pierre, ...
In mouse brain cDNA libraries generated from small RNA molecules we have identified a total of 201 different expressed RNA sequences potentially encoding novel small non-messenger RNA species...
Wierling, Christoph K, Steinfath, Matthias, Elge, Thorsten, Schulze-Kremer, Steffen, Aanstad, Pia, Clark, Matthew, ...
Heiser, Volker, Engemann, Sabine, Bröcker, Wolfgang, Dunkel, Ilona, Boeddrich, Annett, Waelter, Stephanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Sauer, Sascha, Lehrach, Hans, Reinhardt, Richard
High-throughput procedures are an important requirement for future large-scale genetic studies such as genotyping of single nucleotide polymorphisms (SNPs). Matrix-assisted laser desorption/...
Automated Gene Ontology annotation for anonymous sequence data
Hennig, Steffen, Groth, Detlef, Lehrach, Hans
Gene Ontology (GO) is the most widely accepted attempt to construct a unified and structured vocabulary for the description of genes and their products in any organism. Annotation by GO terms is...
Groet, Jürgen, Ives, Jane H., South, Andrew P., Baptista, Pedro R., Jones, Tania A., Yaspo, Marie-Laure, ...
We present a high-resolution bacterial contig map of 3.4 Mb of genomic DNA in human chromosome 21q11–q21, encompassing the region of elevated disomic homozygosity in Down Syndrome-associated...
The Mouse Aire Gene: Comparative Genomic Sequencing, Gene Organization, and Expression
Blechschmidt, Karin, Schweiger, Michal, Wertz, Karin, Poulson, Richard, Christensen, Hoang-My, Rosenthal, Andre, ...
Mutations in the human AIRE gene (hAIRE) result in the development of an autoimmune disease named APECED (autoimmune polyendocrinopathy candidiasis ectodermal dystrophy; OMIM 240300). Previously, we...
Hildmann, Thomas, Kong, Xianging, O’Brien, John, Riesselman, Lisa, Christensen, Hoang-My, Dagand, Emilie, ...
Progress in complete genomic sequencing of human chromosome 21 relies on the construction of high-quality bacterial clone maps spanning large chromosomal regions. To achieve this goal, we have...
Schalkwyk, Leonard C., Jung, Martin, Daser, Angelika, Weiher, Michael, Walter, Jörn, Himmelbauer, Heinz, ...
To facilitate whole-genome scan experiments, we selected a panel of 128 microsatellite markers on the basis of spacing and polymorphism in the strains DBA/2, BALB/c, AKR, C57BL/6, C57BL/10, A/J, C3H,...
Large-Scale Clustering of cDNA-Fingerprinting Data
Herwig, Ralf, Poustka, Albert J., Müller, Christine, Bull, Christof, Lehrach, Hans, O'Brien, John
Clustering is one of the main mathematical challenges in large-scale gene expression analysis. We describe a clustering procedure based on a sequential k-means algorithm with additional refinements...
Tissue Gene Expression Analysis Using Arrayed Normalized cDNA Libraries
Eickhoff, Holger, Schuchhardt, Johannes, Ivanov, Igor, Meier-Ewert, Sebastian, O'Brien, John, Malik, Arif, ...
We have used oligonucleotide-fingerprinting data on 60,000 cDNA clones from two different mouse embryonic stages to establish a normalized cDNA clone set. The normalized set of 5,376 clones...
Clark, Matthew D., Hennig, Steffen, Herwig, Ralf, Clifton, Sandy W., Marra, Marco A., Lehrach, Hans, ...
The zebrafish is a powerful system for understanding the vertebrate genome, allowing the combination of genetic, molecular, and embryological analysis. Expressed sequence tags (ESTs) provide a rapid...
A Human cDNA Expression Library in Yeast Enriched for Open Reading Frames
Holz, Caterina, Lueking, Angelika, Bovekamp, Lara, Gutjahr, Claudia, Bolotina, Natalia, Lehrach, Hans, ...
We developed a high-throughput technique for the generation of cDNA libraries in the yeast Saccharomyces cerevisiae which enables the selection of cloned cDNA inserts containing open reading frames...
