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Acum 2 zile · Additionally, UniProt offers a suite of tools, including a BLAST tool for conducting sequence similarity searches [27, 78], a Clustal Omega alignment tool for sequence alignment [27, 79], and the retrieve/ID mapping tool facilitating the retrieval of proteins using identifiers and mapping between UniProt and other external databases [27, 80].
Acum 5 zile · The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches.
Acum 1 zi · Hi @Vittorio_lembo and welcome to the Open Targets Community!. You can use the following query to retrieve all the disease associated for a selected set of targets using their UniProt IDs on the GraphQL API playground:. query example{ mapIds(queryTerms: ["P37840", "P15056"]){ mappings{ hits{ id name object { ... on Target { id associatedDiseases { count rows { disease { id name } } } } } } } } }
Acum 4 zile · Conducting this query directly on UniProt yields 142 results, calreticulin comes second, the first result is calreticulin-3 (UniProt accession number Q9D9Q6). ... AlphaFill will search for structures that are homologous to the query one in the PDB by using BLAST . It will then filter the matches to keep only close homologs to the AF2 model, and ...
Acum 1 oră · The Lyase HMM was prepared as follows: (i) the first 170 residues of VenL (UniProt F2R8I9) were searched with BLASTP in the non-redundant NCBI protein database and (ii) matching regions were aligned using Clustal Omega , and the alignment searched with HMMsearch versus the reference proteomes.
Acum 1 zi · The interaction between vascular endothelial growth factor A (VEGFA) and VEGF receptor 1(VEGFR1) is a central focus for drug development in pathological angiogenesis, where aberrant angiogenesis underlies various anomalies necessitating therapeutic intervention. Identifying hotspots of these proteins is crucial for developing new therapeutics. Although machine learning techniques have ...
Acum 5 zile · Curating high-quality training and test datasets is a key to develop accurate deep learning methods for protein function prediction. Protein sequences and function labels are often sourced from the UniProt Knowledgebase (UniProtKB) . UniProtKB consists of two sections: UniProtKB/Swiss-Prot (reviewed, manually annotated proteins) and UniProtKB ...
