Member of BioCatalogue Yung Long Li

Services Annotated (11)

T-Coffee (SOAP) SOAP Gb
PASSED
T-Coffee is a multiple sequence alignment program. Multiple sequence alignment programs are meant to align a set of sequences previously gathered using other programs such as BLAST or FASTA. The main characteristic of T-Coffee is that it will allow you to combine results obtained with several alignment methods. For instance if you have an alignment coming from ClustalW, an other alignment coming from Dialign, and a structural alignment of some of your sequences, T-Coffee will combine all that...

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/tcoffee?wsdl

ClustalW2 (SOAP) SOAP Gb
PASSED
ClustalW2 is a fully automatic program for global multiple alignment of DNA or protein sequences. The alignment is progressive and considers sequence redundancy. Note: ClustalW 2 is superseded by the next generation of Clustal multiple sequence alignment: Clustal Omega.

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl

NCBI BLAST (SOAP) SOAP Gb
PASSED
NCBI BLAST is a sequence similarity search program. The emphasis is to find regions of sequence similarity, which will yield functional and evolutionary clues about the structure and function of the query sequence.

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/ncbiblast?wsdl

WU-BLAST (SOAP) SOAP Gb
PASSED
WU-BLAST (Washington University Basic Local Alignment Search Tool) Version 2.0 is used to compare a sequence with those contained in nucleotide and protein databases by aligning the sequence with previously characterized genes. The emphasis of this tool is to find regions of sequence similarity, which will yield functional and evolutionary clues about the structure and function of this novel sequence. Regions of similarity detected via this type of alignment tool can be either local, where th...

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/wublast?wsdl

PSI-BLAST (SOAP) SOAP Gb
PASSED
Position Specific Iterative BLAST (PSI-BLAST) refers to a feature of NCBI BLAST 2.0 in which a position-specific scoring matrix (PSSM) profile is constructed from set of BLAST alignments. The PSSM is then used to search the database in subsequent iterations allowing the detection of distant evolutionary relationships. This can be combined with the Pattern Hit Initiated BLAST (PHI-BLAST) mode to constrain the PSSM using a ProSite pattern to define the region(s) to be used when building the PSSM.

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/psiblast?wsdl

FASTA (SOAP) SOAP Gb
PASSED
FASTA (pronounced FAST-Aye) stands for FAST-All, reflecting the fact that it can be used for a fast protein comparison or a fast nucleotide comparison. This program achieves a high level of sensitivity for similarity searching at high speed. This is achieved by performing optimised searches for local alignments using a substitution matrix. The high speed of this program is achieved by using the observed pattern of word hits to identify potential matches before attempting the more time consumi...

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/fasta?wsdl

MUSCLE (SOAP) SOAP Gb
PASSED
MUSCLE (MUltiple Sequence Comparison by Log-Expectation) 1) is claimed to achieve both better average accuracy and better speed than ClustalW or T-Coffee, depending on the chosen options. Multiple alignments of protein sequences are important in many applications, including phylogenetic tree estimation, secondary structure prediction and critical residue identification.

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/muscle?wsdl

SignalP SOAP Dk

This service has been archived because it may not be active anymore (or is close to being non active).

InterProScan 4.x (SOAP) SOAP Gb

This service has been archived because it may not be active anymore (or is close to being non active).

Phobius (SOAP) SOAP Gb
PASSED
Transmembrane topology and signal peptides prediction from the amino acid sequence of a protein using Phobius.

Provider: European Bioinformatics Institute (EMBL-EBI) | WSDL Location: http://www.ebi.ac.uk/Tools/services/soap/phobius?wsdl