Advanced Integrated Mouse YAC Map Including BAC Framework
Schalkwyk, Leonard C., Cusack, Brian, Dunkel, Ilona, Hopp, Martina, Kramer, Markus, Palczewski, Stefanie, ...
Functional characterization of the mouse genome requires the availability of a comprehensive physical map to obtain molecular access to chromosomal regions of interest. Positional cloning remains a...
The Genomic Sequence and Comparative Analysis of the Rat Major Histocompatibility Complex
Hurt, Peter, Walter, Lutz, Sudbrak, Ralf, Klages, Sven, Müller, Ines, Shiina, Takashi, ...
We have determined the sequence of a 4-Mb interval on rat chromosome 20p12 that encompasses the rat major histocompatibility complex (MHC). This is the first report of a finished sequence for a...
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome
Krzywinski, Martin, Wallis, John, Gösele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Panopoulou, Georgia, Hennig, Steffen, Groth, Detlef, Krause, Antje, Poustka, Albert J., Herwig, Ralf, ...
The 2R hypothesis predicting two genome duplications at the origin of vertebrates is highly controversial. Studies published so far include limited sequence data from organisms close to the...
Clone-Based Systematic Haplotyping (CSH): A Procedure for Physical Haplotyping of Whole Genomes
Burgtorf, Carola, Kepper, Pamela, Hoehe, Margret, Schmitt, Carsten, Reinhardt, Richard, Lehrach, Hans, ...
We present a novel methodology to determine the phase of single-nucleotide polymorphisms (SNPs) on a chromosome, which we term clone-based systematic haplotyping (CSH). The CSH procedure is based on...
Poustka, Albert J., Groth, Detlef, Hennig, Steffen, Thamm, Sabine, Cameron, Andrew, Beck, Alfred, ...
Together with the hemichordates, sea urchins represent basal groups of nonchordate invertebrate deuterostomes that occupy a key position in bilaterian evolution. Because sea urchin embryos are also...
A European focus on proteomics
Spahn, Christian MT, Lehrach, Hans, Jungblut, Peter R
A report on the First International Symposium of the Austrian Proteomics Platform, Seefeld, Austria, 26-29 January 2004.
GOblet: a platform for Gene Ontology annotation of anonymous sequence data
Groth, Detlef, Lehrach, Hans, Hennig, Steffen
GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines,...
Kahlem, Pascal, Sultan, Marc, Herwig, Ralf, Steinfath, Matthias, Balzereit, Daniela, Eppens, Barbara, ...
Human trisomy 21, which results in Down syndrome (DS), is one of the most complicated congenital genetic anomalies compatible with life, yet little is known about the molecular basis of DS. It is...
A catalog of human cDNA expression clones and its application to structural genomics
Büssow, Konrad, Quedenau, Claudia, Sievert, Volker, Tischer, Janett, Scheich, Christoph, Seitz, Harald, ...
A systematic approach for identifying human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli is described.
Hilson, Pierre, Allemeersch, Joke, Altmann, Thomas, Aubourg, Sébastien, Avon, Alexandra, Beynon, Jim, ...
Microarray transcript profiling and RNA interference are two new technologies crucial for large-scale gene function studies in multicellular eukaryotes. Both rely on sequence-specific hybridization...
d-matrix – database exploration, visualization and analysis
Seelow, Dominik, Galli, Raffaello, Mebus, Siegrun, Sperling, Hans-Peter, Lehrach, Hans, Sperling, Silke
Cross-species hybridisation of human and bovine orthologous genes on high density cDNA microarrays
Adjaye, James, Herwig, Ralf, Herrmann, Doris, Wruck, Wasco, BenKahla, Alia, Brink, Thore C, ...
Dissection of the Inflammatory Bowel Disease Transcriptome Using Genome-Wide cDNA Microarrays
Costello, Christine M, Mah, Nancy, Häsler, Robert, Rosenstiel, Philip, Waetzig, Georg H, Hahn, Andreas, ...
cDNA analysis of colonic samples from patients with Crohn disease and ulcerative colitis suggests substantial differences in pathophysiology between the two diseases.
