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Nikos Kyrpides
Nikos Kyrpides (Greek: Νίκος Κυρπίδης) is a Greek-American bioscientist who has worked on the origins of life, information processing, bioinformatics, microbiology, metagenomics and microbiome data science. He is a senior staff scientist at the Berkeley National Laboratory, head of the Prokaryote Super Program and leads the Microbiome Data Science program at the US Department of Energy Joint Genome Institute. Education Kyrpides was born in Serres, Greece, where he studied biology at the Aristotle University of Thessaloniki and received his PhD in molecular biology and biotechnology from the University of Crete. He pursued postdoctoral studies in microbiology with Carl Woese at the University of Illinois at Urbana-Champaign and in bioinformatics with Ross Overbeek at the Argonne National Laboratory. From 1999 to 2004 Kyrpides worked in the biotech industry in Chicago, where he led the development of genome analysis and bioinformatics. He joined the United States ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Aristotle University Of Thessaloniki
Aristotle (; grc-gre, Ἀριστοτέλης ''Aristotélēs'', ; 384–322 BC) was a Greek philosopher and polymath during the Classical period in Ancient Greece. Taught by Plato, he was the founder of the Peripatetic school of philosophy within the Lyceum and the wider Aristotelian tradition. His writings cover many subjects including physics, biology, zoology, metaphysics, logic, ethics, aesthetics, poetry, theatre, music, rhetoric, psychology, linguistics, economics, politics, meteorology, geology, and government. Aristotle provided a complex synthesis of the various philosophies existing prior to him. It was above all from his teachings that the West inherited its intellectual lexicon, as well as problems and methods of inquiry. As a result, his philosophy has exerted a unique influence on almost every form of knowledge in the West and it continues to be a subject of contemporary philosophical discussion. Little is known about his life. Aristotle was born in th ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Argonne National Laboratory
Argonne National Laboratory is a science and engineering research United States Department of Energy National Labs, national laboratory operated by University of Chicago, UChicago Argonne LLC for the United States Department of Energy. The facility is located in Lemont, Illinois, outside of Chicago, and is the largest national laboratory by size and scope in the Midwest. Argonne had its beginnings in the Metallurgical Laboratory of the University of Chicago, formed in part to carry out Enrico Fermi's work on nuclear reactors for the Manhattan Project during World War II. After the war, it was designated as the first national laboratory in the United States on July 1, 1946. In the post-war era the lab focused primarily on non-weapon related nuclear physics, designing and building the first power-producing nuclear reactors, helping design the reactors used by the United States' nuclear navy, and a wide variety of similar projects. In 1994, the lab's nuclear mission ended, and today ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Genomic Standards Consortium
The Genomic Standards Consortium (GSC) is an initiative working towards richer descriptions of our collection of genomes, metagenomes and marker genes. Established in September 2005, this international community includes representatives from a range of major sequencing and bioinformatics centres (including NCBI, EMBL, DDBJ, JCVI, JGI, EBI, Sanger, FIG) and research institutions. The goal of the GSC is to promote mechanisms for standardizing the description of (meta)genomes, including the exchange and integration of (meta)genomic data. The number and pace of genomic and metagenomic sequencing projects will only increase as the use of ultra-high-throughput methods becomes common place and standards are vital to scientific progress and data sharing. Mission Community-driven standards have the best chance of success if developed within the auspices of international working groups. Participants in the GSC include biologists, computer scientists, those building genomic databases and ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Virome
Virome refers to the assemblage of viruses that is often investigated and described by metagenomic sequencing of viral nucleic acids that are found associated with a particular ecosystem, organism or holobiont. The word is frequently used to describe environmental viral shotgun metagenomes. Viruses, including bacteriophages, are found in all environments, and studies of the virome have provided insights into nutrient cycling, development of immunity, and a major source of genes through lysogenic conversion. History The first comprehensive studies of viromes were by shotgun community sequencing, which is frequently referred to as metagenomics. In the 2000s, the Rohwer lab sequenced viromes from seawater, marine sediments, adult human stool, infant human stool, soil, and blood. This group also performed the first RNA virome with collaborators from the Genomic Institute of Singapore. From these early works, it was concluded that most of the genomic diversity is contained in the gl ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Big Data
Though used sometimes loosely partly because of a lack of formal definition, the interpretation that seems to best describe Big data is the one associated with large body of information that we could not comprehend when used only in smaller amounts. In it primary definition though, Big data refers to data sets that are too large or complex to be dealt with by traditional data-processing application software. Data with many fields (rows) offer greater statistical power, while data with higher complexity (more attributes or columns) may lead to a higher false discovery rate. Big data analysis challenges include capturing data, data storage, data analysis, search, sharing, transfer, visualization, querying, updating, information privacy, and data source. Big data was originally associated with three key concepts: ''volume'', ''variety'', and ''velocity''. The analysis of big data presents challenges in sampling, and thus previously allowing for only observations and sampling. ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Integrated Microbial Genomes System
