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A variety of software tools have been developed that allow scientists to view and share genome annotations, such as MAKER. Genome annotation is an active area of investigation and involves a number of different organizations in the life science community which publish the results of their efforts in publicly available biological databases ...
MANE (Matched Annotation from the NCBI and EMBL-EBI): It is a collaborative project between NCBI and EMBL-EBI whose main goal is to define a set of transcripts and their proteins for all the protein-coding genes in the human genome. By doing that, the differences in transcripts annotation between RefSeq and Ensembl/GENCODE annotation systems ...
BASys (Bacterial Annotation System) is a freely available web server that can be used to perform automated, comprehensive annotation of bacterial genomes. [2] With the advent of next generation DNA sequencing it is now possible to sequence the complete genome of a bacterium (typically ~4 million bases) within a single day.
Saccharomyces cerevisiae was the first eukaryotic organism to have its complete genome sequence determined.. This list of "sequenced" eukaryotic genomes contains all the eukaryotes known to have publicly available complete nuclear and organelle genome sequences that have been sequenced, assembled, annotated and published; draft genomes are not included, nor are organelle-only sequences.
The journal Nucleic Acids Research regularly publishes special issues on biological databases and has a list of such databases. The 2018 issue has a list of about 180 such databases and updates to previously described databases. [2] Omics Discovery Index can be used to browse and search several biological databases.
View all annotations created for a gene, for example pat1; View all genes annotated a term, for example cytokinesis; View all annotations created from a specific reference, for example 26776736 Chica et al. 2016; Genome-wide datasets (including protein datasets, all annotations, manually curated ortholog lists etc) can be accessed from the ...
The Gene Ontology (GO) is a major bioinformatics initiative to unify the representation of gene and gene product attributes across all species. [1] More specifically, the project aims to: 1) maintain and develop its controlled vocabulary of gene and gene product attributes; 2) annotate genes and gene products, and assimilate and disseminate annotation data; and 3) provide tools for easy access ...
Genome sequence annotations Location of genes and regulatory regions in the genome; Functional curation of gene products Discern functions fulfilled by the gene product by looking at a variety of data including Gene Ontology (GO) annotations, phenotypes, gene expression, pathway information; Protein/RNA sequence annotations; Anatomical information