Büssow, Konrad, Scheich, Christoph, Sievert, Volker, Harttig, Ulrich, Schultz, Jörg, Simon, Bernd, ...
Wolski, Witold E, Lalowski, Maciej, Martus, Peter, Herwig, Ralf, Giavalisco, Patrick, Gobom, Johan, ...
Hu, Yu-Hui, Warnatz, Hans-Jörg, Vanhecke, Dominique, Wagner, Florian, Fiebitz, Andrea, Thamm, Sabine, ...
Analytical model of peptide mass cluster centres with applications
Wolski, Witold E, Farrow, Malcolm, Emde, Anne-Katrin, Lehrach, Hans, Lalowski, Maciej, Reinert, Knut
Scherzinger, Eberhard, Sittler, Annie, Schweiger, Katja, Heiser, Volker, Lurz, Rudi, Hasenbank, Renate, ...
Huntington’s disease is a progressive neurodegenerative disorder caused by a polyglutamine [poly(Q)] repeat expansion in the first exon of the huntingtin protein. Previously, we showed that...
A sea urchin genome project: Sequence scan, virtual map, and additional resources
Cameron, R. Andrew, Mahairas, Gregory, Rast, Jonathan P., Martinez, Pedro, Biondi, Ted R., Swartzell, Steven, ...
Results of a first-stage Sea Urchin Genome Project are summarized here. The species chosen was Strongylocentrotus purpuratus, a research model of major importance in developmental and molecular...
Heiser, Volker, Scherzinger, Eberhard, Boeddrich, Annett, Nordhoff, Eckhard, Lurz, Rudi, Schugardt, Nancy, ...
The accumulation of insoluble protein aggregates in intra and perinuclear inclusions is a hallmark of Huntington's disease (HD) and related glutamine-repeat disorders. A central question is whether...
Huntingtin aggregation monitored by dynamic light scattering
Georgalis, Yannis, Starikov, E. B., Hollenbach, Birgit, Lurz, Rudi, Scherzinger, Eberhard, Saenger, Wolfram, ...
An initial stage of fibrillogenesis in solutions of glutathione S-transferase-huntingtin (GST-HD) fusion proteins has been studied by using dynamic light scattering. Two GST-HD systems with...
Waelter, Stephanie, Boeddrich, Annett, Lurz, Rudi, Scherzinger, Eberhard, Lueder, Gerhild, Lehrach, Hans, ...
The huntingtin exon 1 proteins with a polyglutamine repeat in the pathological range (51 or 83 glutamines), but not with a polyglutamine tract in the normal range (20 glutamines), form aggresome-like...
UniGene cDNA array-based monitoring of transcriptome changes during mouse placental development
Hemberger, Myriam, Cross, James C., Ropers, Hans-Hilger, Lehrach, Hans, Fundele, Reinald, Himmelbauer, Heinz
The placenta is a highly specialized organ essential for embryonic growth and development. Here, we have applied cDNA subtraction between extraembryonic tissues of early- (day 7.5 of gestation) and...
Statistical evaluation of differential expression on cDNA nylon arrays with replicated experiments
Herwig, Ralf, Aanstad, Pia, Clark, Matthew, Lehrach, Hans
In this paper we focus on the detection of differentially expressed genes according to changes in hybridization signals using statistical tests. These tests were applied to 14 208 zebrafish cDNA...
Interspersed repetitive sequence (IRS)–PCR for typing of whole genome radiation hybrid panels
Himmelbauer, Heinz, Schalkwyk, Leonard C., Lehrach, Hans
The typing of a radiation hybrid (RH) panel is generally achieved using a unique primer pair for each marker. We here describe a complementing approach utilizing IRS–PCR. Advantages of this...
A novel procedure for efficient genotyping of single nucleotide polymorphisms
Sauer, Sascha, Lechner, Doris, Berlin, Kurt, Lehrach, Hans, Escary, Jean-Louis, Fox, Nick, ...
Due to the surge in interest in using single nucleotide polymorphisms (SNPs) for genotyping a facile and affordable method for this is an absolute necessity. Here we introduce a procedure that...
