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bioinformatics, a sequence database is a type of biological database that is composed of a large collection of computerized ("digital") nucleic acid sequences, protein
Sequence_database
Online database of integer sequences
The On-Line Encyclopedia of Integer Sequences (OEIS) is an online database of integer sequences. It was created and maintained by Neil Sloane while researching
On-Line Encyclopedia of Integer Sequences
On-Line_Encyclopedia_of_Integer_Sequences
Nucleotide Sequence Database Collaboration (INSDC) consists of a joint effort to collect and disseminate databases containing DNA and RNA sequences. It involves
International Nucleotide Sequence Database Collaboration
International_Nucleotide_Sequence_Database_Collaboration
Database branch of the US National Library of Medicine
sequences and PubMed, a bibliographic database for biomedical literature. Other databases include the NCBI Epigenomics database. All these databases are
National Center for Biotechnology Information
National_Center_for_Biotechnology_Information
between them. These three databases are primary databases, as they house original sequence data. They collaborate with Sequence Read Archive (SRA), which
List_of_biological_databases
Open access DNA sequence database
The GenBank sequence database is an open access, annotated collection of publicly available nucleotide sequences and their protein translations. GenBank
GenBank
Online database from the EBI on Nucleotides
is composed of three main databases: the Sequence Read Archive, the Trace Archive and the EMBL Nucleotide Sequence Database (also known as EMBL-bank)
European_Nucleotide_Archive
fragments.[citation needed] Thus, sequence database searching faces a bottleneck of limited specificity. Sequence database searching also demands vast search
Peptide_spectral_library
Database of DNA sequencing data
The Sequence Read Archive (SRA, previously known as the Short Read Archive) is a bioinformatics database that provides a public repository for DNA sequencing
Sequence_Read_Archive
Database of protein sequences and functional information
UniProt is a freely accessible database of protein sequence and functional information, many entries being derived from genome sequencing projects. It
UniProt
Bioinformatics search algorithm
nucleotide sequence (called a query) with a library or database of sequences, and identify database sequences that resemble the query sequence above a certain
BLAST_(biotechnology)
DNA located in mitochondria
specialized databases have been founded to collect mitochondrial genome sequences and other information. Although most of them focus on sequence data, some
Mitochondrial_DNA
Sequence database of DNA barcoding
needed to gain BARCODE designation in the international nucleotide sequence databases. Because of its web-based delivery and flexible data security model
Barcode_of_Life_Data_System
Database of biological information
sequences and structures. Biological databases can be classified by the kind of data they collect (see below). Broadly, there are molecular databases
Biological_database
Database of living reptile species
interface for the EMBL DNA sequence database which was also used as interface for the Reptile Database. In 2006, the database moved to The Institute of
Reptile_Database
Succession of nucleotides in a nucleic acid
A nucleic acid sequence is a succession of bases within the nucleotides forming alleles within a DNA (using GACT) or RNA (GACU) molecule. This succession
Nucleic_acid_sequence
Shared ancestry between DNA, RNA or protein sequences
pairwise sequence comparisons, and those that use phylogenetic methods. Sequence comparison methods were first pioneered in the COGs database in 1997.
