Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

SPdb--a signal peptide database.

Khar Heng Choo1, Tin Wee Tan, Shoba Ranganathan

  • 1Department of Biochemistry, National University of Singapore, Singapore. justin@bic.nus.edu.sg

BMC Bioinformatics
|October 14, 2005
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

TBM preferred to AlphaFold 3 for functional models of insect odorant receptors.

Computational and structural biotechnology journal·2026
Same author

Establishing the Asia & Pacific Bioinformatics Joint Congress: a historic milestone in regional bioinformatics collaboration.

Briefings in bioinformatics·2025
Same author

Biological databases in the age of generative artificial intelligence.

Bioinformatics advances·2025
Same author

Template-based modeling of insect odorant receptors outperforms AlphaFold3 for ligand binding predictions.

Scientific reports·2024
Same author

Pseudonormal Morphology of Salivary Gland Adenoid Cystic Carcinoma Cells Subverts the Antitumor Reactivity of Immune Cells: A Tumour-Cell-Based Initiation of Immune Evasion.

Cancer reports (Hoboken, N.J.)·2024
Same author

A global initiative on addressing bioinformatics' grand challenges.

Briefings in bioinformatics·2024
Same journal

OpenIMC: an open-source platform for analyzing single-cell and spatial proteomics by imaging mass cytometry.

BMC bioinformatics·2026
Same journal

NAP: an open source pipeline for cross-domain microbiome profiling using Nanopore sequencing-derived amplicon data.

BMC bioinformatics·2026
Same journal

SurvGME: an R package for survival analysis with graphical and measurement error models.

BMC bioinformatics·2026
Same journal

SimMapNet: a Bayesian framework for gene regulatory network inference using gene ontology similarities as external hint.

BMC bioinformatics·2026
Same journal

Dual channel drug-drug interactions extraction based on cross attention.

BMC bioinformatics·2026
Same journal

FeSseqdb: a curated sequence-level database and interpretable machine learning framework for identifying iron-sulfur proteins.

BMC bioinformatics·2026
See all related articles

The SPdb database provides a comprehensive resource for signal peptides, crucial for protein targeting and translocation. This manually curated repository aids researchers in understanding and analyzing these essential protein sequences.

Area of Science:

  • Molecular Biology
  • Bioinformatics

Background:

  • Signal peptides are essential for protein targeting and translocation in cells.
  • Understanding signal peptide function is key to predicting protein localization.
  • The SPdb database offers a repository of experimentally determined and computationally predicted signal peptides.

Purpose of the Study:

  • To present SPdb, a manually curated database for signal peptides.
  • To support the understanding and analysis of signal peptide function and localization.

Main Methods:

  • Integrated data from Swiss-Prot (UniProt) and EMBL databases.
  • Employed semi-automated updates with human verification for data accuracy.
  • Developed filtering criteria for signal sequence inclusion.

Related Experiment Videos

Main Results:

  • SPdb release 3.2 contains 18,146 entries.
  • Includes 2,584 experimentally verified signal sequences.
  • Incorporates 15,562 filtered or unverified signal sequences.

Conclusions:

  • SPdb is a manually curated resource for signal peptide research.
  • The database ensures up-to-date information by tracking primary database updates.