ggsearch2seq (EBI)
ggsearch2seq performs optimal global sequence alignments using the Needleman-Wunsch algorithm to enable comparative and functional sequence analysis.
Key Features:
- Optimal Global Alignment: Utilizes the Needleman-Wunsch algorithm to compute optimal global alignments between sequences.
- Integration with EMBL-EBI Resources: Accesses and aligns sequences from EMBL-EBI databases including UniProt, InterPro, ENA, and Ensembl Genomes.
Scientific Applications:
- Comparative genomics: Identifies evolutionary relationships through optimal global sequence alignments.
- Functional annotation: Supports gene and protein functional annotation by aligning query sequences to reference sequences.
- Structural biology: Provides precise sequence alignments used in structural studies and modeling.
- Metagenomics: Enables comprehensive sequence comparisons required in metagenomic analyses.
Methodology:
Applies the Needleman-Wunsch algorithm to perform optimal global sequence alignments.
Topics
Collections
Details
- Tool Type:
- api, web application
- Operating Systems:
- Mac, Linux, Windows
- Added:
- 11/3/2022
- Last Updated:
- 11/24/2024
Operations
Publications
Pearson WR. Searching protein sequence libraries: Comparison of the sensitivity and selectivity of the Smith-Waterman and FASTA algorithms. Genomics. 1991;11(3):635-650. doi:10.1016/0888-7543(91)90071-l.
Madeira F, Madhusoodanan N, Lee J, Eusebi A, Niewielska A, Tivey ARN, Lopez R, Butcher S. The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024. Nucleic Acids Research. 2024;52(W1):W521-W525. doi:10.1093/nar/gkae241. PMID:38597606. PMCID:PMC11223882.
Madeira F, Pearce M, Tivey ARN, Basutkar P, Lee J, Edbali O, Madhusoodanan N, Kolesnikov A, Lopez R. Search and sequence analysis tools services from EMBL-EBI in 2022. Nucleic Acids Research. 2022;50(W1):W276-W279. doi:10.1093/nar/gkac240. PMID:35412617. PMCID:PMC9252731.
Documentation
Downloads
- Source codehttps://github.com/wrpearson/fasta36