Sequence_homology
(identical) sequences CluSTr: A single-linkage protein sequence clustering database from Smith-Waterman sequence similarities; covers over 7 mln sequences including
Sequence_clustering
Nucleotide Sequence Database Collaboration, a public database which can be searched on the web. A few of the listed genomes may not be in the INSDC database, but
List of sequenced bacterial genomes
List_of_sequenced_bacterial_genomes
Software package for sequence analysis
explicitly for a particular search) to either a single sequence or a database of sequences. Sequences that score significantly better to the profile-HMM compared
HMMER
Computational analysis of large, complex sets of biological data
Phage Φ-X174 was sequenced in 1977, the DNA sequences of thousands of organisms have been decoded and stored in databases. This sequence information is
Bioinformatics
DNA sequence database
The DNA Data Bank of Japan (DDBJ) is a biological database that collects DNA sequences. It is located at the National Institute of Genetics (NIG) in the
DNA_Data_Bank_of_Japan
American biologist
NCBI is the home of GenBank, the U.S. node of the International Sequence Database Consortium, and PubMed, one of the most heavily used sites in the
David_J._Lipman
PSSRdb (Polymorphic Simple Sequence Repeats database) is a database of polymorphic simple sequence repeats sequence repeats Kumar, Pankaj; Chaitanya Pasumarthy
Polymorphic simple sequence repeats database
Polymorphic_simple_sequence_repeats_database
Biochemical method in mass spectrometry
recognize novel peptides since it can only match to existing sequences in the database. De novo sequencing is an assignment of fragment ions from a mass
De_novo_peptide_sequencing
broad classes: database search and de novo search. The former search takes place against a database containing all amino acid sequences assumed to be present
List of mass spectrometry software
List_of_mass_spectrometry_software
Visual representation of database system relationships
triggers, types, sequences, materialized views, synonyms, database links, directories, XML schemas, and other elements. A database generally stores its
Database_schema
Mathematical concept
A sequence number is a consecutive number in a sequence of numbers, usually of real integers (natural numbers). Sequence numbers have many practical applications
Sequence_number
Process in bioinformatics that identifies equivalent sites within molecular sequences
In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence
Sequence_alignment
Similar DNA, RNA or protein sequences within genomes or among species
searching for more distantly related sequences. Input sequences are then aligned against a database of sequences from related individuals or other species
Conserved_sequence
proteomic research, and scientific studies. It contains protein sequences databases PIR was established in 1984 by the National Biomedical Research Foundation
Protein_Information_Resource
Biological database
structure of the database is clear to be 1) Type: antibiotic type 2) Subtype: genotype 3) Sequence: reference sequence. The SARG database helps in quick
SARG_database
Science fiction series by Stephen Baxter
The Xeelee Sequence (/ˈziːliː/; ZEE-lee) is a series of hard science fiction novels, novellas, and short stories written by British author Stephen Baxter
Xeelee_Sequence
Cross-database search engine for health sciences
access to all databases simultaneously with a single query string and user interface. Entrez can efficiently retrieve related sequences, structures, and
Entrez
Nonprofit organisation
patent databases including CAS REGISTRY and CAplus, INSPEC, Compendex, Derwent World Patents Index, INPADOC, the USPTO Genetic Sequence Database (USGENE)
FIZ_Karlsruhe
protein against a DNA sequence allowing frameshifts and introns FastY - compare a DNA sequence to a protein sequence database, allowing gaps and frameshifts
Slippery_sequence
contain sequence information and some databases even provide means for performing sequence based queries, the primary attribute of a structure database is
Protein_structure_database
Topics referred to by the same term
Protein database may refer to: Any protein structure database Any protein sequence database Exact names "Protein" database of the National Institute of
Protein_database
Self-stable region of a protein's chain that folds independently from the rest
classified into 26 homologous families in the CATH domain database. The TIM barrel is formed from a sequence of β-α-β motifs closed by the first and last strand
Protein_domain
Continuous band of stars that appears on plots of stellar color versus brightness
In astronomy, the main sequence is a classification of stars which appear on plots of stellar color versus brightness as a continuous and distinctive band
Main_sequence
list of sequence alignment software is a compilation of software tools and web portals used in pairwise sequence alignment and multiple sequence alignment
List of sequence alignment software
List_of_sequence_alignment_software
Defined object used to store or reference data
is queried Synonyms, alternate names for a table, view, sequence or other object in a database Stored procedures and user-defined functions Triggers, procedures
Database_object
Biological database of proteins
(SCOP) database is a largely manual classification of protein structural domains based on similarities of their structures and amino acid sequences. A motivation
Structural Classification of Proteins database
Structural_Classification_of_Proteins_database
Digital nucleic acid sequence database
reference genome is a genome assembly that represents the complete genetic sequence of an organism as a continuous string of nucleotides (A, T, C, and G).
