Databases, Bibliographic: Extensive collections, reputedly complete, of references and citations to books, articles, publications, etc., generally on a single subject or specialized subject area. Databases can operate through automated files, libraries, or computer disks. The concept should be differentiated from DATABASES, FACTUAL which is used for collections of data and facts apart from bibliographic references to them.Databases, Factual: Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.Databases, Genetic: Databases devoted to knowledge about specific genes and gene products.Databases as Topic: Organized collections of computer records, standardized in format and content, that are stored in any of a variety of computer-readable modes. They are the basic sets of data from which computer-readable files are created. (from ALA Glossary of Library and Information Science, 1983)Databases, Protein: Databases containing information about PROTEINS such as AMINO ACID SEQUENCE; PROTEIN CONFORMATION; and other properties.Databases, Nucleic Acid: Databases containing information about NUCLEIC ACIDS such as BASE SEQUENCE; SNPS; NUCLEIC ACID CONFORMATION; and other properties. Information about the DNA fragments kept in a GENE LIBRARY or GENOMIC LIBRARY is often maintained in DNA databases.Information Storage and Retrieval: Organized activities related to the storage, location, search, and retrieval of information.Internet: A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange.Enzymes: Biological molecules that possess catalytic activity. They may occur naturally or be synthetically created. Enzymes are usually proteins, however CATALYTIC RNA and CATALYTIC DNA molecules have also been identified.Kinetics: The rate dynamics in chemical or physical systems.Vanilla: A plant genus of the family ORCHIDACEAE that is the source of the familiar flavoring used in foods and medicines (FLAVORING AGENTS).Nitrophenylgalactosides: Includes ortho-, meta-, and para-nitrophenylgalactosides.Paeonia: A plant genus of the family Paeoniaceae, order Dilleniales, subclass Dilleniidae, class Magnoliopsida. These perennial herbs are up to 2 m (6') tall. Leaves are alternate and are divided into three lobes, each lobe being further divided into three smaller lobes. The large flowers are symmetrical, bisexual, have 5 sepals, 5 petals (sometimes 10), and many stamens.Models, Chemical: Theoretical representations that simulate the behavior or activity of chemical processes or phenomena; includes the use of mathematical equations, computers, and other electronic equipment.Solubility: The ability of a substance to be dissolved, i.e. to form a solution with another substance. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed)Directories as Topic: Lists of persons or organizations, systematically arranged, usually in alphabetic or classed order, giving address, affiliations, etc., for individuals, and giving address, officers, functions, and similar data for organizations. (ALA Glossary of Library and Information Science, 1983)United States Department of Agriculture: A cabinet department in the Executive Branch of the United States Government concerned with improving and maintaining farm income and developing and expanding markets for agricultural products. Through inspection and grading services it safeguards and insures standards of quality in food supply and production.Cell Adhesion: Adherence of cells to surfaces or to other cells.Reference Standards: A basis of value established for the measure of quantity, weight, extent or quality, e.g. weight standards, standard solutions, methods, techniques, and procedures used in diagnosis and therapy.DirectoryCell Adhesion Molecules: Surface ligands, usually glycoproteins, that mediate cell-to-cell adhesion. Their functions include the assembly and interconnection of various vertebrate systems, as well as maintenance of tissue integration, wound healing, morphogenic movements, cellular migrations, and metastasis.Integrins: A family of transmembrane glycoproteins (MEMBRANE GLYCOPROTEINS) consisting of noncovalent heterodimers. They interact with a wide variety of ligands including EXTRACELLULAR MATRIX PROTEINS; COMPLEMENT, and other cells, while their intracellular domains interact with the CYTOSKELETON. The integrins consist of at least three identified families: the cytoadhesin receptors(RECEPTORS, CYTOADHESIN), the leukocyte adhesion receptors (RECEPTORS, LEUKOCYTE ADHESION), and the VERY LATE ANTIGEN RECEPTORS. Each family contains a common beta-subunit (INTEGRIN BETA CHAINS) combined with one or more distinct alpha-subunits (INTEGRIN ALPHA CHAINS). These receptors participate in cell-matrix and cell-cell adhesion in many physiologically important processes, including embryological development; HEMOSTASIS; THROMBOSIS; WOUND HEALING; immune and nonimmune defense mechanisms; and oncogenic transformation.Encyclopedias as Topic: Works containing information articles on subjects in every field of knowledge, usually arranged in alphabetical order, or a similar work limited to a special field or subject. (From The ALA Glossary of Library and Information Science, 1983)Metabolic Networks and Pathways: Complex sets of enzymatic reactions connected to each other via their product and substrate metabolites.Metabolomics: The systematic identification and quantitation of all the metabolic products of a cell, tissue, organ, or organism under varying conditions. The METABOLOME of a cell or organism is a dynamic collection of metabolites which represent its net response to current conditions.Molecular Biology: A discipline concerned with studying biological phenomena in terms of the chemical and physical interactions of molecules.Ethanolaminephosphotransferase: An enzyme that catalyzes reversibly the transfer