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  2. FASTA format - Wikipedia

    en.wikipedia.org/wiki/FASTA_format

    In bioinformatics and biochemistry, the FASTA format is a text-based format for representing either nucleotide sequences or amino acid (protein) sequences, in which nucleotides or amino acids are represented using single-letter codes. The format allows for sequence names and comments to precede the sequences.

  3. Hierarchical editing language for macromolecules - Wikipedia

    en.wikipedia.org/wiki/Hierarchical_Editing...

    Protein sequences can describe larger proteins and chemical language files such as mol files can describe simple peptides. But the complexity of new research biomolecules makes describing large complex molecules difficult with chemical formats, and peptide formats are not sufficiently flexible to describe non-natural amino acids and other ...

  4. Open reading frame - Wikipedia

    en.wikipedia.org/wiki/Open_reading_frame

    The output is the predicted peptide sequences in the FASTA format, and a definition line that includes the query ID, the translation reading frame and the nucleotide positions where the coding region begins and ends. OrfPredictor facilitates the annotation of EST-derived sequences, particularly, for large-scale EST projects.

  5. FASTA - Wikipedia

    en.wikipedia.org/wiki/FASTA

    The original FASTA program was designed for protein sequence similarity searching. Because of the exponentially expanding genetic information and the limited speed and memory of computers in the 1980s heuristic methods were introduced aligning a query sequence to entire data-bases.

  6. List of alignment visualization software - Wikipedia

    en.wikipedia.org/wiki/List_of_alignment...

    This page is a subsection of the list of sequence alignment software. Multiple alignment visualization tools typically serve four purposes: Aid general understanding of large-scale DNA or protein alignments; Visualize alignments for figures and publication; Manually edit and curate automatically generated alignments; Analysis in depth

  7. Proteome Analyst - Wikipedia

    en.wikipedia.org/wiki/Proteome_Analyst

    Proteome Analyst (PA) is a freely available web server and online toolkit for predicting protein subcellular localization, or where a protein resides in a cell. [1] [2] In the field of proteomics, accurately predicting a protein's subcellular localization, or where a specific protein is located inside a cell, is an important step in the large scale study of proteins.

  8. Superfamily database - Wikipedia

    en.wikipedia.org/wiki/Superfamily_database

    Sequence Search. Submit a protein or DNA sequence for SCOP superfamily and family level classification using the SUPERFAMILY HMM's. Sequences can be submitted either by raw input or by uploading a file, but all must be in FASTA format. Sequences can be amino acids, a fixed frame nucleotide sequence, or all frames of a submitted nucleotide sequence.

  9. Category:Biological sequence format - Wikipedia

    en.wikipedia.org/wiki/Category:Biological...

    Biological sequence formats are a collection of file formats that are used in the biomedical sciences. There are a number of these. There are a number of these. Most of these formats were developed for use in particular programmes and have subsequently been reused by other programmes.