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SEQUEROME Display
Sequerome is a web-based sequence profiling tool for integrating the results of a BLAST sequence-alignment report with external research tools and servers that perform advanced sequence manipulations, and allowing the user to record the steps of such an analysis. Sequerome is a web-based Java tool that acts as a front-end to BLAST queries and provides simplified access to web-distributed resources for protein and nucleic acid analysis. Since its inception in 2005, the tool has been featured in ''Science''"A Bigger BLAST", NetWatchScienceVOL 309, 23 Sep 2005, p-1971 ,"Seq and Find" and officially linked to many bioinformatics portals around the globe. Description Sequerome has the following features: profiling Sequence alignment reports from BLAST by linking the results page to a panel of third party services, tabbed browsing allowing user to come back earlier operations, visit third party services to perform customized sequence manipulations, one-box any-format sequence input ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Georgetown University
Georgetown University is a private university, private research university in the Georgetown (Washington, D.C.), Georgetown neighborhood of Washington, D.C. Founded by Bishop John Carroll (archbishop of Baltimore), John Carroll in 1789 as Georgetown College (Georgetown University), Georgetown College, the university has grown to comprise eleven Undergraduate education, undergraduate and Postgraduate education, graduate schools, including the School of Foreign Service, Walsh School of Foreign Service, McDonough School of Business, Georgetown University School of Medicine, Medical School, Georgetown University Law Center, Law School, and a Georgetown University in Qatar, campus in Qatar. The school's main campus, on a hill above the Potomac River, is identifiable by its flagship Healy Hall, a National Historic Landmark. The school was founded by and is affiliated with the Society of Jesus, and is the oldest Catholic institution of higher education in the United States, though the m ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Protein Data Bank
The Protein Data Bank (PDB) is a database for the three-dimensional structural data of large biological molecules, such as proteins and nucleic acids. The data, typically obtained by X-ray crystallography, NMR spectroscopy, or, increasingly, cryo-electron microscopy, and submitted by biologists and biochemists from around the world, are freely accessible on the Internet via the websites of its member organisations (PDBe, PDBj, RCSB, and BMRB). The PDB is overseen by an organization called the Worldwide Protein Data Bank, wwPDB. The PDB is a key in areas of structural biology, such as structural genomics. Most major scientific journals and some funding agencies now require scientists to submit their structure data to the PDB. Many other databases use protein structures deposited in the PDB. For example, SCOP and CATH classify protein structures, while PDBsum provides a graphic overview of PDB entries using information from other sources, such as Gene ontology. History Two ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Sequence Alignment
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 of functional, structural, or evolutionary relationships between the sequences. Aligned sequences of nucleotide or amino acid residues are typically represented as rows within a matrix. Gaps are inserted between the residues so that identical or similar characters are aligned in successive columns. Sequence alignments are also used for non-biological sequences, such as calculating the distance cost between strings in a natural language or in financial data. Interpretation If two sequences in an alignment share a common ancestor, mismatches can be interpreted as point mutations and gaps as indels (that is, insertion or deletion mutations) introduced in one or both lineages in the time since they diverged from one another. In sequence alignments of proteins, the degree of similarity between amino acids occupying a pa ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Tertiary Structure
Protein tertiary structure is the three dimensional shape of a protein. The tertiary structure will have a single polypeptide chain "backbone" with one or more protein secondary structures, the protein domains. Amino acid side chains may interact and bond in a number of ways. The interactions and bonds of side chains within a particular protein determine its tertiary structure. The protein tertiary structure is defined by its atomic coordinates. These coordinates may refer either to a protein domain or to the entire tertiary structure.Branden C. and Tooze J. "Introduction to Protein Structure" Garland Publishing, New York. 1990 and 1991. A number of tertiary structures may fold into a quaternary structure.Kyte, J. "Structure in Protein Chemistry." Garland Publishing, New York. 1995. History The science of the tertiary structure of proteins has progressed from one of hypothesis to one of detailed definition. Although Emil Fischer had suggested proteins were made of poly ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Primary Sequence
Biomolecular structure is the intricate folded, three-dimensional shape that is formed by a molecule of protein, DNA, or RNA, and that is important to its function. The structure of these molecules may be considered at any of several length scales ranging from the level of individual atoms to the relationships among entire protein subunits. This useful distinction among scales is often expressed as a decomposition of molecular structure into four levels: primary, secondary, tertiary, and quaternary. The scaffold for this multiscale organization of the molecule arises at the secondary level, where the fundamental structural elements are the molecule's various hydrogen bonds. This leads to several recognizable ''domains'' of protein structure and nucleic acid structure, including such secondary-structure features as alpha helixes and beta sheets for proteins, and hairpin loops, bulges, and internal loops for nucleic acids. The terms ''primary'', ''secondary'', ''tertiary'', and ' ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Genomics