of phosphoethanolamine from CDP-ethanolamine to diacylglycerol to yield phosphatidylethanolamine (cephalin) and CMP. The enzyme is found in the endoplasmic reticulum. EC 2.7.8.1.Shigella flexneri: A bacterium which is one of the etiologic agents of bacillary dysentery (DYSENTERY, BACILLARY) and sometimes of infantile gastroenteritis.Dysentery, Bacillary: DYSENTERY caused by gram-negative rod-shaped enteric bacteria (ENTEROBACTERIACEAE), most often by the genus SHIGELLA. Shigella dysentery, Shigellosis, is classified into subgroups according to syndrome severity and the infectious species. Group A: SHIGELLA DYSENTERIAE (severest); Group B: SHIGELLA FLEXNERI; Group C: SHIGELLA BOYDII; and Group D: SHIGELLA SONNEI (mildest).Rhamnose: A methylpentose whose L- isomer is found naturally in many plant glycosides and some gram-negative bacterial lipopolysaccharides.Sporosarcina: A genus of endospore-forming bacteria in the family Planococcaceae. The species are strict or facultative anerobes.O Antigens: The lipopolysaccharide-protein somatic antigens, usually from gram-negative bacteria, important in the serological classification of enteric bacilli. The O-specific chains determine the specificity of the O antigens of a given serotype. O antigens are the immunodominant part of the lipopolysaccharide molecule in the intact bacterial cell. (From Singleton & Sainsbury, Dictionary of Microbiology and Molecular Biology, 2d ed)Dysentery: Acute inflammation of the intestine associated with infectious DIARRHEA of various etiologies, generally acquired by eating contaminated food containing TOXINS, BIOLOGICAL derived from BACTERIA or other microorganisms. Dysentery is characterized initially by watery FECES then by bloody mucoid stools. It is often associated with ABDOMINAL PAIN; FEVER; and DEHYDRATION.Torture: The intentional infliction of physical or mental suffering upon an individual or individuals, including the torture of animals.PubMed: A bibliographic database that includes MEDLINE as its primary subset. It is produced by the National Center for Biotechnology Information (NCBI), part of the NATIONAL LIBRARY OF MEDICINE. PubMed, which is searchable through NLM's Web site, also includes access to additional citations to selected life sciences journals not in MEDLINE, and links to other resources such as the full-text of articles at participating publishers' Web sites, NCBI's molecular biology databases, and PubMed Central.Newspapers: Publications printed and distributed daily, weekly, or at some other regular and usually short interval, containing news, articles of opinion (as editorials and letters), features, advertising, and announcements of current interest. (Webster's 3d ed)User-Computer Interface: The portion of an interactive computer program that issues messages to and receives commands from a user.Abbreviations as Topic: Shortened forms of written words or phrases used for brevity.Posters as Topic: Single or multi-sheet notices made to attract attention to events, activities, causes, goods, or services. They are for display, usually in a public place and are chiefly pictorial.Abstracting and Indexing as Topic: Activities performed to identify concepts and aspects of published information and research reports.Periodicals as Topic: A publication issued at stated, more or less regular, intervals.Dictionaries as Topic: Lists of words, usually in alphabetical order, giving information about form, pronunciation, etymology, grammar, and meaning.Abbreviations: Works consisting of lists of shortened forms of written words or phrases used for brevity. Acronyms are included here.Economics, Pharmaceutical: Economic aspects of the fields of pharmacy and pharmacology as they apply to the development and study of medical economics in rational drug therapy and the impact of pharmaceuticals on the cost of medical care. Pharmaceutical economics also includes the economic considerations of the pharmaceutical care delivery system and in drug prescribing, particularly of cost-benefit values. (From J Res Pharm Econ 1989;1(1); PharmacoEcon 1992;1(1))Drug Industry: That segment of commercial enterprise devoted to the design, development, and manufacture of chemical products for use in the diagnosis and treatment of disease, disability, or other dysfunction, or to improve function.High-Throughput Nucleotide Sequencing: Techniques of nucleotide sequence analysis that increase the range, complexity, sensitivity, and accuracy of results by greatly increasing the scale of operations and thus the number of nucleotides, and the number of copies of each nucleotide sequenced. The sequencing may be done by analysis of the synthesis or ligation products, hybridization to preexisting sequences, etc.Gene Expression Profiling: The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.Antigen-Antibody Complex: The complex formed by the binding of antigen and antibody molecules. The deposition of large antigen-antibody complexes leading to tissue damage causes IMMUNE COMPLEX DISEASES.Sequence Analysis, DNA: A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.Pharmaceutical Preparations: Drugs intended for human or veterinary use, presented in their finished dosage form. Included here are materials used in the preparation and/or formulation of the finished dosage form.LondonDatabase Management Systems: Software designed to store, manipulate, manage, and control data for specific uses.Software: Sequential operating programs and data which instruct the functioning of a digital computer.Eagles: Large members of the FALCONIFORMES order of birds, family Accipitridae, most especially the genera Aquila, Haliaeetus, Harpia, and Circaetus. They are characterized by their powerful talons, which carry long, curved, pointed claws and by their opposable hindtoe.
