PASTAA: identifying transcription factors associated with sets of co-regulated genes (2009)
Roider, Helge G., Manke, Thomas, O'Keeffe, Sean, Vingron, Martin, Haas, Stefan A.
Motivation: A major challenge in regulatory genomics is the identification of associations between functional categories of genes (e.g. tissues, metabolic pathways) and their regulating transcription...
Beisel, Christian, Buness, Andreas, Roustan-Espinosa, Ian M., Koch, Britta, Schmitt, Sabine, Haas, Stefan A., ...
Drosophila Polycomb group (PcG) and Trithorax group (TrxG) proteins are responsible for the maintenance of stable transcription patterns of many developmental regulators, such as the homeotic genes....
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A, Bauer, Sebastian, Poustka, Albert J, Lienau, Jasmin, ...
Abstract Background The sheep is an important model animal for testing novel fracture treatments and other medical applications. Despite these medical uses and the well known economic and cultural...
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A ., Bauer, Sebastian, Poustka, Albert J., Lienau, Jasmin, ...
Background The sheep is an important model animal for testing novel fracture treatments and other medical applications. Despite these medical uses and the well known economic and cultural importance...
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A ., Bauer, Sebastian, Poustka, Albert J., Lienau, Jasmin, ...
Background The sheep is an important model animal for testing novel fracture treatments and other medical applications. Despite these medical uses and the well known economic and cultural importance...
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A ., Bauer, Sebastian, Poustka, Albert J., Lienau, Jasmin, ...
Background The sheep is an important model animal for testing novel fracture treatments and other medical applications. Despite these medical uses and the well known economic and cultural importance...
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A ., Bauer, Sebastian, Poustka, Albert J., Lienau, Jasmin, ...
Background The sheep is an important model animal for testing novel fracture treatments and other medical applications. Despite these medical uses and the well known economic and cultural importance...
Hui,Jingyi, Hung,Lee-Hsueh, Heiner,Monika, Schreiner,Silke, Neumüller,Norma, Reither,Gregor, ...
We have recently identified an intronic polymorphic CA-repeat region in the human endothelial nitric oxide synthase (eNOS) gene as an important determinant of the splicing efficiency, requiring...
Belyakin,Stepan N., Christophides,George K., Alekseyenko,Artyom A., Kriventseva,Evgenia V., Belyaeva,Elena S., Nanayev,Roman A., ...
In Drosophila polytene chromosomes, most late-replicating regions remain underreplicated. A loss-of-function mutant of the suppressor of underreplication [Su(UR)] gene suppresses underreplication...
T-STAG: resource and web-interface for tissue-specific transcripts and genes (2005)
Gupta,Shobhit, Vingron,Martin, Haas,Stefan A.
T-STAG (tissue-specific transcripts and genes) is a resource and web-interface, designated to analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes. It integrates our...
Belyakin, Stepan N., Christophides, George K., Alekseyenko, Artyom A., Kriventseva, Evgenia V., Belyaeva, Elena S., ...
In Drosophila polytene chromosomes, most late-replicating regions remain underreplicated. A loss-of-function mutant of the suppressor of underreplication [Su(UR)] gene suppresses underreplication...
T-STAG: resource and web-interface for tissue-specific transcripts and genes (2005)
Gupta, Shobhit, Vingron, Martin, Haas, Stefan A.
T-STAG (tissue-specific transcripts and genes) is a resource and web-interface, designated to analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes. It integrates our...
Hui, Jingyi, Hung, Lee-Hsueh, Heiner, Monika, Schreiner, Silke, Neumüller, Norma, Reither, Gregor, ...
We have recently identified an intronic polymorphic CA-repeat region in the human endothelial nitric oxide synthase (eNOS) gene as an important determinant of the splicing efficiency, requiring...
T-STAG: resource and web-interface for tissue-specific transcripts and genes (2005)
Gupta, Shobhit, Vingron, Martin, Haas, Stefan A.
T-STAG (tissue-specific transcripts and genes) is a resource and web-interface, designated to analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes. It integrates our...
Strengths and weaknesses of EST-based prediction of tissue-specific alternative splicing (2004)
Gupta, Shobhit, Zink, Dorothea, Korn, Bernhard, Vingron, Martin, Haas, Stefan A
Abstract Background Alternative splicing contributes significantly to the complexity of the human transcriptome and proteome. Computational prediction of alternative splice isoforms are usually based...
Strengths and weaknesses of EST-based prediction of tissue-specific alternative splicing (2004)
Gupta,Shobhit, Zink,Dorothea, Korn,Bernhard, Vingron,Martin, Haas,Stefan A
Background: Alternative splicing contributes significantly to the complexity of the human transcriptome and proteome. Computational prediction of alternative splice isoforms are usually based on EST...
Genome wide identification and classification of alternative splicing based on EST data (2004)
Gupta,Shobhit, Zink,D., Korn,B., Vingron,Martin, Haas,Stefan A.
Motivation: Alternative splicing is currently seen to explain the vast disparity between the number of predicted genes in the human genome and the highly diverse proteome. The mapping of expressed...
