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The Reference Sequence (RefSeq) database [1] is an open access, annotated and curated collection of publicly available nucleotide sequences (DNA, RNA) and their protein products. RefSeq was introduced in 2000.
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The NCBI assigns a unique identifier (taxonomy ID number) to each species of organism. [5] The NCBI has software tools that are available through web browsers or by FTP. For example, BLAST is a sequence similarity searching program. BLAST can do sequence comparisons against the GenBank DNA database in less than 15 seconds.
FASTQ format is a text-based format for storing both a biological sequence (usually nucleotide sequence) and its corresponding quality scores.Both the sequence letter and quality score are each encoded with a single ASCII character for brevity.
These three databases are primary databases, as they house original sequence data. They collaborate with Sequence Read Archive (SRA), which archives raw reads from high-throughput sequencing instruments. Secondary databases are: [clarification needed] 23andMe's database; HapMap; OMIM (Online Mendelian Inheritance in Man): inherited diseases; RefSeq
The International Nucleotide Sequence Database Collaboration (INSDC) consists of a joint effort to collect and disseminate databases containing DNA and RNA sequences. [1] It involves the following computerized databases : NIG 's DNA Data Bank of Japan ( Japan ), NCBI 's GenBank ( USA ) and the EMBL - EBI 's European Nucleotide Archive ( EMBL ).
Reference annotations of genomes are available from various sources, each with their own independent goals and policies, which results in some annotation variation. The CCDS project was established to identify a gold standard set of protein-coding gene annotations that are identically annotated on the human and mouse reference genome assemblies ...
The 1-based position of the variation on the given sequence. 3: ID: The identifier of the variation, e.g. a dbSNP rs identifier, or if unknown a ".". Multiple identifiers should be separated by semi-colons without white-space. 4: REF: The reference base (or bases in the case of an indel) at the given position on the given reference sequence. 5: ALT