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Philipp Bucher

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Publications associées (158)

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EPD in its twentieth year: towards complete promoter coverage of selected model organisms

Philipp Bucher, Rouayda Cavin Perier

The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). Access to promoter sequences is provided by pointers to positions in the correspondi ...

2006

HTPSELEX--a database of high-throughput SELEX libraries for transcription factor binding sites

Philipp Bucher

HTPSELEX is a public database providing access to primary and derived data from high-throughput SELEX experiments aimed at characterizing the binding specificity of transcription factors. The resource is primarily intended to serve computational biologists ...

2006

ABSTRACT: BACKGROUND: Cleavage of messenger RNA (mRNA) precursors is an essential step in mRNA maturation. The signal recognized by the cleavage enzyme complex has been characterized as an A rich region upstream of the cleavage site containing a motif with ...

2006

Identification of evolutionarily conserved regulatory elements in the mouse Fgf8 locus

Friedrich Beermann, Philipp Bucher

The secreted signaling molecule fibroblast growth factor 8 (Fgf8) is an essential component of certain embryonic signaling centers including the mid-hindbrain (isthmic) organizer, the first branchial arch (BA1), and the apical ectodermal ridge (AER). In th ...

2006

APDB: a web server to evaluate the accuracy of sequence alignments using structural information

Philipp Bucher

The APDB webserver uses structural information to evaluate the alignment of sequences with known structures. It returns a score correlated to the overall alignment accuracy as well as a local evaluation. Any sequence alignment can be analyzed with APDB pro ...

2006

InterPro, progress and status in 2005

Philipp Bucher, Amos Bairoch

InterPro, an integrated documentation resource of protein families, domains and functional sites, was created to integrate the major protein signature databases. Currently, it includes PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIRSF and SUPERFAMILY. ...

2005

Proof of concept for microarray-based detection of DNA-binding oncogenes in cell extracts

Philipp Bucher

The function of DNA-binding proteins is controlled not just by their abundance, but mainly at the level of their activity in terms of their interactions with DNA and protein targets. Moreover, the affinity of such transcription factors to their target sequ ...

2005

Promoter rearrangements cause species-specific hepatic regulation of the glyoxylate reductase/hydroxypyruvate reductase gene by the peroxisome proliferator-activated receptor alpha

Philipp Bucher, Walter Wahli

In liver, the glyoxylate cycle contributes to two metabolic functions, urea and glucose synthesis. One of the key enzymes in this pathway is glyoxylate reductase/hydroxypyruvate reductase (GRHPR) whose dysfunction in human causes primary hyperoxaluria type ...

2005

Rapid and selective surveillance of Arabidopsis thaliana genome annotations with Centrifuge

Florence Armand, Philipp Bucher

Centrifuge is a user-friendly system to simultaneously access Arabidopsis gene annotations and intra- and inter-organism sequence comparison data. The tool allows rapid retrieval of user-selected data for each annotated Arabidopsis gene providing, in any c ...

Oxford University Press2005

Stealth proteins: in silico identification of a novel protein family rendering bacterial pathogens invisible to host immune defense

Philipp Bucher

There are a variety of bacterial defense strategies to survive in a hostile environment. Generation of extracellular polysaccharides has proved to be a simple but effective strategy against the host's innate immune system. A comparative genomics approach l ...

2005

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HTPSELEX--a database of high-throughput SELEX libraries for transcription factor binding sites

Philipp Bucher

2006

EPD in its twentieth year: towards complete promoter coverage of selected model organisms

Philipp Bucher, Rouayda Cavin Perier

2006

Felix Naef

Philipp Bucher

Stealth proteins: in silico identification of a novel protein family rendering bacterial pathogens invisible to host immune defense

Philipp Bucher

2005

Promoter rearrangements cause species-specific hepatic regulation of the glyoxylate reductase/hydroxypyruvate reductase gene by the peroxisome proliferator-activated receptor alpha

Philipp Bucher, Walter Wahli

2005

Rapid and selective surveillance of Arabidopsis thaliana genome annotations with Centrifuge

Florence Armand, Philipp Bucher

Oxford University Press2005