Reference_genome
Centre for research
often nucleotide sequence of DNA/RN, and amino acid sequence of proteins, stored in the bioinformatic databases, with the query sequence. The algorithm
European Bioinformatics Institute
European_Bioinformatics_Institute
Database containing reference sequences of genes, proteins and transcripts
The Reference Sequence (RefSeq) database is an open access, annotated and curated collection of publicly available nucleotide sequences (DNA, RNA) and
RefSeq
PANDIT is a database of multiple sequence alignments and phylogenetic trees covering many common protein domains. Pfam: database of protein domains Phylogeny
PANDIT_(database)
DNA and protein sequence alignment software package
amino acid sequence and searches a corresponding sequence database by using local sequence alignment to find matches of similar database sequences. The FASTA
FASTA
File format for DNA or protein sequences
the sequence (SeqID) in the header line. This allows a sequence that was obtained from a database to be labelled with a reference to its database record
FASTA_format
History of actions executed by a database management system
In the field of databases in computer science, a transaction log (also transaction journal, database log, binary log or audit trail) is a history of actions
Transaction_log
Set of data elements in databases
In a database, a table is a collection of related data organized in table format (consisting of columns and rows). In relational databases, and flat file
Table_(database)
Occurrence in an interbreeding population of two or more discontinuous genotypes
(KEGG), GenBank, and other parts of the International Nucleotide Sequence Database Collaboration have become crucial in Personalized medicine, bioinformatics
Gene_polymorphism
Genes on human chromosome 6
Beyond the Double Helix. London: Granada. ISBN 0-246-11760-5. IMGT/HLA Sequence Database at European Bioinformatics Institute hla.alleles.org HLA Informatics
Human_leukocyte_antigen
Database at Stanford University that tracks mutations of HIV
HIV Drug Resistance Database, also known as Stanford HIV RT and Protease Sequence Database, is a database at Stanford University that tracks 93 common
HIV_Drug_Resistance_Database
Software for understanding biological data
convert a multiple sequence alignment into a position-specific scoring system suitable for searching databases for homologous sequences remotely. Additionally
Machine learning in bioinformatics
Machine_learning_in_bioinformatics
Algorithm used in data compression
Fournier-Viger P, Puglisi SJ, Raman R (2019). "Succinct BWT-Based Sequence Prediction". Database and Expert Systems Applications. Lecture Notes in Computer Science
Burrows–Wheeler_transform
Pairwise sequence alignment algorithm
and protein databases for similarities to a query sequence. It does this by keeping an indexed list (hash table) of the target database in memory, which
BLAT_(bioinformatics)
Topics referred to by the same term
Bold (EP), by Mary Lambert, 2017 Barcode of Life Data System, a DNA sequence database Blood-oxygen-level dependent, a method used in functional magnetic
Bold
Database of histone sequences
The Histone Database is a comprehensive database of histone protein sequences including histone variants, classified by histone types and variants, maintained
Histone_Database
(including drawings, sketches and illustrations) animation sequences, audio and video. A Multimedia Database Management System (MMDBMS) is a framework that manages
Multimedia_database
Biological database
FREP is a database of mouse repeat sequences derived from cDNAs Repeated sequence (DNA) Nagashima T, Matsuda H, Silva DG, Petrovsky N, Konagaya A, Schönbach
FREP
Online database of non-coding RNA and other RNA elements
Rfam database can be used for a variety of functions. For each ncRNA family, the interface allows users to: view and download multiple sequence alignments;
Rfam
Artificial intelligence program by DeepMind
represented as multiple sequence alignments and Hidden Markov models, covering 2,204,359,010 protein sequences from reference databases, metagenomes, and metatranscriptomes
AlphaFold
Tools for the analysis of biomolecules
GLAM2 motif in a sequence database. Motif Alignment & Search Tool (MAST) is a tool for searching biological sequence databases for sequences that contain
MEME_suite
sensitive protein sequence searching. It contains programs that can search for similar protein sequences in protein sequence databases. Sequence searches are
HH-suite
Database of protein families
Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. The latest
Pfam
Biological database
The Conserved Domain Database (CDD) is a database of well-annotated multiple sequence alignment models and derived database search models, for ancient
Conserved_Domain_Database
Identification and study of genomic sequences
gene and protein sequences, the rate of addition of new sequences to the databases increased very rapidly. Such a collection of sequences does not, by itself
Sequence_analysis
Topics referred to by the same term
identifier given to a biological polymer sequence (DNA, protein) when it is submitted to a sequence database Accession (Star Trek: Deep Space Nine) Accession
Accession
genomic DNA. The amplified product can then be sequenced and compared with DNA databases to locate the sequence which has been disrupted. The inverse PCR method
Inverse polymerase chain reaction
Inverse_polymerase_chain_reaction
Alternate name for a table, view, sequence, or other schema object in a database
In databases, a synonym is an alias or alternate name for a table, view, sequence, or other schema object. They are used mainly to make it intuitive for
Synonym_(database)
PubMed. FASTA sequence is also available for sequence analysis using sites such as BLAST. Specific uses available to Autophagy database and Human autophagy
Autophagy_database
Database in which records or objects are found by following references from other objects
