mGene: Accurate SVM-based gene finding with an application to nematode genomes (2009)
Schweikert, Gabriele, Zien, Alexander, Zeller, Georg, Behr, Jonas, Dieterich, Christoph, Ong, Cheng Soon, ...
We present a highly accurate gene-prediction system for eukaryotic genomes, called mGene. It combines in an unprecedented manner the flexibility of generalized hidden Markov models (gHMMs) with the...
Syntenator: Multiple gene order alignments with a gene-specific scoring function (2008)
Rödelsperger, Christian, Dieterich, Christoph
Abstract Background Identification of homologous regions or conserved syntenies across genomes is one crucial step in comparative genomics. This task is usually performed by genome alignment...
Christoph Dieterich, Waltraud Roeseler, Jagan Srinivasan
1.1. General biology and genetics........................................................................................... 2 1.2. Biogeography and polymorphisms in Pristionchus...
Suboptimal Local Alignments across Multiple Scoring Schemes (preview (2008)
Morris Michael, Christoph Dieterich, Jens Stoye
Abstract. Sequence alignment algorithms have a long standing tradition in bioinformatics. In this paper, we formulate an extension to existing local alignment algorithms: local alignments across...
A Caenorhabditismotif compendium for studying transcriptional gene regulation (2008)
Dieterich, Christoph, Sommer, Ralf J
Abstract Background Controlling gene expression is fundamental to biological complexity. The nematode Caenorhabditis elegans is an important model for studying principles of gene regulation in...
Syntenator: Multiple gene order alignments with a gene-specific scoring function (2008)
Rödelsperger, Christian, Dieterich, Christoph
Background Identification of homologous regions or conserved syntenies across genomes is one crucial step in comparative genomics. This task is usually performed by genome alignment softwares like...
Evolution of a core gene network for skeletogenesis in chordates (2008)
Hecht, Jochen, Stricker, Sigmar, Wiecha, Ulrike, Stiege, Asita, Panopoulou, Georgia, Podsiadlowski, Lars, ...
The skeleton is one of the most important features for the reconstruction of vertebrate phylogeny but few data are available to understand its molecular origin. In mammals the Runt genes are central...
Algorithms for Molecular Biology (2008)
Christian Rödelsperger, Christoph Dieterich
Software article Syntenator: Multiple gene order alignments with a gene-specific scoring function
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, P., Sommer, Ralf
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, Patrick, Sommer, Ralf J.
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, Patrick, Sommer, Ralf J.
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, Patrick, Sommer, Ralf J.
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, Patrick, Sommer, Ralf J.
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, Patrick, Sommer, Ralf J.
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Cora', Davide, Herrmann, Carl, Dieterich, Christoph, Di Cunto, Ferdinando, Provero, Paolo, Caselle, Michele
We discuss a simple and powerful approach for the ab initio identification of cis-regulatory motifs involved in transcriptional regulation. The method we present integrates several elements:...
Comparative promoter region analysis powered by CORG (2005)
Dieterich, Christoph, Grossmann, Steffen, Tanzer, Andrea, Röpcke, Stefan, Arndt, Peter F, Stadler, Peter F, ...
Abstract Background Promoters are key players in gene regulation. They receive signals from various sources (e.g. cell surface receptors) and control the level of transcription initiation, which...
Comparative promoter region analysis powered by CORG (2005)
Dieterich,Christoph, Grossmann,Steffen, Tanzer,Andrea, Röpcke,Stefan, Arndt,Peter F, Stadler,Peter F, ...
Background Promoters are key players in gene regulation. They receive signals from various sources (e.g. cell surface receptors) and control the level of transcription initiation, which largely...
Comparative promoter region analysis powered by CORG (2005)
Dieterich, Christoph, Grossmann, Steffen, Tanzer, Andrea, Röpcke, Stefan, Arndt, Peter F, Stadler, Peter F, ...
Background Promoters are key players in gene regulation. They receive signals from various sources (e.g. cell surface receptors) and control the level of transcription initiation, which largely...
SITEBLAST-rapid and sensitive local alignment of genomic sequences employing motif anchors (2005)
Michael, Morris, Dieterich, Christoph, Vingron, Martin
Motivation: Comparative sequence analysis is the essence of many approaches to genome annotation. Heuristic alignment algorithms utilize similar seed pairs to anchor an alignment. Some applications...
Comparative sequence analysis and association mining in gene regulation (2005)
Diese Promotionsarbeit beschäftigt sich mit der Steuerung der Transkription von Genen in Vertebraten im Allgemeinen und Säugern im Speziellen. Der Vorgang der Transkription ist das Abschreiben von...
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Comparative promoter region analysis powered by CORG (2005)
Dieterich, Christoph, Grossmann, Steffen, Tanzer, Andrea, Ropcke, Stefan, Arndt, Peter F, Stadler, Peter F, ...
SITEBLAST-rapid and sensitive local alignment of genomic sequences employing motif anchors (2005)
Michael, Morris, Dieterich, Christoph, Vingron, Martin
Motivation: Comparative sequence analysis is the essence of many approaches to genome annotation. Heuristic alignment algorithms utilize similar seed pairs to anchor an alignment. Some applications...
The SRF target gene Fhl2 antagonizes RhoA/MAL-dependent activation of SRF (2004)
Philippar,Ulrike, Schratt,Gerhard, Dieterich,Christoph, Müller,Judith M., Galgóczy,Petra, Engel,Felix B., ...
RhoA signaling regulates the activity of the transcription factor SRF (serum response factor) during muscle differentiation. How RhoA signaling is integrated at SRF target promoters to achieve...