The Integrated Microbial GenomesIMG system is a genome browsing and annotation platform developed by the U.S. Department of Energy (DOE)-Joint Genome Institute. IMG contains all the draft and complete microbial genomes sequenced by the DOE-JGI integrated with other publicly available genomes (including Archaea, Bacteria, Eukarya, Viruses and Plasmids). IMG provides users a set of tools for comparative analysis of microbial genomes along three dimensions: genes, genomes and functions. Users can select and transfer them in the comparative analysis carts based upon a variety of criteria. IMG also includes a genome annotation pipeline that integrates information from several tools, including KEGG, Pfam, InterPro, and the Gene Ontology, among others. Users can also type or upload their own gene annotations (called MyIMG gene annotations) and the IMG system will allow them to generate Genbank or EMBL format files containing these annotations. In successive releases IMG has expanded to i ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Genomes OnLine Database
The Genomes OnLine Database (GOLD) is a web-based resource for comprehensive information regarding genome and metagenome sequencing projects, and their associated metadata, around the world. Since 2011, the GOLD database has been run by the DOE Joint Genome Institute The GOLD database was created in 1997; the first version of the database contained information for 350 sequencing projects, of which 48 had been completely sequenced with their analyses published. GOLD v.5 was released on 28 May 2014. , the GOLD database contains information for 67,879 genome sequencing projects, of which 7,210 have been completed. In order to facilitate comparative analysis between the information in GOLD and other databases (for example, GenBank and the EMBL), GOLD supports the minimum information standards metadata specifications recommended by the Genomic Standards Consortium, in particular, the MIxS (Minimum Information about any (x) Sequence) specification. GOLD also allows the annotation of ge ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Archaea
Archaea ( ; singular archaeon ) is a domain of single-celled organisms. These microorganisms lack cell nuclei and are therefore prokaryotes. Archaea were initially classified as bacteria, receiving the name archaebacteria (in the Archaebacteria kingdom), but this term has fallen out of use. Archaeal cells have unique properties separating them from the other two domains, Bacteria and Eukaryota. Archaea are further divided into multiple recognized phyla. Classification is difficult because most have not been isolated in a laboratory and have been detected only by their gene sequences in environmental samples. Archaea and bacteria are generally similar in size and shape, although a few archaea have very different shapes, such as the flat, square cells of ''Haloquadratum walsbyi''. Despite this morphological similarity to bacteria, archaea possess genes and several metabolic pathways that are more closely related to those of eukaryotes, notably for the enzymes involved ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Last Universal Common Ancestor
The last universal common ancestor (LUCA) is the most recent population from which all organisms now living on Earth share common descent—the most recent common ancestor of all current life on Earth. This includes all cellular organisms; the origins of viruses are unclear but they share the same genetic code. LUCA probably harboured a variety of viruses. The LUCA is not the first life on Earth, but rather the latest form ancestral to all existing life. While there is no specific fossil evidence of the LUCA, the detailed biochemical similarity of all current life confirms its existence. Its characteristics can be inferred from shared features of modern genomes. These genes describe a complex life form with many co-adapted features, including transcription and translation mechanisms to convert information from DNA to RNA to proteins. The LUCA probably lived in the high-temperature water of deep sea vents near ocean-floor magma flows around 4 billion years ago. Histori ... [...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] |
Christos Ouzounis
Christos A. Ouzounis is a Computational biology, computational biologist, a director of research at the CERTH, and Professor of Bioinformatics at Aristotle University of Thessaloniki, Aristotle University in Thessaloniki. Education Ouzounis received his undergraduate degree (B.Sc.) in Biological Sciences from the Aristotle University of Thessaloniki (AUTH) in 1987. He then received an M.Sc. in Biological Computation from the University of York in 1988 and went on to perform doctoral work with Chris Sander (scientist), Chris Sander at the European Molecular Biology Laboratory in Heidelberg, Germany receiving his PhD from the University of York in 1993. Career and research After his PhD, Ouzounis was a Human Frontier Science Program, Human Frontiers Science Program (HFSP) Postdoctoral fellow at SRI International, Menlo Park, California. Ouzounis started his own laboratory, researching computational genomics, at the European Molecular Biology Laboratory, European Bioinformatics Insti ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Genetic Code
The genetic code is the set of rules used by living cells to translate information encoded within genetic material ( DNA or RNA sequences of nucleotide triplets, or codons) into proteins. Translation is accomplished by the ribosome, which links proteinogenic amino acids in an order specified by messenger RNA (mRNA), using transfer RNA (tRNA) molecules to carry amino acids and to read the mRNA three nucleotides at a time. The genetic code is highly similar among all organisms and can be expressed in a simple table with 64 entries. The codons specify which amino acid will be added next during protein biosynthesis. With some exceptions, a three-nucleotide codon in a nucleic acid sequence specifies a single amino acid. The vast majority of genes are encoded with a single scheme (see the RNA codon table). That scheme is often referred to as the canonical or standard genetic code, or simply ''the'' genetic code, though variant codes (such as in mitochondria) exist. History Effor ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
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