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Service Provider Bielefeld University

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Services (15)

knotinframeImplementationService SOAP De
Views 30 Favourites 0
aka knotInframe
Annotations: 16 Total number of annotations from the provider's definition / description document. 5 Total number of annotations submitted by members of the BioCatalogue. 11 Total number of annotations sourced from other registries. 0
by Franck Tanoh (3 months ago)
KnotInFrame is a pipeline to predict ribosomal -1 frameshift sites with a simple pseudoknot as secondary structure in DNA and RNA sequences. The prediction is based on a comparison between the minimal free energy (mfe) structure calculated by RNAfold ( http://www.tbi.univie.ac.at/~ivo/RNA/ ) from the Vienna package and the mfe-structure computed by a modified version of pknotsRG-mfe, called pknotsRG-frameshift developed by J. Reeder/R.Giegerich.

Provider: Bielefeld University | Submitter / Source: Franck TanohGb (3 months ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/knotinframe.wsdl | 2 SOAP Operations
PASSED
DCAImplementationService SOAP De
Views 399 Favourites 0
Annotations: 22 Total number of annotations from the provider's definition / description document. 15 Total number of annotations submitted by members of the BioCatalogue. 3 Total number of annotations sourced from other registries. 4
by Franck Tanoh (3 months ago)
Divide-and-Conquer Multiple Sequence Alignment (DCA) is a program for producing fast, high quality simultaneous multiple sequence alignments (http://bibiserv.techfak.uni-bielefeld.de/dca/alignments/) of amino acid, RNA, or DNA sequences. The program is based on the DCA algorithm (http://bibiserv.techfak.uni-bielefeld.de/dca/algorithm/). The latest description on DCA can be found in: J. Stoye, Multiple Sequence Alignment with the Divide-and-Conquer Method, Gene 211, GC45-GC56, 1998.

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/DCA.wsdl | 5 SOAP Operations
PASSED
RNAStructMLImplementationService SOAP De
Views 44 Favourites 0
Annotations: 27 Total number of annotations from the provider's definition / description document. 6 Total number of annotations submitted by members of the BioCatalogue. 19 Total number of annotations sourced from other registries. 2
by Franck Tanoh (3 months ago)
RNAStructML is a format for storing RNA secondary structure information. RNAStructML is based on SequenceML and uses Vienna style DotBracket strings for storing the structure information. The service converts and reverts RNA structure information from DotBracketFasta to RNAStructML.

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiwsserv.techfak.uni-bielefeld.de/biodomws/axis/RNAStructML?wsdl | 2 SOAP Operations
PASSED
RNAhybridImplementationService SOAP De
Views 41 Favourites 0
Annotations: 20 Total number of annotations from the provider's definition / description document. 9 Total number of annotations submitted by members of the BioCatalogue. 8 Total number of annotations sourced from other registries. 3
by Franck Tanoh (3 months ago)
RNAhybrid is a tool for finding the minimum free energy hybridisation of a long and a short RNA. The hybridisation is performed in a kind of domain mode, ie. the short sequence is hybridised to the best fitting part of the long one. The tool is primarily meant as a means for microRNA target prediction.

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiwsserv.techfak.uni-bielefeld.de/RNAhybrid/axis/RNAhybridPort?wsdl | 3 SOAP Operations
PASSED
RNAStructAlignmentMLImplementationService SOAP De
Views 33 Favourites 0
Annotations: 18 Total number of annotations from the provider's definition / description document. 6 Total number of annotations submitted by members of the BioCatalogue. 10 Total number of annotations sourced from other registries. 2
by Franck Tanoh (3 months ago)
The service converts and reverts aligned RNA sequences in alignedDotBracketFasta format to an RNAStructAlignmentML XMLDocument. AlignedDotBracketFasta is a format to cobine multiple sequences with secondary structures in one string. It contains at least two pairs of sequence and secondary structure. A sequence starts with '>' and the sequence name. The next line contains the sequence data (FASTA format). The third line represents the secondary structure and consists of - . ( ) [ ] { } < > (Dot-Bracket Format).