The data in the database is manually curated from the scientific literature, and covers all domains of life. MetaCyc has ... MetaCyc data on metabolites includes chemical structures, predicted Standard energy of formation, and links to external ... MetaCyc is used as a reference data set for computationally predicting the metabolic network of organisms from their sequenced ... The MetaCyc database is one of the largest metabolic pathways and enzymes databases currently available. ...
... sequence database (GenBank) Protein: sequence database Genome: whole genome sequences and mapping Structure: three-dimensional ... high-throughput sequencing data Cancer Chromosomes: cytogenetic databases PubChem BioAssay: bioactivity screens of chemical ... Entrez searches the following databases: PubMed: biomedical literature citations and abstracts, including Medline - articles ... unique small molecule chemical structures PubChem Substance: deposited chemical substance records Genome Project: genome ...
Chemical literature databases correlate structures or other chemical information to relevant references such as academic papers ... Large molecules such as proteins are however more compactly represented using the sequences of their amino acid building blocks ... A chemical database is a database specifically designed to store chemical information. This information is about chemical and ... Chemical databases are particularly different from other general purpose databases in their support for sub-structure search. ...
The HMDB supports a wide variety of online queries including text searches, chemical structure searches, sequence similarity ... The Yeast Metabolome Database is a freely accessible, online database of >2000 small molecule metabolites found in or produced ... as well as extensive literature mining. According to their data, the human serum metabolome contains at least 4200 different ... The YMDB supports a wide variety of queries including text searches, chemical structure searches, sequence similarity searches ...
T3DB is fully searchable and supports extensive text, sequence, chemical structure, relational query and spectral searches. It ... and scientific literature. The primary focus of the T3DB is on providing mechanisms of toxicity and identifying target proteins ... The Toxin and Toxin-Target Database (T3DB), also known as the Toxic Exposome Database, is a freely accessible online database ... While a number of other toxic compound databases do exist, their emphasis is on covering large numbers of chemical compounds ...
Furthermore, cross-references to external information resources such as sequence and 3D-structure databases, as well as ... Links to the literature are established with PubMed. BRENDA links to some further databases and repositories such as: BRENDA ... synonyms or via the chemical structure. The term "ligand" is used in this context to all low molecular weight compounds which ... These text-mining results were derived from the titles and abstracts of all articles in the literature database PubMed. Data ...
Databases. *Sequence databases: GenBank, European Nucleotide Archive and DNA Data Bank of Japan. ... What began as a modest task of abstracting information from literature soon became a major database activity with direct ... Chemical Entities of Biological Interest (ChEBI) - database and ontology of molecular entities ... organisation and dissemination of data on biological macromolecular structures ...
It also provides enzyme mini-reviews and literature references. MetaCyc data on metabolites includes chemical structures, ... "The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases". Nucleic Acids ... include use as a reference data set for computationally predicting the metabolic pathways of organisms from their sequenced ... The MetaCyc database contains extensive information on metabolic pathways and enzymes from many organisms. MetaCyc data cover ...
Protein: sequence database. *Genome: whole genome sequences and mapping. *Structure: three-dimensional macromolecular ... Databases[edit]. Entrez searches the following databases: *PubMed: biomedical literature citations and abstracts, including ... Cancer Chromosomes: cytogenetic databases. *PubChem BioAssay: bioactivity screens of chemical substances. *Probe: sequence- ... Entrez can efficiently retrieve related sequences, structures, and references. The Entrez system can provide views of gene and ...