Genome-wide RNAi analysis of growth and viability in Drosophila cells (2004)
Boutros,Michael, Kiger,Amy A., Armknecht,Susan, Kerr,Kim, Hild,Marc, Koch,Britta, ...
A crucial aim upon completion of whole genome sequences is the functional analysis of all predicted genes. We have applied a high-throughput RNA-interference (RNAi) screen of 19,470 double-stranded...
Genome-wide RNAi analysis of growth and viability in Drosophila cells (2004)
Boutros, Michael, Kiger, Amy A., Armknecht, Susan, Kerr, Kim, Hild, Marc, Koch, Britta, ...
A crucial aim upon completion of whole genome sequences is the functional analysis of all predicted genes. We have applied a high-throughput RNA-interference (RNAi) screen of 19,470 double-stranded...
Genome wide identification and classification of alternative splicing based on EST data (2004)
Gupta, Shobhit, Zink, D., Korn, B., Vingron, Martin, Haas, Stefan A.
Motivation: Alternative splicing is currently seen to explain the vast disparity between the number of predicted genes in the human genome and the highly diverse proteome. The mapping of expressed...
Strengths and weaknesses of EST-based prediction of tissue-specific alternative splicing (2004)
Gupta, Shobhit, Zink, Dorothea, Korn, Bernhard, Vingron, Martin, Haas, Stefan A
Background: Alternative splicing contributes significantly to the complexity of the human transcriptome and proteome. Computational prediction of alternative splice isoforms are usually based on EST...
Hild,M., Beckmann,B., Haas,Stefan. A., Koch,B., Solovyev,V., Busold,C., ...
Background While the genome sequences for a variety of organisms are now available, the precise number of the genes encoded is still a matter of debate. For the human genome several stringent...
Genome-scale design of PCR primers and long oligomers for DNA microarrays (2003)
Haas,Stefan A., Hild,Marc, Wright,Anthony P. H., Hain,Torsten, Talibi,Driss, Vingron,Martin
During the last years, the demand for custom-made cDNA chips/arrays as well as whole genome chips is increasing rapidly. The efficient selection of gene-specific primers/oligomers is of the utmost...
Genome-scale design of PCR primers and long oligomers for DNA microarrays (2003)
Haas, Stefan A., Hild, Marc, Wright, Anthony P. H., Hain, Torsten, Talibi, Driss, Vingron, Martin
During the last years, the demand for custom-made cDNA chips/arrays as well as whole genome chips is increasing rapidly. The efficient selection of gene-specific primers/oligomers is of the utmost...
Hild, M., Beckmann, B., Haas, Stefan. A., Koch, B., Solovyev, V., Busold, C., ...
Background While the genome sequences for a variety of organisms are now available, the precise number of the genes encoded is still a matter of debate. For the human genome several stringent...
Genome-scale design of PCR primers and long oligomers for DNA microarrays (2003)
Haas, Stefan A., Hild, Marc, Wright, Anthony P. H., Hain, Torsten, Talibi, Driss, Vingron, Martin
During the last years, the demand for custom‐made cDNA chips/arrays as well as whole genome chips is increasing rapidly. The efficient selection of gene‐specific primers/oligomers is of the...
SpliceNest: visualizing gene structure and alternative splicing based on EST clusters (2002)
Coward,Eivind, Haas,Stefan A., Vingron,Martin
Messenger RNA sequences, expressed sequence tags (ESTs), and, in particular, consensus sequences of clustered ESTs provide valuable information about splice variants of genes. We have mapped such...
SpliceNest: visualizing gene structure and alternative splicing based on EST clusters (2002)
Coward,Eivind, Haas,Stefan A., Vingron,Martin
Messenger RNA sequences, expressed sequence tags (ESTs), and, in particular, consensus sequences of clustered ESTs provide valuable information about splice variants of genes. We have mapped such...
SYSTERS, GeneNest, SpliceNest: exploring sequence space from genome to protein (2002)
Krause,Antje, Haas,Stefan A., Coward,Eivind, Vingron,Martin
We have integrated the protein families from SYSTERS and the expressed sequence tag (EST) clusters from our database GeneNest with SpliceNest, a new database mapping EST contigs into genomic DNA. The...
SpliceNest: visualizing gene structure and alternative splicing based on EST clusters (2002)
Coward, Eivind, Haas, Stefan A., Vingron, Martin
Messenger RNA sequences, expressed sequence tags (ESTs), and, in particular, consensus sequences of clustered ESTs provide valuable information about splice variants of genes. We have mapped such...
SpliceNest: visualizing gene structure and alternative splicing based on EST clusters (2002)
Coward, Eivind, Haas, Stefan A., Vingron, Martin
Messenger RNA sequences, expressed sequence tags (ESTs), and, in particular, consensus sequences of clustered ESTs provide valuable information about splice variants of genes. We have mapped such...