Genomics is an interdisciplinary field of biology focusing on the structure, function, evolution, mapping, and editing of genomes. A genome is an organism's complete set of DNA, including all of its genes as well as its hierarchical, three-dimensional structural configuration. In contrast to genetics, which refers to the study of ''individual'' genes and their roles in inheritance, genomics aims at the collective characterization and quantification of ''all'' of an organism's genes, their interrelations and influence on the organism. Genes may direct the production of proteins with the assistance of enzymes and messenger molecules. In turn, proteins make up body structures such as organs and tissues as well as control chemical reactions and carry signals between cells. Genomics also involves the sequencing and analysis of genomes through uses of high throughput DNA sequencing and bioinformatics to assemble and analyze the function and structure of entire genomes. Advances in ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Jakarta Tomcat
Apache Tomcat (called "Tomcat" for short) is a free and open-source implementation of the Jakarta Servlet, Jakarta Expression Language, and WebSocket technologies. It provides a "pure Java" HTTP web server environment in which Java code can also run. Thus it's a Java web application server, although not a full JEE application server. Tomcat is developed and maintained by an open community of developers under the auspices of the Apache Software Foundation, released under the Apache License 2.0 license. Components Tomcat 4.x was released with Catalina (a servlet container), Coyote (an HTTP connector) and Jasper (a JSP engine). Catalina Catalina is Tomcat's servlet container. Catalina implements Sun Microsystems' specifications for servlet and JavaServer Pages (JSP). In Tomcat, a Realm element represents a "database" of usernames, passwords, and roles (similar to Unix groups) assigned to those users. Different implementations of Realm allow Catalina to be integrated into envir ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Java Virtual Machine
A Java virtual machine (JVM) is a virtual machine that enables a computer to run Java programs as well as programs written in other languages that are also compiled to Java bytecode. The JVM is detailed by a specification that formally describes what is required in a JVM implementation. Having a specification ensures interoperability of Java programs across different implementations so that program authors using the Java Development Kit (JDK) need not worry about idiosyncrasies of the underlying hardware platform. The JVM reference implementation is developed by the OpenJDK project as open source code and includes a JIT compiler called HotSpot. The commercially supported Java releases available from Oracle are based on the OpenJDK runtime. Eclipse OpenJ9 is another open source JVM for OpenJDK. JVM specification The Java virtual machine is an abstract (virtual) computer defined by a specification. It is a part of java runtime environment. The garbage-collection algorit ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Internet Explorer
Internet Explorer (formerly Microsoft Internet Explorer and Windows Internet Explorer, commonly abbreviated IE or MSIE) is a series of graphical user interface, graphical web browsers developed by Microsoft which was used in the Microsoft Windows, Windows line of operating systems (in Windows 11, Windows Server Insider Build 22463 and Windows Server Insider Build 25110, it is replaced by the Chromium (web browser), Chromium version of Microsoft Edge). Starting in 1995, It was first released as part of the add-on package Microsoft Plus!, Plus! for Windows 95 that year. Later versions were available as free downloads, or in-service packs, and included in the original equipment manufacturer (OEM) service releases of Windows 95 and later versions of Windows. Microsoft spent over per year on Internet Explorer in the late 1990s, with over 1,000 people involved in the project by 1999. New feature development for the browser was discontinued in 2016 in favor of new browser Microsoft Ed ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Java Database Connectivity
Java Database Connectivity (JDBC) is an application programming interface (API) for the programming language Java, which defines how a client may access a database. It is a Java-based data access technology used for Java database connectivity. It is part of the Java Standard Edition platform, from Oracle Corporation. It provides methods to query and update data in a database, and is oriented toward relational databases. A JDBC-to-ODBC bridge enables connections to any ODBC-accessible data source in the Java virtual machine (JVM) host environment. History and implementation Sun Microsystems released JDBC as part of Java Development Kit (JDK) 1.1 on February 19, 1997. Since then it has been part of the Java Platform, Standard Edition (Java SE). The JDBC classes are contained in the Java package and . Starting with version 3.1, JDBC has been developed under the Java Community Process. JSR 54 specifies JDBC 3.0 (included in J2SE 1.4), JSR 114 specifies the JDBC Rowset additions, ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Java Servlet
A Jakarta Servlet (formerly Java Servlet) is a Java software component that extends the capabilities of a server. Although servlets can respond to many types of requests, they most commonly implement web containers for hosting web applications on web servers and thus qualify as a server-side servlet web API. Such web servlets are the Java counterpart to other dynamic web content technologies such as PHP and ASP.NET. Introduction A Jakarta Servlet processes or stores a Java class in Jakarta EE that conforms to the Jakarta Servlet API, a standard for implementing Java classes that respond to requests. Servlets could in principle communicate over any client–server protocol, but they are most often used with HTTP. Thus "servlet" is often used as shorthand for "HTTP servlet". Thus, a software developer may use a servlet to add dynamic content to a web server using the Java platform. The generated content is commonly HTML, but may be other data such as XML and more commonl ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