Chemical Substances Academic publishing Beilstein Registry Number Chemical database Chemical file format Dictionary of chemical ... Frequently these are arcane and constructed according to regional naming conventions relating to chemical formulae, structures ... to every chemical substance described in the open scientific literature (currently including all substances described from 1957 ... It currently identifies more than 129 million organic and inorganic substances and 67 million protein and DNA sequences, plus ...
... structure and functional databases. Nucleic acid and protein sequences are stored in sequence databases and structure databases ... a database of biological databases) NCBI PubMed (a database of biomedical literature) Death Domain database Szklarczyk D; ... Model Organism Databases Gene Disease Database Biobank Biological data Chemical database European Bioinformatics Institute ... Primary Databases and Secondary Databases. These two differ in their archive structure. Primary databases often hold only one ...
Metathesaurus concepts can also link to resources outside of the database, for instance gene sequence databases. Each concept ... The major semantic types are organisms, anatomical structures, biologic function, chemicals, events, physical objects, and ... Often this is a problem due to the large volume of documents retrieved when the medical literature is searched. The purpose of ... UMLS consists of Knowledge Sources (databases) and a set of software tools. The UMLS was designed and is maintained by the US ...
Its collection of domain models utilizes 3D structure to provide insights into sequence/structure/function relationships. ... ENZYME has direct links to other gene/enzyme/literature databases such as KEGG, BRENDA, and PUBMED. BRENDA: A comprehensive ... Information about the chemical reactions of metabolism and the genetic background of various metabolic properties (sequence to ... Several inconsistencies exist between gene, enzyme, reaction databases, and published literature sources regarding the ...
cDNA sequence and structure/function relationships". European Journal of Biochemistry / FEBS. 224 (2): 549-57. doi:10.1111/j. ... to a Medline literature search about the enzyme, and to entries in other databases. Molecular and Cellular Biology portal. ... as revealed in crystallographic structures, which has been studied computationally with quantum chemical as well as with ... ADH was also one of the first oligomeric enzymes that had its amino acid sequence and three-dimensional structure determined. ...
A huge data base is present in literature regarding its sedimentary evolution, in studies by French and Swiss research groups. ... The structure and technical details which define the Project(van Dijk 2011) were described in a Work Plan which was written in ... A new sequence stratigraphic scheme was built based on the field work, 25 sections were logged in detail (see e.g. (Cippolari ... The chemical characteristics of this oil was previously and extensively studies by Eni experts, and compared with source rocks ...
Database of kinase structure-activity and chemical synthesis data. Kinase.Com: Genomics, evolution and large-scale analysis of ... "Protein kinase catalytic domain sequence database: identification of conserved features of primary structure and classification ... The Protein Kinase Ontology (ProKinO): A unified protein kinase resource The literature-curated human signaling network, the ... Curated database of protein kinase structures and related data Human and mouse protein kinases: classification and index The ...
Many databases exist, covering various information types: for example, DNA and protein sequences, molecular structures, ... the study of chemical processes in biological systems). Computers became essential in molecular biology when protein sequences ... Literature analysis aims to employ computational and statistical linguistics to mine this growing library of text resources. ... The amino acid sequence of a protein, the so-called primary structure, can be easily determined from the sequence on the gene ...
In AntigenDB, a database entry contains information regarding the sequence, structure, origin, etc. of an antigen with ... It is a compilation of sequence data after extensive manual literature search and from publicly available databases. HMRbase ... OSDDchem: OSDDChem chemical database is an open repository of information on synthesised, semi-synthesized, natural and ... It is a manually curated database where most of data has been collected from PubMed and PubMed Central literature databases. ...
FIZ Karlsruhe PubChem ChemSpider Chemical database Beilstein database Inorganic Crystal Structure Database "CAS Printed ... The database is updated quarterly. Beyond CASSI lists abbreviated journal titles from early chemical literature and other ... The sequence information comes from CAS and GenBank, produced by the National Institutes of Health. The chemical information is ... and graphic representation of its chemical structure. The assignment of chemical names is done according to the chemical ...
Human Protein Reference Database, MINT - Molecular Interaction database, MIPS - Munich Information center for Protein Sequences ... With RNA interference, it is possible to distill the inferences contained in the experimental literature and primary databases ... and to the assembly of structured knowledge repositories. Data repositories, which contain information regarding sequence data ... A biochemical cascade, also known as a signaling cascade or signaling pathway, is a series of chemical reactions which are ...