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiwsserv.techfak.uni-bielefeld.de/biodomws/axis/RNAStructAlignmentML?wsdl | 2 SOAP Operations
PASSED
roseImplementationService SOAP De
Views 53 Favourites 0
Annotations: 36 Total number of annotations from the provider's definition / description document. 22 Total number of annotations submitted by members of the BioCatalogue. 6 Total number of annotations sourced from other registries. 8
by Franck Tanoh (3 months ago)
Rose (Random model Of Sequence Evolution) implements a new probabilistic model of the evolution of RNA, DNA, or protein-like sequences. Guided by an evolutionary tree, a family of related sequences is created from a common ancestor sequence by insertion, deletion and substitution of characters. During this artificial evolutionary process, the `true' history is logged and the `correct' multiple sequence alignment is created simultaneously. The model also allows for varying rates of mutation within the sequences, making it possible to establish so-called sequence motifs. The data created by Rose are suitable for the evaluation of methods in multiple sequence alignment computation and the p...

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/rose.wsdl | 7 SOAP Operations
PASSED
rociImplementationService SOAP De
Views 52 Favourites 0
Categories:
Annotations: 16 Total number of annotations from the provider's definition / description document. 8 Total number of annotations submitted by members of the BioCatalogue. 3 Total number of annotations sourced from other registries. 5
by Franck Tanoh (3 months ago)
Roci (Reconstruction of Conserved Intervals) reconstructs ancestral gene orders of a phylogenetic tree. Given the topology of a phylogenetic tree and the gene orders of the leaf nodes, it calculates sets of gene orders for the inner nodes, represented by conserved intervals.

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/roci.wsdl | 3 SOAP Operations
PASSED
passtaImplementationService SOAP De
Views 730 Favourites 0
Annotations: 20 Total number of annotations from the provider's definition / description document. 12 Total number of annotations submitted by members of the BioCatalogue. 3 Total number of annotations sourced from other registries. 5
by Franck Tanoh (3 months ago)
Passta (Protein annotation by secondary-structure based alignment) helps to decide whether a protein sequence is related to a protein with known structure. Given a protein query, Passta tries to "explain" it with secondary structure elements (SSEs) from related SCOP protein domains. The approach is able to handle rearrangements and duplications, and it displays the results in an integrated fashion.

Provider: Bielefeld University | Submitter / Source: SeekDa (about 1 year ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/passta.wsdl | 4 SOAP Operations
PASSED
reputerImplementationService SOAP De
Views 63 Favourites 0
aka reputer
Annotations: 26 Total number of annotations from the provider's definition / description document. 16 Total number of annotations submitted by members of the BioCatalogue. 3 Total number of annotations sourced from other registries. 7
by Franck Tanoh (3 months ago)
The REPuter program family provides state of the art software solutions to compute and visualize repeats in whole genomes or chromosomes.

Provider: Bielefeld University | Submitter / Source: Franck TanohGb (about 1 year ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/REPuter.wsdl | 4 SOAP Operations
PASSED
dialignImplementationService SOAP De
Views 25 Favourites 0
aka dialign
Annotations: 27 Total number of annotations from the provider's definition / description document. 23 Total number of annotations submitted by members of the BioCatalogue. 4 Total number of annotations sourced from other registries. 0
by Franck Tanoh (about 1 year ago)
DIALIGN is a multiple sequence alignment program. While standard alignment methods rely on comparing single residues and imposing gap penalties, DIALIGN constructs pairwise and multiple alignments by comparing entire segments of the sequences. No gap penalty is used. This approach can be used for both global and local alignment, but it is particularly successful in situations where sequences share only local homologies. Paper published: http://www.almob.org/content/3/1/6/abstract/

Provider: Bielefeld University | Submitter / Source: Franck TanohGb (about 1 year ago)

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WSDL Location: http://bibiserv.techfak.uni-bielefeld.de/wsdl/dialign.wsdl | 7 SOAP Operations
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Hostnames (2)

bibiwsserv.techfak.uni-bielefeld.de
bibiserv.techfak.uni-bielefeld.de