Dieterich,Christoph, Rahmann,Sven, Vingron,Martin
Motivation: Our understanding of how genes are regulated in a concerted fashion is still limited. Especially, complex phenomena like cell cycle regulation in multicellular organisms are poorly...
Dieterich, Christoph, Rahmann, Sven, Vingron, Martin
Motivation: Our understanding of how genes are regulated in a concerted fashion is still limited. Especially, complex phenomena like cell cycle regulation in multicellular organisms are poorly...
The SRF target gene Fhl2 antagonizes RhoA/MAL-dependent activation of SRF (2004)
Philippar, Ulrike, Schratt, Gerhard, Dieterich, Christoph, Müller, Judith M., Galgóczy, Petra, Engel, Felix B., ...
RhoA signaling regulates the activity of the transcription factor SRF (serum response factor) during muscle differentiation. How RhoA signaling is integrated at SRF target promoters to achieve...
SITEBLAST - rapid and sensitive local alignment of genomic sequences employing motif anchors (2004)
Michael, Morris, Dieterich, Christoph, Vingron, Martin
Motivation: Comparative sequence analysis is the essence of many approaches to genome annotation. Heuristic alignment algorithms utilize similar seed pairs to anchor an alignment. Some applications...
Dieterich, Christoph, Rahmann, Sven, Vingron, Martin
Motivation: Our understanding of how genes are regulated in a concerted fashion is still limited. Especially, complex phenomena like cell cycle regulation in multicellular organisms are poorly...
SITEBLAST - rapid and sensitive local alignment of genomic sequences employing motif anchors (2004)
Michael, Morris, Dieterich, Christoph, Vingron, Martin
Motivation: Comparative sequence analysis is the essence of many approaches to genome annotation. Heuristic alignment algorithms utilize similar seed pairs to anchor an alignment. Some applications...
Dieterich,Christoph, Herwig,Ralf, Vingron,Martin
Many cellular signaling pathways induce gene expression by activating specific transcription factor complexes. Conventional approaches to the prediction of transcription factor binding sites lead to...
CORG: a database for COmparative Regulatory Genomics (2003)
Dieterich,Christoph, Wang,H., Rateitschak,K., Luz,Hannes, Vingron,Martin
Sequence conservation in non-coding, upstream regions of orthologous genes from man and mouse is likely to reflect common regulatory DNA sites. Motivated by this assumption we have delineated a...
CORG: a database for COmparative Regulatory Genomics (2003)
Dieterich, Christoph, Wang, H., Rateitschak, K., Luz, Hannes, Vingron, Martin
Sequence conservation in non-coding, upstream regions of orthologous genes from man and mouse is likely to reflect common regulatory DNA sites. Motivated by this assumption we have delineated a...
Dieterich, Christoph, Herwig, Ralf, Vingron, Martin
Many cellular signaling pathways induce gene expression by activating specific transcription factor complexes. Conventional approaches to the prediction of transcription factor binding sites lead to...
Annotating regulatory DNA based on man-mouse genomic comparison (2002)
Dieterich,Christoph, Cusack,Brian, Wang,Haiyan, Rateitschak,Katja, Krause,Antje, Vingron,Martin
Non-coding DNA segments that are conserved between the human and mouse genomic sequence are good indicators of possible regulatory sequences. Here we report on a systematic approach to delineate such...
Annotating regulatory DNA based on man-mouse genomic comparison (2002)
Dieterich, Christoph, Cusack, Brian, Wang, Haiyan, Rateitschak, Katja, Krause, Antje, Vingron, Martin
Non-coding DNA segments that are conserved between the human and mouse genomic sequence are good indicators of possible regulatory sequences. Here we report on a systematic approach to delineate such...
Pages S84–S90 Annotating regulatory DNA based on man-mouse genomic comparison (2002)
Christoph Dieterich, Brian Cusack, Haiyan Wang, Antje Krause, Martin Vingron
Non-coding DNA segments that are conserved between the human and mouse genomic sequence are good indicators of possible regulatory sequences. Here we report on a systematic approach to delineate such...
Annotating regulatory DNA based on man-mouse genomic comparison (2002)
Dieterich, Christoph, Cusack, Brian, Wang, Haiyan, Rateitschak, Katja, Krause, Antje, Vingron, Martin
Non-coding DNA segments that are conserved between the human and mouse genomic sequence are good indicators of possible regulatory sequences. Here we report on a systematic approach to delineate such...
Comparative promoter region analysis powered by CORG
Dieterich, Christoph, Grossmann, Steffen, Tanzer, Andrea, Röpcke, Stefan, Arndt, Peter F, Stadler, Peter F, ...
Comparative promoter region analysis powered by CORG
Dieterich, Christoph, Grossmann, Steffen, Tanzer, Andrea, Röpcke, Stefan, Arndt, Peter F, Stadler, Peter F, ...
Pristionchus.org: a genome-centric database of the nematode satellite species Pristionchus pacificus
Dieterich, Christoph, Roeseler, Waltraud, Sobetzko, Patrick, Sommer, Ralf J.
Comparative studies have been of invaluable importance to the understanding of evolutionary biology. The evolution of developmental programs can be studied in nematodes at a single cell resolution...
Evolution of a Core Gene Network for Skeletogenesis in Chordates
Hecht, Jochen, Stricker, Sigmar, Wiecha, Ulrike, Stiege, Asita, Panopoulou, Georgia, Podsiadlowski, Lars, ...
The skeleton is one of the most important features for the reconstruction of vertebrate phylogeny but few data are available to understand its molecular origin. In mammals the Runt genes are central...