Genomics: The systematic study of the complete DNA sequences (GENOME) of organisms.Databases, Genetic: Databases devoted to knowledge about specific genes and gene products.Computational Biology: A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.Genome, Bacterial: The genetic complement of a BACTERIA as represented in its DNA.Genome: The genetic complement of an organism, including all of its GENES, as represented in its DNA, or in some cases, its RNA.Sequence Analysis, DNA: A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.Phylogeny: The relationships of groups of organisms as reflected by their genetic makeup.Evolution, Molecular: The process of cumulative change at the level of DNA; RNA; and PROTEINS, over successive generations.Genome, Plant: The genetic complement of a plant (PLANTS) as represented in its DNA.Software: Sequential operating programs and data which instruct the functioning of a digital computer.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.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.Expressed Sequence Tags: Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived.User-Computer Interface: The portion of an interactive computer program that issues messages to and receives commands from a user.Oligonucleotide Array Sequence Analysis: Hybridization of a nucleic acid sample to a very large set of OLIGONUCLEOTIDE PROBES, which have been attached individually in columns and rows to a solid support, to determine a BASE SEQUENCE, or to detect variations in a gene sequence, GENE EXPRESSION, or for GENE MAPPING.Molecular Sequence Annotation: The addition of descriptive information about the function or structure of a molecular sequence to its MOLECULAR SEQUENCE DATA record.Synteny: The presence of two or more genetic loci on the same chromosome. Extensions of this original definition refer to the similarity in content and organization between chromosomes, of different species for example.Genome, Human: The complete genetic complement contained in the DNA of a set of CHROMOSOMES in a HUMAN. The length of the human genome is about 3 billion base pairs.Chromosome Mapping: Any method used for determining the location of and relative distances between genes on a chromosome.Proteomics: The systematic study of the complete complement of proteins (PROTEOME) of organisms.Molecular Sequence Data: Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.Sequence Alignment: The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.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.Genome, Fungal: The complete gene complement contained in a set of chromosomes in a fungus.Algorithms: A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.Individualized Medicine: Therapeutic approach tailoring therapy for genetically defined subgroups of patients.Metagenomics: The genomic analysis of assemblages of organisms.Genetic Variation: Genotypic differences observed among individuals in a population.Information Storage and Retrieval: Organized activities related to the storage, location, search, and retrieval of information.Database Management Systems: Software designed to store, manipulate, manage, and control data for specific uses.Models, Genetic: Theoretical representations that simulate the behavior or activity of genetic processes or phenomena. They include the use of mathematical equations, computers, and other electronic equipment.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.Genetic Research: Research into the cause, transmission, amelioration, elimination, or enhancement of inherited disorders and traits.Multigene Family: A set of genes descended by duplication and variation from some ancestral gene. Such genes may be clustered together on the same chromosome or dispersed on different chromosomes. Examples of multigene families include those that encode the hemoglobins, immunoglobulins, histocompatibility antigens, actins, tubulins, keratins, collagens, heat shock proteins, salivary glue proteins, chorion proteins, cuticle proteins, yolk proteins, and phaseolins, as well as histones, ribosomal RNA, and transfer RNA genes. The latter three are examples of reiterated genes, where hundreds of identical genes are present in a tandem array. (King & Stanfield, A Dictionary of Genetics, 4th ed)Databases, Protein: Databases containing information about PROTEINS such as AMINO ACID SEQUENCE; PROTEIN CONFORMATION; and other properties.Genetics, Medical: A subdiscipline of human genetics which entails the reliable prediction of certain human disorders as a function of the lineage and/or genetic makeup of an individual or of any two parents or potential parents.Quantitative Trait Loci: Genetic loci associated with a QUANTITATIVE TRAIT.Species Specificity: The restriction of a characteristic behavior, anatomical structure or physical system, such as immune response; metabolic response, or gene or gene variant to the members of one species. It refers to that property which differentiates one species from another but it is also used for phylogenetic levels higher or lower than the species.Contig Mapping: Overlapping of cloned or sequenced DNA to construct a continuous region of a gene, chromosome or genome.Chromosomes, Artificial, Bacterial: DNA constructs that are composed of, at least, a REPLICATION ORIGIN, for successful replication, propagation to and maintenance as an extra chromosome in bacteria. In addition, they can carry large amounts (about 200 kilobases) of other sequence for a variety of bioengineering purposes.Conserved Sequence: A sequence of amino acids in a polypeptide or of nucleotides in DNA or RNA that is similar across multiple species. A known