A navigational database is a type of database in which records or objects are found primarily by following references from other objects. The term was
Navigational_database
Biological database
when the curated reference sequence is compared by BLAST against CARD itself and against GenBank's non-redundant database, with hand inspection to determine
Comprehensive Antibiotic Resistance Database
Comprehensive_Antibiotic_Resistance_Database
(NAPP) is a database of coding and non-coding sequences according to their pattern of conservation across the other genomes. Conserved sequence Ott, Alban;
NAPP_(database)
Type of database
identify a certain sequence within the GenBank or to find the similarities between two sequences. A medical DNA database is a DNA database of medically relevant
DNA_database
Class of large biomolecules essential to all known life
laboratories worldwide. In addition to maintaining the GenBank nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides
Nucleic_acid
Algorithm for determining similar regions between two molecular sequences
performs local sequence alignment; that is, for determining similar regions between two strings of nucleic acid sequences or protein sequences. Instead of
Smith–Waterman_algorithm
British genomics research institute
Rfam, an RNA family database TreeFam, a database of phylogenetic trees for animal genes WormBase, a database on the biology and sequence of the model organism
Wellcome_Sanger_Institute
EzTaxon database is a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. EzTaxon is an open access database that
EzTaxon_Database
Sequential Pattern algorithm) is an algorithm used for sequence mining. The algorithms for solving sequence mining problems are mostly based on the apriori (level-wise)
GSP_algorithm
Linear sequence of amino acids in a peptide or protein
Peptides can be directly sequenced, or inferred from DNA sequences. Large sequence databases now exist that collate known protein sequences. In general, polypeptides
Protein_primary_structure
All genetic material of an organism
complete genome sequences is growing rapidly. The US National Institutes of Health maintains one of several comprehensive databases of genomic information
Genome
peptide in a database. Briefly, a couple of masses are extracted from the spectrum in order to obtain the peptide sequence tag. This peptide sequence tag is
Peptide_sequence_tag
as a DNA, RNA, or protein sequence or ‘keyword’ and search one or more databases for information related to that sequence. Summaries and aggregate results
Sequence_profiling_tool
Analytical technique for protein identification
have to be known. A disadvantage is that the protein sequence has to be present in the database of interest. Additionally most PMF algorithms assume that
Peptide_mass_fingerprinting
against a sequence database with commercially available software (e.g. Sequest or Mascot). Examples of sequence databases are the Genpept database or the
Shotgun_proteomics
Protein identification software
that uses mass spectrometry data to identify proteins from peptide sequence databases. Mascot is widely used by research facilities around the world. Mascot
Mascot_(software)
annotated and deposited in public databases. Methanococcus jannaschii was the first archaeon whose genome was sequenced, in 1996. Currently in this list
List of sequenced archaeal genomes
List_of_sequenced_archaeal_genomes
DNA section marked with start and stop codon of different length
reading frames of a selectable minimum size in a user's sequence or in a sequence already in the database. This tool identifies all open reading frames using
Open_reading_frame
Database systems concept
In computer science, a database cursor is a mechanism that enables traversal over the records in a database. Cursors facilitate processing in conjunction
Cursor_(databases)
Recovery algorithm
restarts. The ARIES algorithm relies on logging of all database operations with ascending Sequence Numbers. Usually the resulting logfile is stored on so-called
Algorithms for Recovery and Isolation Exploiting Semantics
Algorithms_for_Recovery_and_Isolation_Exploiting_Semantics
Open source database
Peter E.M. (2008). "Improving sequence variant descriptions in mutation databases and literature using the Mutalyzer sequence variation nomenclature checker"
Leiden Open Variation Database
Leiden_Open_Variation_Database
SUPERFAMILY is a database and search platform of structural and functional annotation for all proteins and genomes. It classifies amino acid sequences into known
Superfamily_database
Topics referred to by the same term
identifier given to a biological polymer sequence (DNA, protein) when it is submitted to a sequence database Accession number (cultural property), a unique
Accession_number
Data mining technique
building efficient databases and indexes for sequence information, extracting the frequently occurring patterns, comparing sequences for similarity, and
Sequential_pattern_mining
Three-dimensional arrangement of atoms in an amino acid-chain molecule
contain sequence information and some databases even provide means for performing sequence based queries, the primary attribute of a structure database is
Protein_structure
The CATH Protein Structure Classification database is a free, publicly available online resource that provides information on the evolutionary relationships
CATH_database
Mutation that shifts codon alignment
protein against a DNA sequence allowing frameshifts and introns FastY - compare a DNA sequence to a protein sequence database, allowing gaps and frameshifts
Frameshift_mutation
(Operon DataBase) is a database of conserved operons in sequenced genomes. Operon Okuda, Shujiro; Yoshizawa Akiyasu C (Jan 2011). "ODB: a database for operon
Operon_database
SEQUENCE DATABASE
SEQUENCE DATABASE
Girl/Female
Tamil
Line, Sentence
Girl/Female
Biblical
A dividing, a sentence.