Normalization strategies for cDNA microarrays
Schuchhardt, Johannes, Beule, Dieter, Malik, Arif, Wolski, Eryc, Eickhoff, Holger, Lehrach, Hans, ...
Multiple Arabidopsis thaliana clones from an experimental series of cDNA microarrays are evaluated in order to identify essential sources of noise in the spotting and hybridization process....
Rapid determination of short DNA sequences by the use of MALDI-MS
Nordhoff, Eckhard, Luebbert, Christine, Thiele, Gabriela, Heiser, Volker, Lehrach, Hans
We have developed a protocol for rapid sequencing of short DNA stretches (15–20 nt) using MALDI-TOF-MS. The protocol is based on the Sanger concept with the modification that double-stranded...
Full flexibility genotyping of single nucleotide polymorphisms by the GOOD assay
Sauer, Sascha, Lechner, Doris, Berlin, Kurt, Plançon, Christine, Heuermann, Arno, Lehrach, Hans, ...
Recently a facile method for genotyping single nucleotide polymorphisms (SNPs) using MALDI mass spectrometry, termed the GOOD assay, was developed. It does not require any purification and is...
Hüttenhofer, Alexander, Kiefmann, Martin, Meier-Ewert, Sebastian, O’Brien, John, Lehrach, Hans, Bachellerie, Jean-Pierre, ...
In mouse brain cDNA libraries generated from small RNA molecules we have identified a total of 201 different expressed RNA sequences potentially encoding novel small non-messenger RNA species...
Wierling, Christoph K, Steinfath, Matthias, Elge, Thorsten, Schulze-Kremer, Steffen, Aanstad, Pia, Clark, Matthew, ...
Heiser, Volker, Engemann, Sabine, Bröcker, Wolfgang, Dunkel, Ilona, Boeddrich, Annett, Waelter, Stephanie, ...
Preventing the formation of insoluble polyglutamine containing protein aggregates in neurons may represent an attractive therapeutic strategy to ameliorate Huntington's disease (HD). Therefore, the...
Sauer, Sascha, Lehrach, Hans, Reinhardt, Richard
High-throughput procedures are an important requirement for future large-scale genetic studies such as genotyping of single nucleotide polymorphisms (SNPs). Matrix-assisted laser desorption/...
Automated Gene Ontology annotation for anonymous sequence data
Hennig, Steffen, Groth, Detlef, Lehrach, Hans
Gene Ontology (GO) is the most widely accepted attempt to construct a unified and structured vocabulary for the description of genes and their products in any organism. Annotation by GO terms is...
Groet, Jürgen, Ives, Jane H., South, Andrew P., Baptista, Pedro R., Jones, Tania A., Yaspo, Marie-Laure, ...
We present a high-resolution bacterial contig map of 3.4 Mb of genomic DNA in human chromosome 21q11–q21, encompassing the region of elevated disomic homozygosity in Down Syndrome-associated...
The Mouse Aire Gene: Comparative Genomic Sequencing, Gene Organization, and Expression
Blechschmidt, Karin, Schweiger, Michal, Wertz, Karin, Poulson, Richard, Christensen, Hoang-My, Rosenthal, Andre, ...
Mutations in the human AIRE gene (hAIRE) result in the development of an autoimmune disease named APECED (autoimmune polyendocrinopathy candidiasis ectodermal dystrophy; OMIM 240300). Previously, we...
Hildmann, Thomas, Kong, Xianging, O’Brien, John, Riesselman, Lisa, Christensen, Hoang-My, Dagand, Emilie, ...
Progress in complete genomic sequencing of human chromosome 21 relies on the construction of high-quality bacterial clone maps spanning large chromosomal regions. To achieve this goal, we have...
Schalkwyk, Leonard C., Jung, Martin, Daser, Angelika, Weiher, Michael, Walter, Jörn, Himmelbauer, Heinz, ...
To facilitate whole-genome scan experiments, we selected a panel of 128 microsatellite markers on the basis of spacing and polymorphism in the strains DBA/2, BALB/c, AKR, C57BL/6, C57BL/10, A/J, C3H,...