set of conserved sequences is represented by a CONSENSUS SEQUENCE. AMINO ACID MOTIFS are often composed of conserved sequences.Pharmacogenetics: A branch of genetics which deals with the genetic variability in individual responses to drugs and drug metabolism (BIOTRANSFORMATION).Base Sequence: The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.Genes, Plant: The functional hereditary units of PLANTS.Genome, Insect: The genetic complement of an insect (INSECTS) as represented in its DNA.Computer Graphics: The process of pictorial communication, between human and computers, in which the computer input and output have the form of charts, drawings, or other appropriate pictorial representation.Gene Library: A large collection of DNA fragments cloned (CLONING, MOLECULAR) from a given organism, tissue, organ, or cell type. It may contain complete genomic sequences (GENOMIC LIBRARY) or complementary DNA sequences, the latter being formed from messenger RNA and lacking intron sequences.Genetics: The branch of science concerned with the means and consequences of transmission and generation of the components of biological inheritance. (Stedman, 26th ed)Cluster Analysis: A set of statistical methods used to group variables or observations into strongly inter-related subgroups. In epidemiology, it may be used to analyze a closely grouped series of events or cases of disease or other health-related phenomenon with well-defined distribution patterns in relation to time or place or both.Proteins: Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.Phenotype: The outward appearance of the individual. It is the product of interactions between genes, and between the GENOTYPE and the environment.Proteome: The protein complement of an organism coded for by its genome.Polymorphism, Single Nucleotide: A single nucleotide variation in a genetic sequence that occurs at appreciable frequency in the population.Gene Regulatory Networks: Interacting DNA-encoded regulatory subsystems in the GENOME that coordinate input from activator and repressor TRANSCRIPTION FACTORS during development, cell differentiation, or in response to environmental cues. The networks function to ultimately specify expression of particular sets of GENES for specific conditions, times, or locations.Systems Biology: Comprehensive, methodical analysis of complex biological systems by monitoring responses to perturbations of biological processes. Large scale, computerized collection and analysis of the data are used to develop and test models of biological systems.Genome, Archaeal: The genetic complement of an archaeal organism (ARCHAEA) as represented in its DNA.Gene Order: The sequential location of genes on a chromosome.Genome, Helminth: The genetic complement of a helminth (HELMINTHS) as represented in its DNA.Transcriptome: The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.Comparative Genomic Hybridization: A method for comparing two sets of chromosomal DNA by analyzing differences in the copy number and location of specific sequences. It is used to look for large sequence changes such as deletions, duplications, amplifications, or translocations.Systems Integration: The procedures involved in combining separately developed modules, components, or subsystems so that they work together as a complete system. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Biological Evolution: The process of cumulative change over successive generations through which organisms acquire their distinguishing morphological and physiological characteristics.Gene Duplication: Processes occurring in various organisms by which new genes are copied. Gene duplication may result in a MULTIGENE FAMILY; supergenes or PSEUDOGENES.Oryza sativa: Annual cereal grass of the family POACEAE and its edible starchy grain, rice, which is the staple food of roughly one-half of the world's population.Genome, Protozoan: The complete genetic complement contained in a set of CHROMOSOMES in a protozoan.Metabolic Networks and Pathways: Complex sets of enzymatic reactions connected to each other via their product and substrate metabolites.Microbiology: The study of microorganisms such as fungi, bacteria, algae, archaea, and viruses.Sequence Analysis, Protein: A process that includes the determination of AMINO ACID SEQUENCE of a protein (or peptide, oligopeptide or peptide fragment) and the information analysis of the sequence.Gene Transfer, Horizontal: The naturally occurring transmission of genetic information between organisms, related or unrelated, circumventing parent-to-offspring transmission. Horizontal gene transfer may occur via a variety of naturally occurring processes such as GENETIC CONJUGATION; GENETIC TRANSDUCTION; and TRANSFECTION. It may result in a change of the recipient organism's genetic composition (TRANSFORMATION, GENETIC).Genetic Markers: A phenotypically recognizable genetic trait which can be used to identify a genetic locus, a linkage group, or a recombination event.Amino Acid Sequence: The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.Genetic Privacy: The protection of genetic information about an individual, family, or population group, from unauthorized disclosure.