Biblical
a dividing; a sentence
Girl/Female
Hindu
Line, Sentence
Boy/Male
Indian, Sikh
Music; In-sequence
Girl/Female
Tamil
Anuloma | அநà¯à®²à¯‹à®®à®¾
Sequence
Anuloma | அநà¯à®²à¯‹à®®à®¾
Boy/Male
Tamil
Symbol, First word in a sentence
Girl/Female
Bengali, Gujarati, Hindu, Indian, Kannada, Malayalam, Marathi, Sanskrit, Telugu
Sequence
Boy/Male
Indian, Sanskrit
Order; Sequence
Girl/Female
Hindu
Line, Sentence
Girl/Female
Hindu, Indian
Sentence
Biblical
dividing, sentence
Boy/Male
Tamil
Sentence
Girl/Female
Indian
Sentence, Writing, Essay
Girl/Female
Tamil
Line, Sentence
Boy/Male
Hindu
Sentence
Boy/Male
Tamil
Symbol, First word in a sentence
Girl/Female
Biblical
Dividing, sentence.
Girl/Female
Muslim
Sentence, Writing, Essay
Girl/Female
Indian, Sanskrit
Sentence
SEQUENCE DATABASE
SEQUENCE DATABASE
Male
Spanish
Spanish form of Latin Pius, PÃO means "pious."
Surname or Lastname
English
English : patronymic from Foulks.
Male
Egyptian
, Intelligence.
Boy/Male
Hindu
Sri Hari, Beloved of Sri
Boy/Male
Anglo, Australian, British, English, German
Greatest
Boy/Male
British, English, Hindu, Indian, Kannada, Tamil, Telugu
Youthful
Boy/Male
Australian, Latin, Swedish
French Man; A Man Form France
Boy/Male
Tamil
Ameyaatmaa | அமயாதà¯à®®à®¾à®‚
Manifests in infinite varieties, Lord Vishnu
Girl/Female
Hindu
Boy/Male
Indian
Beloved, Lover
SEQUENCE DATABASE
SEQUENCE DATABASE
SEQUENCE DATABASE
SEQUENCE DATABASE
SEQUENCE DATABASE
a.
Lacking grammatical sequence.
pl.
of Sequela
n.
A want of grammatical sequence or coherence in a sentence; an instance of a change of construction in a sentence so that the latter part does not syntactically correspond with the first part.
n.
The state of being sequent; succession; order of following; arrangement.
n.
Three or more cards of the same suit in immediately consecutive order of value; as, ace, king, and queen; or knave, ten, nine, and eight.
v. t.
To decree or announce as a sentence.
v. t.
To utter sententiously.
n.
A combination of words which is complete as expressing a thought, and in writing is marked at the close by a period, or full point. See Proposition, 4.
imp. & p. p.
of Sentence
n.
A melodic phrase or passage successively repeated one tone higher; a rosalia.
adv.
In natural sequence; consequently; so.
n.
A hymn introduced in the Mass on certain festival days, and recited or sung immediately before the gospel, and after the gradual or introit, whence the name.
n.
All five cards, of a hand, in consecutive order as to value, but not necessarily of the same suit; when of one suit, it is called a sequence flush.
n.
A going before; anticipation in sequence or order.
n.
That which follows or succeeds as an effect; sequel; consequence; result.
p. pr. & vb. n.
of Sentence
n.
Simple succession, or the coming after in time, without asserting or implying causative energy; as, the reactions of chemical agents may be conceived as merely invariable sequences.
v. t.
To pass or pronounce judgment upon; to doom; to condemn to punishment; to prescribe the punishment of.
n.
Any succession of chords (or harmonic phrase) rising or falling by the regular diatonic degrees in the same scale; a succession of similar harmonic steps.
n.
That which follows as a result; a sequence.