Large-Scale Clustering of cDNA-Fingerprinting Data
Herwig, Ralf, Poustka, Albert J., Müller, Christine, Bull, Christof, Lehrach, Hans, O'Brien, John
Clustering is one of the main mathematical challenges in large-scale gene expression analysis. We describe a clustering procedure based on a sequential k-means algorithm with additional refinements...
Tissue Gene Expression Analysis Using Arrayed Normalized cDNA Libraries
Eickhoff, Holger, Schuchhardt, Johannes, Ivanov, Igor, Meier-Ewert, Sebastian, O'Brien, John, Malik, Arif, ...
We have used oligonucleotide-fingerprinting data on 60,000 cDNA clones from two different mouse embryonic stages to establish a normalized cDNA clone set. The normalized set of 5,376 clones...
Clark, Matthew D., Hennig, Steffen, Herwig, Ralf, Clifton, Sandy W., Marra, Marco A., Lehrach, Hans, ...
The zebrafish is a powerful system for understanding the vertebrate genome, allowing the combination of genetic, molecular, and embryological analysis. Expressed sequence tags (ESTs) provide a rapid...
A Human cDNA Expression Library in Yeast Enriched for Open Reading Frames
Holz, Caterina, Lueking, Angelika, Bovekamp, Lara, Gutjahr, Claudia, Bolotina, Natalia, Lehrach, Hans, ...
We developed a high-throughput technique for the generation of cDNA libraries in the yeast Saccharomyces cerevisiae which enables the selection of cloned cDNA inserts containing open reading frames...
Advanced Integrated Mouse YAC Map Including BAC Framework
Schalkwyk, Leonard C., Cusack, Brian, Dunkel, Ilona, Hopp, Martina, Kramer, Markus, Palczewski, Stefanie, ...
Functional characterization of the mouse genome requires the availability of a comprehensive physical map to obtain molecular access to chromosomal regions of interest. Positional cloning remains a...
The Genomic Sequence and Comparative Analysis of the Rat Major Histocompatibility Complex
Hurt, Peter, Walter, Lutz, Sudbrak, Ralf, Klages, Sven, Müller, Ines, Shiina, Takashi, ...
We have determined the sequence of a 4-Mb interval on rat chromosome 20p12 that encompasses the rat major histocompatibility complex (MHC). This is the first report of a finished sequence for a...
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome
Krzywinski, Martin, Wallis, John, Gösele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Panopoulou, Georgia, Hennig, Steffen, Groth, Detlef, Krause, Antje, Poustka, Albert J., Herwig, Ralf, ...
The 2R hypothesis predicting two genome duplications at the origin of vertebrates is highly controversial. Studies published so far include limited sequence data from organisms close to the...
Clone-Based Systematic Haplotyping (CSH): A Procedure for Physical Haplotyping of Whole Genomes
Burgtorf, Carola, Kepper, Pamela, Hoehe, Margret, Schmitt, Carsten, Reinhardt, Richard, Lehrach, Hans, ...
We present a novel methodology to determine the phase of single-nucleotide polymorphisms (SNPs) on a chromosome, which we term clone-based systematic haplotyping (CSH). The CSH procedure is based on...
Poustka, Albert J., Groth, Detlef, Hennig, Steffen, Thamm, Sabine, Cameron, Andrew, Beck, Alfred, ...
Together with the hemichordates, sea urchins represent basal groups of nonchordate invertebrate deuterostomes that occupy a key position in bilaterian evolution. Because sea urchin embryos are also...
A European focus on proteomics
Spahn, Christian MT, Lehrach, Hans, Jungblut, Peter R
A report on the First International Symposium of the Austrian Proteomics Platform, Seefeld, Austria, 26-29 January 2004.
GOblet: a platform for Gene Ontology annotation of anonymous sequence data
Groth, Detlef, Lehrach, Hans, Hennig, Steffen
GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines,...
Kahlem, Pascal, Sultan, Marc, Herwig, Ralf, Steinfath, Matthias, Balzereit, Daniela, Eppens, Barbara, ...
Human trisomy 21, which results in Down syndrome (DS), is one of the most complicated congenital genetic anomalies compatible with life, yet little is known about the molecular basis of DS. It is...