SYSTERS, GeneNest, SpliceNest: exploring sequence space from genome to protein (2002)
Krause, Antje, Haas, Stefan A., Coward, Eivind, Vingron, Martin
We have integrated the protein families from SYSTERS and the expressed sequence tag (EST) clusters from our database GeneNest with SpliceNest, a new database mapping EST contigs into genomic DNA. The...
SYSTERS, GeneNest, SpliceNest: exploring sequence space from genome to protein (2002)
Krause, Antje, Haas, Stefan A., Coward, Eivind, Vingron, Martin
We have integrated the protein families from SYSTERS and the expressed sequence tag (EST) clusters from our database GeneNest with SpliceNest, a new database mapping EST contigs into genomic DNA. The...
SYSTERS, GeneNest, SpliceNest: exploring sequence space from genome to protein
Krause, Antje, Haas, Stefan A., Coward, Eivind, Vingron, Martin
We have integrated the protein families from SYSTERS and the expressed sequence tag (EST) clusters from our database GeneNest with SpliceNest, a new database mapping EST contigs into genomic DNA. The...
Genome-scale design of PCR primers and long oligomers for DNA microarrays
Haas, Stefan A., Hild, Marc, Wright, Anthony P. H., Hain, Torsten, Talibi, Driss, Vingron, Martin
During the last years, the demand for custom-made cDNA chips/arrays as well as whole genome chips is increasing rapidly. The efficient selection of gene-specific primers/oligomers is of the utmost...
Strengths and weaknesses of EST-based prediction of tissue-specific alternative splicing
Gupta, Shobhit, Zink, Dorothea, Korn, Bernhard, Vingron, Martin, Haas, Stefan A
Intronic CA-repeat and CA-rich elements: a new class of regulators of mammalian alternative splicing
Hui, Jingyi, Hung, Lee-Hsueh, Heiner, Monika, Schreiner, Silke, Neumüller, Norma, Reither, Gregor, ...
We have recently identified an intronic polymorphic CA-repeat region in the human endothelial nitric oxide synthase (eNOS) gene as an important determinant of the splicing efficiency, requiring...
T-STAG: resource and web-interface for tissue-specific transcripts and genes
Gupta, Shobhit, Vingron, Martin, Haas, Stefan A.
T-STAG (tissue-specific transcripts and genes) is a resource and web-interface, designated to analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes. It integrates our...
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A, Bauer, Sebastian, Poustka, Albert J, Lienau, Jasmin, ...
SYSTERS, GeneNest, SpliceNest: exploring sequence space from genome to protein
Krause, Antje, Haas, Stefan A., Coward, Eivind, Vingron, Martin
We have integrated the protein families from SYSTERS and the expressed sequence tag (EST) clusters from our database GeneNest with SpliceNest, a new database mapping EST contigs into genomic DNA. The...
Genome-scale design of PCR primers and long oligomers for DNA microarrays
Haas, Stefan A., Hild, Marc, Wright, Anthony P. H., Hain, Torsten, Talibi, Driss, Vingron, Martin
During the last years, the demand for custom-made cDNA chips/arrays as well as whole genome chips is increasing rapidly. The efficient selection of gene-specific primers/oligomers is of the utmost...
Strengths and weaknesses of EST-based prediction of tissue-specific alternative splicing
Gupta, Shobhit, Zink, Dorothea, Korn, Bernhard, Vingron, Martin, Haas, Stefan A
Intronic CA-repeat and CA-rich elements: a new class of regulators of mammalian alternative splicing
Hui, Jingyi, Hung, Lee-Hsueh, Heiner, Monika, Schreiner, Silke, Neumüller, Norma, Reither, Gregor, ...
We have recently identified an intronic polymorphic CA-repeat region in the human endothelial nitric oxide synthase (eNOS) gene as an important determinant of the splicing efficiency, requiring...
T-STAG: resource and web-interface for tissue-specific transcripts and genes
Gupta, Shobhit, Vingron, Martin, Haas, Stefan A.
T-STAG (tissue-specific transcripts and genes) is a resource and web-interface, designated to analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes. It integrates our...
Hecht, Jochen, Kuhl, Heiner, Haas, Stefan A, Bauer, Sebastian, Poustka, Albert J, Lienau, Jasmin, ...
Beisel, Christian, Buness, Andreas, Roustan-Espinosa, Ian M., Koch, Britta, Schmitt, Sabine, Haas, Stefan A., ...
Drosophila Polycomb group (PcG) and Trithorax group (TrxG) proteins are responsible for the maintenance of stable transcription patterns of many developmental regulators, such as the homeotic genes....
PASTAA: identifying transcription factors associated with sets of co-regulated genes
Roider, Helge G., Manke, Thomas, O'Keeffe, Sean, Vingron, Martin, Haas, Stefan A.
Motivation: A major challenge in regulatory genomics is the identification of associations between functional categories of genes (e.g. tissues, metabolic pathways) and their regulating transcription...
Roider, Helge G., Lenhard, Boris, Kanhere, Aditi, Haas, Stefan A., Vingron, Martin
Motif overrepresentation analysis of proximal promoters is a common approach to characterize the regulatory properties of co-expressed sets of genes. Here we show that these approaches perform well...