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.Genome-Wide Association Study: An analysis comparing the allele frequencies of all available (or a whole GENOME representative set of) polymorphic markers in unrelated patients with a specific symptom or disease condition, and those of healthy controls to identify markers associated with a specific disease or condition.Crops, Agricultural: Cultivated plants or agricultural produce such as grain, vegetables, or fruit. (From American Heritage Dictionary, 1982)DNA, Plant: Deoxyribonucleic acid that makes up the genetic material of plants.Physical Chromosome Mapping: Mapping of the linear order of genes on a chromosome with units indicating their distances by using methods other than genetic recombination. These methods include nucleotide sequencing, overlapping deletions in polytene chromosomes, and electron micrography of heteroduplex DNA. (From King & Stansfield, A Dictionary of Genetics, 5th ed)Chromosomes, Plant: Complex nucleoprotein structures which contain the genomic DNA and are part of the CELL NUCLEUS of PLANTS.Nutrigenomics: The study of the relationship between NUTRITIONAL PHYSIOLOGY and genetic makeup. It includes the effect of different food components on GENE EXPRESSION and how variations in GENES effect responses to food components.Biotechnology: Body of knowledge related to the use of organisms, cells or cell-derived constituents for the purpose of developing products which are technically, scientifically and clinically useful. Alteration of biologic function at the molecular level (i.e., GENETIC ENGINEERING) is a central focus; laboratory methods used include TRANSFECTION and CLONING technologies, sequence and structure analysis algorithms, computer databases, and gene and protein structure function analysis and prediction.Bacterial Proteins: Proteins found in any species of bacterium.National Human Genome Research Institute (U.S.): Component of the NATIONAL INSTITUTES OF HEALTH. It conducts and supports research into the mapping of the human genome and other organism genomes. The National Center for Human Genome Research was established in 1989 and re-named the National Human Genome Research Institute in 1997.Genetic Testing: Detection of a MUTATION; GENOTYPE; KARYOTYPE; or specific ALLELES associated with genetic traits, heritable diseases, or predisposition to a disease, or that may lead to the disease in descendants. It includes prenatal genetic testing.Genetic Techniques: Chromosomal, biochemical, intracellular, and other methods used in the study of genetics.Structural Homology, Protein: The degree of 3-dimensional shape similarity between proteins. It can be an indication of distant AMINO ACID SEQUENCE HOMOLOGY and used for rational DRUG DESIGN.Sorghum: A plant genus of the family POACEAE. The grain is used for FOOD and for ANIMAL FEED. This should not be confused with KAFFIR LIME or with KEFIR milk product.Bacteria: One of the three domains of life (the others being Eukarya and ARCHAEA), also called Eubacteria. They are unicellular prokaryotic microorganisms which generally possess rigid cell walls, multiply by cell division, and exhibit three principal forms: round or coccal, rodlike or bacillary, and spiral or spirochetal. Bacteria can be classified by their response to OXYGEN: aerobic, anaerobic, or facultatively anaerobic; by the mode by which they obtain their energy: chemotrophy (via chemical reaction) or PHOTOTROPHY (via light reaction); for chemotrophs by their source of chemical energy: CHEMOLITHOTROPHY (from inorganic compounds) or chemoorganotrophy (from organic compounds); and by their source for CARBON; NITROGEN; etc.; HETEROTROPHY (from organic sources) or AUTOTROPHY (from CARBON DIOXIDE). They can also be classified by whether or not they stain (based on the structure of their CELL WALLS) with CRYSTAL VIOLET dye: gram-negative or gram-positive.Adaptation, Biological: Changes in biological features that help an organism cope with its ENVIRONMENT. These changes include physiological (ADAPTATION, PHYSIOLOGICAL), phenotypic and genetic changes.Research: Critical and exhaustive investigation or experimentation, having for its aim the discovery of new facts and their correct interpretation, the revision of accepted conclusions, theories, or laws in the light of newly discovered facts, or the practical application of such new or revised conclusions, theories, or laws. (Webster, 3d ed)Toxicogenetics: The study of existing genetic knowledge, and the generation of new genetic data, to understand and thus avoid DRUG TOXICITY and adverse effects from toxic substances from the environment.Data Mining: Use of sophisticated analysis tools to sort through, organize, examine, and combine large sets of information.Gene Expression Regulation: Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control (induction or repression) of gene action at the level of transcription or translation.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.Plants: Multicellular, eukaryotic life forms of kingdom Plantae (sensu lato), comprising the VIRIDIPLANTAE; RHODOPHYTA; and GLAUCOPHYTA; all of which acquired chloroplasts by direct endosymbiosis of CYANOBACTERIA. They are characterized by a mainly photosynthetic mode of nutrition; essentially unlimited growth at localized regions of cell divisions (MERISTEMS); cellulose within cells providing rigidity; the absence of organs of locomotion; absence of nervous and sensory systems; and an alternation of haploid and diploid generations.Open Reading Frames: A sequence of successive nucleotide triplets that are read as CODONS specifying AMINO ACIDS and begin with an INITIATOR CODON and end with a stop codon (CODON, TERMINATOR).Molecular Biology: A discipline concerned with studying biological phenomena in terms of the chemical and physical interactions of molecules.Arabidopsis: A plant genus of the family BRASSICACEAE that contains ARABIDOPSIS PROTEINS and MADS DOMAIN PROTEINS. The species A. thaliana is used for experiments in classical plant genetics as well as molecular genetic studies in plant physiology, biochemistry, and development.