A catalog of human cDNA expression clones and its application to structural genomics
Büssow, Konrad, Quedenau, Claudia, Sievert, Volker, Tischer, Janett, Scheich, Christoph, Seitz, Harald, ...
A systematic approach for identifying human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli is described.
Hilson, Pierre, Allemeersch, Joke, Altmann, Thomas, Aubourg, Sébastien, Avon, Alexandra, Beynon, Jim, ...
Microarray transcript profiling and RNA interference are two new technologies crucial for large-scale gene function studies in multicellular eukaryotes. Both rely on sequence-specific hybridization...
d-matrix – database exploration, visualization and analysis
Seelow, Dominik, Galli, Raffaello, Mebus, Siegrun, Sperling, Hans-Peter, Lehrach, Hans, Sperling, Silke
Cross-species hybridisation of human and bovine orthologous genes on high density cDNA microarrays
Adjaye, James, Herwig, Ralf, Herrmann, Doris, Wruck, Wasco, BenKahla, Alia, Brink, Thore C, ...
Dissection of the Inflammatory Bowel Disease Transcriptome Using Genome-Wide cDNA Microarrays
Costello, Christine M, Mah, Nancy, Häsler, Robert, Rosenstiel, Philip, Waetzig, Georg H, Hahn, Andreas, ...
cDNA analysis of colonic samples from patients with Crohn disease and ulcerative colitis suggests substantial differences in pathophysiology between the two diseases.
Büssow, Konrad, Scheich, Christoph, Sievert, Volker, Harttig, Ulrich, Schultz, Jörg, Simon, Bernd, ...
Wolski, Witold E, Lalowski, Maciej, Martus, Peter, Herwig, Ralf, Giavalisco, Patrick, Gobom, Johan, ...
Hu, Yu-Hui, Warnatz, Hans-Jörg, Vanhecke, Dominique, Wagner, Florian, Fiebitz, Andrea, Thamm, Sabine, ...
Analytical model of peptide mass cluster centres with applications
Wolski, Witold E, Farrow, Malcolm, Emde, Anne-Katrin, Lehrach, Hans, Lalowski, Maciej, Reinert, Knut
Ralser, Markus, Heeren, Gino, Breitenbach, Michael, Lehrach, Hans, Krobitsch, Sylvia
Triosephosphate isomerase (TPI) deficiency is an autosomal recessive disorder caused by various mutations in the gene encoding the key glycolytic enzyme TPI. A drastic decrease in TPI activity and an...
Nonhoff, Ute, Ralser, Markus, Welzel, Franziska, Piccini, Ilaria, Balzereit, Daniela, Yaspo, Marie-Laure, ...
Tight control of translation is fundamental for eukaryotic cells, and deregulation of proteins implicated contributes to numerous human diseases. The neurodegenerative disorder spinocerebellar ataxia...
Poustka, Albert J, Kühn, Alexander, Groth, Detlef, Weise, Vesna, Yaguchi, Shunsuke, Burke, Robert D, ...
Novel territory-specific markers from the sea urchin Strongylocentrotus purpuratus have been identified using screens for genes that are differentially expressed in lithium-treated embryos, which...
Gene expression variation in Down's syndrome mice allows prioritization of candidate genes
Sultan, Marc, Piccini, Ilaria, Balzereit, Daniela, Herwig, Ralf, Saran, Nidhi G, Lehrach, Hans, ...
RNA from eight Ts65Dn mice (a model of Down syndrome) and eight euploid mice were analysed by real-time PCR to examine inter-individual gene expression levels as a function of trisomy.
Gerisch, Birgit, Rottiers, Veerle, Li, Dongling, Motola, Daniel L., Cummins, Carolyn L., Lehrach, Hans, ...
Broad aspects of Caenorhabditis elegans life history, including larval developmental timing, arrest at the dauer diapause, and longevity, are regulated by the nuclear receptor DAF-12. Endogenous...
Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress
Ralser, Markus, Wamelink, Mirjam M, Kowald, Axel, Gerisch, Birgit, Heeren, Gino, Struys, Eduard A, ...
