Download uniref mapping file
Protein sequence classification with self-supervised pretraining - nstrodt/Udsmprot A bioinformatics pipeline for annotating functional capacities in shotgun metagenomic data with native compute cluster integration - borenstein-lab/Metalaffa Scripts and relevant processed data files for Boothby et al 2015 and Koutsovoulos et al 2015 tardigrade genome papers - sujaikumar/tardigrade The UniProt Reference Clusters (UniRef) consist of three databases of clustered sets of protein sequences from UniProtKB and selected UniParc records. The UniRef100 database combines identical sequences and sequence fragments (from any…
It should be noted that the Uniprot consortium distributes a set of already grouped sequences, called UniRef [63]. Each UniRef release groups together sequences with a specific sequence identity score: UniRef 90 for 90% SI, UniRef 50 for 50…
The alignments were downloaded on July 23, 2015 from UniRef at www.uniprot.org/help/uniref with query: [query:count:[2 TO *] length:[50 TO *] taxonomy:Homo sapiens (Human) [9606] Variants from genomic regions with read-depth variation greater or less than 50% of the genome-wide average (calculated in 10-kb windows) with mapping quality >30 were excluded. Clustering was done with hclust2 (https://bitbucket.org/nsegata/hclust2). Download Figure S4, TIF file, 0.9 MB. Rice research has been enabled by access to the high quality reference genome sequence generated in 2005 by the International Rice Genome Sequencing Project (Irgsp). To further facilitate genomic-enabled research, we have updated and…
Feature Improvement: Made the -out option non-mandatory, making it possible to, for example, only generate an mzid file as output.
A prototype service for performing gene homology searches - jgi-kbase/GeneHomologyPrototype In SNP annotation the biological information is extracted, collected and displayed in a clear form amenable to query. SNP functional annotation is typically performed based on the available information on nucleic acid and protein sequences. Modern biological research requires rapid, complex, and reproducible integration of multiple experimental results generated both internally and externally (e.g., from public repositories).
Cysteine peptidases of clan CA, family C1 account for a major part of proteolytic activity in the haematophagous monogenean Eudiplozoon nipponicum. The full spectrum of cysteine cathepsins is, however, unknown and their particular…
Assignment of function to new molecular sequence data is an essential step in genomics projects. The usual process involves similarity searches of a given sequence against one or more databases, an arduous process for large datasets. Taxonomic composition of oil spill simulation samples (6) based on relative abundance of ribosomal protein S3 genes. Abundance of Colwellia with repeat protein is indicated by stars. Feature Improvement: Made the -out option non-mandatory, making it possible to, for example, only generate an mzid file as output. It should be noted that the Uniprot consortium distributes a set of already grouped sequences, called UniRef [63]. Each UniRef release groups together sequences with a specific sequence identity score: UniRef 90 for 90% SI, UniRef 50 for 50…
16 Sep 2018 Extract Uniprot/Uniref sequence annotation from Stockholm file (as output Fetch data from UniProt ID mapping service (e.g. download set of
The MLST schemes feature minimum spanning tree and heat map Fixed an issue where the tool failed if several files containing contigs were used as a parameter. The UniRef90 and UniRef100 databases can no longer be downloaded. 16 Sep 2018 Extract Uniprot/Uniref sequence annotation from Stockholm file (as output Fetch data from UniProt ID mapping service (e.g. download set of 16 Jun 2005 AutoFACT takes a single FASTA-formatted sequence file as input, automatically recognizes the file [15]. GO terms are assigned by mapping the UniRef accession number of the informative hit via the Download references Functional Mapping and Analysis Pipeline for metagenomics and metatranscriptomics studies - jiwoongbio/FMAP Protein sequence classification with self-supervised pretraining - nstrodt/Udsmprot