Molander, Gary A.; Harris, Christina R. (1 January 1996). "Sequencing Reactions with Samarium(II) Iodide". Chemical Reviews. 96 ... all have the same UB4 structure. The structure has a boron sub-lattice consists of chains of octahedral B6 clusters linked by ... In the older literature, the name "lanthanon" was often used. Gray, Theodore (2009). The Elements: A Visual Exploration of ... ISBN 978-3-540-00494-3. Pettit, L. and Powell, K. SC-database. Acadsoft.co.uk. Retrieved on 2012-01-15. ...
Bender, A (2010). "Databases: Compound bioactivities go public". Nature Chemical Biology. 6: 309. doi:10.1038/nchembio.354. ... The system incorporates and links sequence, structure, compounds and screening data. GPCR SARfari is a similar workbench ... 2011). "Collation and data-mining of literature bioactivity data for drug discovery". Biochemical Society Transactions. 39: ... ChEMBL or ChEMBLdb is a manually curated chemical database of bioactive molecules with drug-like properties. It is maintained ...
Each gene in PHI-base is presented with its nucleotide and deduced amino acid sequence as well as a detailed structured ... Since 2015 the web-site includes an online literature curation tool called PHI-Canto for community literature curation of ... which may be potential targets for chemical intervention › Comparative genome analyses › Annotation of newly sequenced pathogen ... additions to the pathogen host interactions database" (PDF). Nucleic Acids Research. 36 (Database Issue): D572-576. doi:10.1093 ...
Scores and Ranks the Literature for Improving Chemical-Gene-Disease Curation at the Comparative Toxicogenomics Database". PLoS ... It is a comprehensive, first-class and freely accessible database of protein sequence and functional information, that has many ... In Bioinformatics, a Gene Disease Database is a systematized collection of data, typically structured to model aspects of ... Essentially, there are four types of databases: curated databases, predictive databases, literature databases and integrative ...
A chemical exchange takes place between the alkoxy groups of an ester compound by an alcohol. Usually, methanol and ethanol are ... "Sequence Analysis of the Genome of an Oil-Bearing Tree, Jatropha curcas L". Oxford Journals, DNA Research, Kazusa DNA Research ... a literature review) Biomass and Bioenergy 32(12), 1063-1084.[2] doi:10.1016/j.biombioe.2008.03.003The Jatropha Archives ... Goel, Gunjan; Makkar, Harinder P. S.; Francis, George; Becker, Klaus (30 November 2016). "Phorbol Esters: Structure, Biological ...
T. Kottke, D. Stalke (September 1993). "Structures of Classical Reagents in Chemical Synthesis: (nBuLi)6, (tBuLi)4, and the ... 8).[66] Upon heating of KC8, the elimination of potassium atoms results in the conversion in sequence to KC24, KC36, KC48 and ... hence any data that may be found in the literature are certainly speculative extrapolations.[65] ... "The Internet Database of Periodic Tables". meta-synthesis.com. Retrieved 6 April 2012 ...
Structures, gene sequences, mechanisms, metabolic pathways and kinetic data are currently spread between many different ... We have created MACiE, the worlds first comprehensive electronic database of the chemical mechanisms of enzymatic reactions. ... databases and throughout the literature. ... melting point and hydrophobicity from chemical structure, using ... Lecturer CH5714 Chemical Applications of Electronic Structure Calculations; Lecturer CH4431 Scientific Writing; Lecturer CH3717 ...
... makes it unique from existing databases. It is also fully searchable and supports extensive text, sequence, chemical structure ... Many of the datasets come from published literature, but publication is not a prerequisite for inclusion in the CCDB. Any ... A public database that enhances understanding about the effects of environmental chemicals on h ... [more]A public database ... A public database that enhances understanding about the effects of environmental chemicals on h ... [more]A public database ...
... sequences and a set of 14 sequences with known secondary structure and chemical modification data taken from the literature, ... The average accuracy of secondary structure prediction is 73% ± 9% of known canonical base pairs for a database (8) of ≈150,000 ... On average for sequences with ,6% of nucleotides in pseudoknots, the structures predicted with constraints from chemical ... For C. albicans 5S rRNA, chemical mapping in vivo is consistent with the structure determined by comparative sequence analysis ...
