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Predicted Aligned Error
The Predicted Aligned Error (PAE) is a quantitative output produced by AlphaFold, a protein structure prediction system developed by DeepMind. PAE estimates the expected positional error for each residue in a predicted protein structure if it were aligned to a corresponding residue in the true protein structure. This measurement helps scientists assess the confidence in the relative positions and orientations of different parts of the predicted protein model. Structure PAE is presented as a two-dimensional (2D) interactive plot where the color at coordinates (x, y) represents the predicted position error at residue x if the predicted and true structures were aligned on residue y. Lower PAE values for residue pairs from different domains suggest well-defined relative positions and orientations in the prediction, while higher PAE values indicate uncertainty in the relative positions or orientations. Users can download the raw PAE data for all residue pairs in a custom JSON JSO ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
DeepMind
DeepMind Technologies Limited, trading as Google DeepMind or simply DeepMind, is a British–American artificial intelligence research laboratory which serves as a subsidiary of Alphabet Inc. Founded in the UK in 2010, it was acquired by Google in 2014 and merged with Google AI's Google Brain division to become Google DeepMind in April 2023. The company is headquartered in London, with research centres in the United States, Canada, France, Germany, and Switzerland. DeepMind introduced neural Turing machines (neural networks that can access external memory like a conventional Turing machine), resulting in a computer that loosely resembles short-term memory in the human brain. DeepMind has created neural network models to play video games and board games. It made headlines in 2016 after its AlphaGo program beat a human professional Go player Lee Sedol, a world champion, in a five-game match, which was the subject of a documentary film. A more general program, AlphaZer ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
EMBL
The European Molecular Biology Laboratory (EMBL) is an intergovernmental organization dedicated to molecular biology research and is supported by 29 member states, two prospect member states, and one associate member state. EMBL was created in 1974 and is funded by public research money from its member states. Research at EMBL is conducted by more than 110 independent research groups and service teams covering the spectrum of molecular biology. The Laboratory operates from six sites: the main laboratory in Heidelberg (Germany), and sites in Barcelona (Spain), Grenoble (France), Hamburg (Germany), Hinxton (the European Bioinformatics Institute (EBI), in England), and Rome (Italy). EMBL groups and laboratories perform basic research in molecular biology and molecular medicine as well as train scientists, students, and visitors. The organization aids in the development of services, new instruments and methods, and technology in its member states. Israel is the only full member stat ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
European Bioinformatics Institute
The European Bioinformatics Institute (EMBL-EBI) is an intergovernmental organization (IGO) which, as part of the European Molecular Biology Laboratory (EMBL) family, focuses on research and services in bioinformatics. It is located on the Wellcome Genome Campus in Hinxton near Cambridge, and employs over 600 full-time equivalent (FTE) staff. Further, the EMBL-EBI hosts training programs that teach scientists the fundamentals of the work with biological data and promote the plethora of bioinformatic tools available for their research, both EMBL-EBI-based and not so. Bioinformatic services One of the roles of the EMBL-EBI is to index and maintain biological data in a set of databases, including Ensembl (housing whole genome sequence data), UniProt (protein sequence and annotation database) and Protein Data Bank (protein and nucleic acid tertiary structure database). A variety of online services and tools is provided, such as Basic Local Alignment Search Tool (BLAST) or Clust ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Bioinformatics
Bioinformatics () is an interdisciplinary field of science that develops methods and Bioinformatics software, software tools for understanding biological data, especially when the data sets are large and complex. Bioinformatics uses biology, chemistry, physics, computer science, data science, computer programming, information engineering, mathematics and statistics to analyze and interpret biological data. The process of analyzing and interpreting data can sometimes be referred to as computational biology, however this distinction between the two terms is often disputed. To some, the term ''computational biology'' refers to building and using models of biological systems. Computational, statistical, and computer programming techniques have been used for In silico, computer simulation analyses of biological queries. They include reused specific analysis "pipelines", particularly in the field of genomics, such as by the identification of genes and single nucleotide polymorphis ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
AlphaFold
AlphaFold is an artificial intelligence (AI) program developed by DeepMind, a subsidiary of Alphabet, which performs predictions of protein structure. It is designed using deep learning techniques. AlphaFold 1 (2018) placed first in the overall rankings of the 13th Critical Assessment of Structure Prediction (CASP) in December 2018. It was particularly successful at predicting the most accurate structures for targets rated as most difficult by the competition organizers, where no existing template structures were available from proteins with partially similar sequences. AlphaFold 2 (2020) repeated this placement in the CASP14 competition in November 2020. It achieved a level of accuracy much higher than any other entry. It scored above 90 on CASP's global distance test (GDT) for approximately two-thirds of the proteins, a test measuring the similarity between a computationally predicted structure and the experimentally determined structure, where 100 represents a complete matc ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
JSON
JSON (JavaScript Object Notation, pronounced or ) is an open standard file format and electronic data interchange, data interchange format that uses Human-readable medium and data, human-readable text to store and transmit data objects consisting of name–value pairs and array data type, arrays (or other serialization, serializable values). It is a commonly used data format with diverse uses in electronic data interchange, including that of web applications with server (computing), servers. JSON is a Language-independent specification, language-independent data format. It was derived from JavaScript, but many modern programming languages include code to generate and parse JSON-format data. JSON filenames use the extension .json. Douglas Crockford originally specified the JSON format in the early 2000s. Transcript: He and Chip Morningstar sent the first JSON message in April 2001. Naming and pronunciation The 2017 international standard (ECMA-404 and ISO/IEC 21778:2017) ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
