There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

Abstract

The PROSITE database consists of biologically significant patterns and profiles formulated in such a way that with appropriate computational tools it can help to determine to which known family of protein (if any) a new sequence belongs, or which known domain(s) it contains.

Related collections

Most cited references 11

Record: found
Abstract: not found
Article: not found

Hidden Markov models

Sean R. Eddy (1996)

0 comments Cited 126 times – based on 0 reviews      Review now

Bookmark

Record: found
Abstract: found
Article: not found

The SWISS-PROT protein sequence data bank and its new supplement TREMBL.

A Bairoch, R. Apweiler (1996)

SWISS-PROT is a curated protein sequence database which strives to provide a high level of annotation (such as the description of the function of a protein, its domain structure, post-translational modifications, variants, etc), a minimal level of redundancy and a high level of integration with other databases. Recent developments of the database include: an increase in the number and scope of model organisms; cross-references to seven additional databases; a variety of new documentation files; the creation of TREMBL, and unannotated supplement to SWISS-PROT. This supplement consists of entries in SWISS-PROT-like format derived from the translation of all coding sequences (CDS) in the EMBL nucleotide sequence database, except CDS already included in SWISS-PROT.

0 comments Cited 78 times – based on 0 reviews      Review now

Bookmark

Record: found
Abstract: found
Article: not found

A flexible motif search technique based on generalized profiles.

Philipp Bucher, Kevin Karplus, Nicolas Moeri … (1996)

A flexible motif search technique is presented which has two major components: (1) a generalized profile syntax serving as a motif definition language; and (2) a motif search method specifically adapted to the problem of finding multiple instances of a motif in the same sequence. The new profile structure, which is the core of the generalized profile syntax, combines the functions of a variety of motif descriptors implemented in other methods, including regular expression-like patterns, weight matrices, previously used profiles, and certain types of hidden Markov models (HMMs). The relationship between generalized profiles and other biomolecular motif descriptors is analyzed in detail, with special attention to HMMs. Generalized profiles are shown to be equivalent to a particular class of HMMs, and conversion procedures in both directions are given. The conversion procedures provide an interpretation for local alignment in the framework of stochastic models, allowing for clear, simple significance tests. A mathematical statement of the motif search problem defines the new method exactly without linking it to a specific algorithmic solution. Part of the definition includes a new definition of disjointness of alignments.

0 comments Cited 64 times – based on 0 reviews      Review now

Bookmark

All references

Author and article information

Journal

PubMed ID:: 9016539

PMC ID:: 146371

DOI:: 10.1093/nar/25.1.217

ScienceOpen disciplines: Chemistry

Keywords: Amino Acid Sequence,Animals,Computer Communication Networks,Databases, Factual,Proteins,genetics,physiology,Software

Data availability:

ScienceOpen disciplines: Chemistry

Keywords: Amino Acid Sequence, Animals, Computer Communication Networks, Databases, Factual, Proteins, genetics, physiology, Software

The PROSITE database, its status in 1997.

Read this article at

Abstract

Related collections

Journal of Circulating Biomarkers

Most cited references 11

Hidden Markov models

The SWISS-PROT protein sequence data bank and its new supplement TREMBL.

A flexible motif search technique based on generalized profiles.

Author and article information

Journal

Comments

Comment on this article

Similar content 9

Cited by 51