Chemical literature databases correlate structures or other chemical information to relevant references such as academic papers ... Large molecules such as proteins are however more compactly represented using the sequences of their amino acid building blocks ... A chemical database is a database specifically designed to store chemical information. This information is about chemical and ... Chemical databases are particularly different from other general purpose databases in their support for sub-structure search. ...
STN - Online Scientific Database Literature and Patent Search. Chemical Abstracts Service (CAS). STN is an online database ... service that provides global access to published research, journal literature, patents, structures, sequences, properties, and ... SciFinder - Online Scientific Literature Search (1). Chemical Abstracts Service (CAS). CAS SciFinder - The First Choice With ... Chemical Abstracts SciFinder search allows you to get results fast withou... Read more... ...
T3DB is fully searchable and supports extensive text, sequence, chemical structure, relational query and spectral searches. It ... and scientific literature. The primary focus of the T3DB is on providing mechanisms of toxicity and identifying target proteins ... The Toxin and Toxin-Target Database (T3DB), also known as the Toxic Exposome Database, is a freely accessible online database ... While a number of other toxic compound databases do exist, their emphasis is on covering large numbers of chemical compounds ...
Via this linkage, ChemMine users can retrieve the target protein sequences, three-dimensional structures, and literature for ... tools for structure similarity comparisons, database searching, structure-activity comparisons, evaluations of the chemical ... Finally, the chemicals can be used to inactivate a family of proteins with related sequences or structures in a single step. In ... Comparison of the NCI open database with seven large chemical structural databases. J Chem Inf Comput Sci 41: 702-712. ...
... databases, Web servers and computational models, Briefings in Bioinformatics" on DeepDyve, the largest online rental service ... Chemical property of nucleotide in RNA sequence Chemical property Class Nucleotides Ring structure Purine A, G Pyrimidine C, U ... MODOMICS also provides literature information, and links to other databases, including the available protein sequence and ... Chemical property of nucleotide in RNA sequence Chemical property Class Nucleotides Ring structure Purine A, G Pyrimidine C, U ...
A database that combines drug (i.e. chemical, pharmacological and pharmaceutical) data with drug target (i.e. sequence, ... It maps curated physicochemical property data associated with chemical substances to their corresponding chemical structures ... A database of bioactive drug-like small molecules and bioactivities abstracted from the scientific literature. name: chembl ... The foundation of chemical safety testing relies on chemistry information such as high-quality chemical structures and ...
A database that combines drug (i.e. chemical, pharmacological and pharmaceutical) data with drug target (i.e. sequence, ... It maps curated physicochemical property data associated with chemical substances to their corresponding chemical structures ... A database of bioactive drug-like small molecules and bioactivities abstracted from the scientific literature. name: chembl ... An NMR database (web database) for organic structures and their nuclear magnetic resonance (nmr) spectra. It allows for ...
The data in the database is manually curated from the scientific literature, and covers all domains of life. MetaCyc has ... MetaCyc data on metabolites includes chemical structures, predicted Standard energy of formation, and links to external ... MetaCyc is used as a reference data set for computationally predicting the metabolic network of organisms from their sequenced ... The MetaCyc database is one of the largest metabolic pathways and enzymes databases currently available. ...
Searching by chemical structure is also available. The updated functionality of the Discovery-2 resource is presented, together ... A short example of a chemical search with pyrimethamine is also illustrated. The updated Discovery-2 resource allows ... Newly added features include drugability measures from ChEMBL, automated literature relations and links to clinical trial ... and literature links. The resource also contains chemical compounds from the ChEMBL database with chemical search functionality ...
... journal literature, patents, structures, sequences, properties, and other data. With STN, find precisely the patent and sci- ... STN is an online database service that provides global access to published research, ... Chemical Abstracts Plus (CAplusSM) is the most current and comprehensive bibliographic database of chemical information ... The CAS databases CAplus and CAS REGISTRY offer intellectually analyzed content obtained from journal and patent literature. ...
... and for database searches, the search logic or chemical structure sequence used as a query, the name of the file or files ... Document code is used for indicating Non Patent Literature (NPL) submitted by applicant or cited by the examiner.. ... Sequence Listing (Text File). Application Part. In a patent application,a sequence listing filed as a .txt file is either the " ... Sequence Listing (Text File). PCT - Application Part. In a PCT application, the sequence listing is filed as a .txt file either ...
... sequences) Drugs * 3. Connecting the Spaces Database cross-links Assays (PubChem)Literature(PubMed) Active MeSH Inactive ... Search fields and defaults vary by databaseChemical structure search, and other specialized algorithms, must be done outside ... More Space to Explore Genes Literature Assays (PubMed) (PubChem) Chemicals (PubChem) Targets Patents (sequences) Drugs Diseases ... PDB structures (with VAST neighbors) Text and numeric search fields Cross-links  Between databases  Within databases ( ...