Ralser, Markus, Nebel, Almut, Kleindorp, Rabea, Krobitsch, Sylvia, Lehrach, Hans, Schreiber, Stefan, ...
Lange, Martin, Kaynak, Bogac, Forster, Ulrike B., Tönjes, Martje, Fischer, Jenny J., Grimm, Christina, ...
Chromatin remodeling and histone modifications facilitate access of transcription factors to DNA by promoting the unwinding and destabilization of histone–DNA interactions. We present DPF3, a new...
Early vertebrate whole genome duplications were predated by a period of intense genome rearrangement
Hufton, Andrew L., Groth, Detlef, Vingron, Martin, Lehrach, Hans, Poustka, Albert J., Panopoulou, Georgia
Researchers, supported by data from polyploid plants, have suggested that whole genome duplication (WGD) may induce genomic instability and rearrangement, an idea which could have important...
Ralser, Markus, Zeidler, Ute, Lehrach, Hans
Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is a key metabolic regulator implicated in a variety of cellular processes. It functions as a glycolytic enzyme, a protein kinase, and a metabolic...
Baek, Young-Sook, Haas, Stefan, Hackstein, Holger, Bein, Gregor, Hernandez-Santana, Maria, Lehrach, Hans, ...
A catabolic block does not sufficiently explain how 2-deoxy-d-glucose inhibits cell growth
Ralser, Markus, Wamelink, Mirjam M., Struys, Eduard A., Joppich, Christian, Krobitsch, Sylvia, Jakobs, Cornelis, ...
The glucose analogue 2-deoxy-d-glucose (2-DG) restrains growth of normal and malignant cells, prolongs the lifespan of C. elegans, and is widely used as a glycolytic inhibitor to study metabolic...
Schweiger, Michal R., Kerick, Martin, Timmermann, Bernd, Albrecht, Marcus W., Borodina, Tatjana, Parkhomchuk, Dmitri, ...
ConsensusPathDB—a database for integrating human functional interaction networks
Kamburov, Atanas, Wierling, Christoph, Lehrach, Hans, Herwig, Ralf
ConsensusPathDB is a database system for the integration of human functional interactions. Current knowledge of these interactions is dispersed in more than 200 databases, each having a specific...
GeNGe: systematic generation of gene regulatory networks
Hache, Hendrik, Wierling, Christoph, Lehrach, Hans, Herwig, Ralf
Summary: The analysis of gene regulatory networks (GRNs) is a central goal of bioinformatics highly accelerated by the advent of new experimental techniques, such as RNA interference. A battery of...
Reverse Engineering of Gene Regulatory Networks: A Comparative Study
Hache, Hendrik, Lehrach, Hans, Herwig, Ralf
Reverse engineering of gene regulatory networks has been an intensively studied topic in bioinformatics since it constitutes an intermediate step from explorative to causative gene expression...
Brink, Thore C., Demetrius, Lloyd, Lehrach, Hans, Adjaye, James
Individual differences in the rate of aging are determined by the efficiency with which an organism transforms resources into metabolic energy thus maintaining the homeostatic condition of its cells...
Monte Carlo analysis of an ODE Model of the Sea Urchin Endomesoderm Network
Kühn, Clemens, Wierling, Christoph, Kühn, Alexander, Klipp, Edda, Panopoulou, Georgia, Lehrach, Hans, ...
Parsons, Michael J., Grimm, Christina H., Paya-Cano, Jose L., Sugden, Karen, Nietfeld, Wilfried, Lehrach, Hans, ...
Micro-RNAs (miRNAs) are short, single-stranded, noncoding RNAs that are involved in the regulation of protein-coding genes at the level of messenger RNA (mRNA). They are involved in the regulation of...
Transcriptome analysis by strand-specific sequencing of complementary DNA
Parkhomchuk, Dmitri, Borodina, Tatiana, Amstislavskiy, Vyacheslav, Banaru, Maria, Hallen, Linda, Krobitsch, Sylvia, ...
High-throughput complementary DNA sequencing (RNA-Seq) is a powerful tool for whole-transcriptome analysis, supplying information about a transcript's expression level and structure. However, it is...