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Andreas Grote

dblp:44/6574 · DBLP profile ↗
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2ranked-venue papers
0as first author
0since 2021 · last 2006
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 2

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
2 papers
Bioinformatics and computational biology · 100%

Topics — the 6 heaviest of 6, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology
proteomics		 0.112006
JVirGel 2.0: computational prediction of proteomes separated via two-dimensional gel electrophoresis under consideration of membrane and secreted proteins · Bioinform. 2006
Bioinformatics and computational biology › gene regulation › gene regulatory network
regulon prediction		 0.112005
Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes · Bioinform. 2005
Bioinformatics and computational biology › gene regulation
transcription factor binding site prediction		 0.112005
Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes · Bioinform. 2005
Bioinformatics and computational biology › protein structure prediction
membrane protein prediction		 0.012006
JVirGel 2.0: computational prediction of proteomes separated via two-dimensional gel electrophoresis under consideration of membrane and secreted proteins · Bioinform. 2006
Bioinformatics and computational biology › protein sequence analysis › protein sequence annotation
signal peptide prediction		 0.012006
JVirGel 2.0: computational prediction of proteomes separated via two-dimensional gel electrophoresis under consideration of membrane and secreted proteins · Bioinform. 2006
Bioinformatics and computational biology › genomics › microbial genomics
prokaryotic genomics		 0.012005
Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes · Bioinform. 2005

Methods — techniques the papers use, named apart from their topics

predisi · 0.1JCaMelix · 0.1position weight matrix · 0.1pattern matching · 0.1
YearPublicationVenuePosition
2006 JVirGel 2.0: computational prediction of proteomes separated via two-dimensional gel electrophoresis under consideration of membrane and secreted proteins
abstract
MOTIVATION: After the publication of JVirGel 1.0 in 2003 we got many requests and suggestions from the proteomics community to further improve the performance of the software and to add additional useful new features. RESULTS: The integration of the PrediSi algorithm for the prediction of signal peptides for the Sec-dependent protein export into JVirGel 2.0 allows the exclusion of most exported preproteins from calculated proteomic maps and provides the basis for the calculation of Sec-based secretomes. A tool for the identification of transmembrane helices carrying proteins (JCaMelix) and the prediction of the corresponding membrane proteome was added. Finally, in order to directly compare experimental and calculated proteome data, a function to overlay and evaluate predicted and experimental two-dimensional gels was included. AVAILABILITY: JVirGel 2.0 is freely available as precompiled package for the installation on Windows or Linux operating systems. Furthermore, there is a completely platform-independent Java version available for download. Additionally, we provide a Java Server Pages based version of JVirGel 2.0 which can be operated in nearly all web browsers. All versions are accessible at http://www.jvirgel.de
Karsten Hiller, Andreas Grote, Matthias Maneck, Richard Münch, Dieter Jahn
 Bioinform.2
2005 Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes
abstract
SUMMARY: A new online framework for the accurate and integrative prediction of transcription factor binding sites (TFBSs) in prokaryotes was developed. The system consists of three interconnected modules: (1) The PRODORIC database as a comprehensive data source and extensive collection of TFBSs with corresponding position weight matrices. (2) The pattern matching tool Virtual Footprint for the prediction of genome based regulons and for the analysis of individual promoter regions. (3) The interactive genome browser GBPro for the visualization of TFBS search results in their genomic context and links to gene and regulator-specific information in PRODORIC. The aim of this service is to provide researchers a free and easy to use collection of interconnected tools in the field of molecular microbiology, infection and systems biology. AVAILABILITY: http://www.prodoric.de/vfp.
Richard Münch, Karsten Hiller, Andreas Grote, Maurice Scheer, Max Schobert, Dieter Jahn
 Bioinform.3