... coli O-antigen structures, polymerase and flippase amino acid sequences, NMR chemical shift data of O-antigens as well as ... The database content has been compiled from scientific literature. Furthermore, the system has evolved from being a repository ... The structure was determined using chemical methods, and one- and two-dimensional NMR spectroscopy. The results showed a ... The underlying database was also expanded and the improved capabilities were demonstrated by determining O-antigenic structures ...
GLIDA is a public GPCR-related Chemical Genomics database that is primarily focused on the integration of information betw ... Hattori M,Okuno Y,Goto S,Kanehisa M. Development of a Chemical Structure Comparison Method for Integrated Analysis of Chemical ... In particular, the ordering along the x- and y-axes allows users to evaluate the sequence similarities among GPCRs and the ... The references are hyperlinked with the corresponding PubMed literature. The activity types include agonist, antagonist and ...
Databases. *Sequence databases: GenBank, European Nucleotide Archive and DNA Data Bank of Japan. ... What began as a modest task of abstracting information from literature soon became a major database activity with direct ... Chemical Entities of Biological Interest (ChEBI) - database and ontology of molecular entities ... organisation and dissemination of data on biological macromolecular structures ...
Searching by chemical structure, formula or registry number is not available. The USPTO website also hosts a trademark database ... Several specialized commercial databases exist for the chemical patent literature, some with Markush searching capabilities ... structural databases, biological sequences, and their uses, which may result from the genomics field. Other types of patents ... For chemical patents, generic inventions usually take the form of a MARKUSH STRUCTURE, a structure that contains one or more ...
Text mining methods have added considerably to our capacity to extract biological knowledge from the literature. Recently the ... a major chemical database, to identify appropriate structures. We have identified structures for 55% of unique names (2,415/ ... and carries a tripeptide sequence, alanine-lysine-phenylalanineCOOH, that closely resembles the consensus sequence for type-1 ... a major chemical database, we have identified structures for much of the reported metabolome and, where structure ...
Protein: sequence database. *Genome: whole genome sequences and mapping. *Structure: three-dimensional macromolecular ... Databases[edit]. Entrez searches the following databases: *PubMed: biomedical literature citations and abstracts, including ... Cancer Chromosomes: cytogenetic databases. *PubChem BioAssay: bioactivity screens of chemical substances. *Probe: sequence- ... Entrez can efficiently retrieve related sequences, structures, and references. The Entrez system can provide views of gene and ...
... nonribosomal peptides are usually represented by atomic structures and stored in chemical compounds databases. Classical chemo- ... The database contains more than 1,100 nonribosomal peptides extracted from scientific literature with manually curated ... structure prediction from the sequence of its non-ribosomal peptide synthetase. FEMS Microbiol Lett 187:111-114. doi: 10.1111/j ... Finally, chemical structures are determined. Those structures can, finally, be mimicked leading to artificial compounds. To ...
... literature references, underlying structural information, e.g., amino acid sequence, physico-chemical descriptors, anatomical ... 0030] Figure 1 is a flow chart illustrating the structure of a data base in accordance with one embodiment of the invention; ... for automated inference of physico-chemical interaction knowledge via co-occurrence analysis of indexed literature databases ... Method and system for automated inference creation of physico-chemical interaction knowledge from databases of co-occurrence ...
Biological Databases. • Microbial Community Analysis. • Biological Literature Mining. • MicroRNA. • Biomedical Applications. • ... Sequence Analysis. • Gene Function Inference. • SNPs and Haplotyping Analysis. • Gene Prediction. • Synthetic Biological ... Protein Structures and Complexes. • Evolution, Phylogenetics, and. Phylogenomics. • RNAi Analysis. • Executable Biology. • ... Chemical Genetics. • Pathways, Networks, Systems. Biology. • Comparative Genomics. • Promoter Analysis and Discovery. ...
... or imaging have also been established as routine profiling experiments thanks to the advancement of Next Generation Sequencing ... Besides the structure activity data from traditional bioassays, more complex assays such as transcriptomics profiling or ... Besides the structure activity data from traditional bioassays, more complex assays such as transcriptomics profiling ... imaging have also been established as routine profiling experiments thanks to the advancement of Next Generation Sequencing or ...
  • THE sequencing of whole genomes of species from all kingdoms of life progresses at an ever increasing pace. (genetics.org)
  • The genomes of several bacterial strains have been sequenced and annotated and have been used in combination with biochemical and physiological data to reconstruct metabolic networks at a genome-scale [ 9 ]. (hindawi.com)
  • Little is known about the structure of CARs and their catalytically important amino acid residues. (frontiersin.org)
  • However, the narrow range of amino acid sequence variability found throughout nature seems inconsistent with the notion of an ancient origin and very little change through mutations. (creation.com)
  • Given the large amount of data available in public databases, I decided to see how much variety in amino acid sequence exists and how the data might be interpreted from a creationist or evolutionist framework. (creation.com)
  • Filtrest3D is a program for discrimination of a large number of alternative models of protein structure or protein-ligand structure against a set of restraints derived from low-resolution experimental analyses (such as cross-linking, mutagenesis, circular dichrosm etc.) as well as from computational predictions (e.g. solvent accessibility, amino acid contact maps). (genesilico.pl)
  • We perform searching for both amino acid and nucleotide sequences to ensure a comprehensive search to get maximum hits in the dataset. (promaxlegal.com)
  • Within the field of proteomics, bioinformatics is often used in protein structure prediction , and the "holy grail" of proteomics/bioinformatics is to create a bioinformatics application that can predict the final structure of a protein by its amino acid sequence alone. (wikibooks.org)
  • We studied the function of conserved residues by multiple sequence alignments and mutational replacements of these residues. (frontiersin.org)
  • A dataset based on all known functional sequences of ubiquitin (UB) has been prepared. (creation.com)
  • From a previous 18S rRNA gene pyrosequencing dataset of the benthic microeukaryotes, we retrieved the sequences affiliated with phylum Ciliophora and analyzed alpha and beta diversities of ciliate communities. (springer.com)
  • Nevertheless, structurally, the dominant class appeared to be Spirotrichea in the sequencing dataset, which differs from previous morphology-based results (dominance of classes Prostomatea and Karyorelictea in biomass). (springer.com)
  • 8 ). Hairpin loop parameters (Tables 1 and 2 ) are revised on the basis of recent experimental results ( 47 , 48 ) and the previous database of RNA hairpin stabilities ( 49 - 55 ). (pnas.org)
  • RNA methylation and diseases: experimental results, databases, Web servers and computational models Chen, Xing;Sun, Ya-Zhou;Liu, Hui;Zhang, Lin;Li, Jian-Qiang;Meng, Jia 2017-11-18 00:00:00 Abstract Ribonucleic acid (RNA) methylation is a type of posttranscriptional modifications occurring in all kingdoms of life. (deepdyve.com)
  • Most metabolites are known and reported through the scientific literature, rather than through large-scale experimental surveys. (springer.com)
  • Also disclosed are methods for utilizing such polypeptides in diagnostic assays for identifying mutations in nucleic acid sequences encoding the polypeptides of the present invention, for detecting altered levels of the polypeptide of the present invention as a means of detecting diseases and methods of screening potential modulators, especially inhibitors, of the novel PDE4D7s disclosed herein. (freepatentsonline.com)
  • Reactions in MetaCyc are presented in a visual display that includes the structures of all components. (wikipedia.org)
  • While increasingly identified by high-throughput experiments, most knowledge of metabolites and their reactions is primarily reported in the scientific literature. (springer.com)
  • Voet and Pratt's 4th edition of "Principles of Biochemistry, " challenges readers to better understand the chemistry behind the biological structure and reactions occurring in living systems. (stanford.edu)
  • Generally, enzymatic carboxylate reduction provides several advantages compared to chemical reductions: The reactions are carried out in one step under mild conditions in aqueous solutions. (frontiersin.org)
  • 7 million single and multiple step reactions: reactions diagrams, structures for reactants, reagents, products, and reference information. (carroll.edu)
  • Complex networks describe a wide range of systems in nature and society, much quoted examples including the cell, a network of chemicals linked by chemical reactions, or the Internet, a network of routers and computers connected by physical links. (psu.edu)
  • Thanks to the flexibility and simplicity of its structure as well as its chemo-taxonomic definition, ClassyFire is meant to easily evolve to cover the increasing number of newly discovered scaffolds of natural and synthetic chemical entities, facilitating biochemical research. (wishartlab.com)
  • Describes a collaboration between the GO and the Chemical Entities of Biological Interest (ChEBI) ontology developers to ensure the representation of chemicals in the GO is consistent with expertise captured in ChEBI. (jax.org)