*  Team solves birth and migration mysteries of cortex's powerful inhibitors, 'chandel... ( Cold Spring Harbor NY -- The cerebra....
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As the amount of genomics data increases with the use of Next Generation Sequencing (NGS) and microarrays, the need for high- ... Major Industrial Lab to Utilize WaferGen Bio-systems' High-Throughput Genomics Technology. Published 8:00 AM ET Thu, 26 March ...
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Cold Spring Harbor NY (PRWEB) September 10 2013 Cold Spring Harbor Laboratory (CSHL) today announced that Teri F. Willey has been appointed Vice President of Business Development and Technology Transfer. In this newly created position Ms. Willey will direct the Laboratory's commercialization and technology transfer activities including patenting licensing,Cold,Spring,Harbor,Laboratory,Appoints,Teri,F.,Willey,to,Accelerate,Commercialization,Efforts,biological,advanced biology technology,biology laboratory technology,biology device technology,latest biology technology
*  Integrative Genomics Viewer (IGV) tutorial - Bioinformatics Team (BioITeam) at the University of Texas - UT Austin Wikis
The Integrative Genomics Viewer (IGV) from the Broad Center allows you to view several types of data files involved in any NGS ... The Integrative Genomics Viewer is a program for reading several types of indexed database information, including mapped reads ...
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Yale has a diverse set of activites in the areas of genomics and proteomics that are relevant to computational biology and ... Computational Approaches to Functional and Integrative Genomics. A central problem in bioinformatics is the analysis of genomic ... A major new development is the advent of functional genomics information with standardized experimental information over the ...
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Structural genomics of minimal organisms and protein fold space. J Struct Funct Genomics 6:63-70. [PubMed],[abstract] *Liu J, ... Structure-based functional inference in structural genomics. J Struct Funct Genomics 4:129-35. [PubMed],[abstract] *Kim R, Lai ... Overview of structural genomics: from structure to function. Curr Opin Chem Biol 7:28-32. [PubMed],[abstract] 2002:. *Busso D, ... J Struct Funct Genomics 6:177-82. [PubMed],[abstract] *Oganesyan V, Huang C, Adams PD, Jancarik J, Yokota HA, Kim R, Kim SH. ...
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The mission of the CDC's Office of Public Health Genomics is to integrate advances in human genetics into public health ... Dealing with the Genomics and Health Information Overload: Introducing the CDC Public Health Genomics Knowledge Base, Muin J. ... A Public Health Genomics State-by-State Clickable Map: Accelerating Implementation of Genomics Applications to Improve ... What is Public Health Genomics? A Day in the Invisible Life of Public Health Genomics, Muin J Khoury (June 2, 2011) ...
*  LTER Microbial Genomics
1) Review microbial studies in ecological genomics including manipulation experiments along latitudinal gradients and across ... In the last few years there has been a dramatic increase in studies at LTER sites that have a focus in ecological genomics or ... and explore problems and opportunities with respect to funding in microbial genomics. ... and opportunities inherent in coordinating and funding future cross-site collaborations in microbial ecological genomics, and ...
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Copyright © 2018 Business Insider Inc. All rights reserved. Registration on or use of this site constitutes acceptance of our Terms of Service and Privacy Policy. ...
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genomics. Neuron Culture. Tag archives for genomics. 20,000 genes a surprise? Heck, this guy knew that long ago. Posted by ...
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The mission of the Public Health Genomics is to integrate advances in human genetics into public health research, policy, and ... Guidelines, Policies and Recommendations in Genomics. *Search the Public Health Genomics Knowledge Base for information on ... To begin addressing this need for reliable information, CDC's Office of Public Health Genomics (OPHG) established the ...
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The basic science of public health genomics is "human genome epidemiology," the set of methods for collecting, analyzing, and ...
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Next-generation sequencing technology allows us to peer inside the cell in exquisite detail, revealing new insights into biology, evolution, and disease that would have been impossible to discover just a few years ago. The enormous volumes of data produced by NGS experiments present many computational challenges that we are working to address. In this talk, I will discuss some of our algorithmic solutions to two key alignment problems: (1) mapping sequences onto the human genome at very high speed, and (2) mapping and assembling transcripts from RNA-seq experiments. I will also discuss some of the problems that can arise during analysis of exome data, in which the gene-containing portions of the genome are sequenced in an effort to identify mutations responsible for disease. My group has developed algorithms to solve each of these problems, including the widely-used Bowtie program for fast DNA sequence alignment, the TopHat and Cufflinks programs for assembly of genes from transcriptome ...
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The recent progressions made in genomics research have opened up exciting possibilities for genomics applications in other ... Genomics is a relatively new field of research, which began in earnest late in the twentieth century, although the basis of DNA ... The recent progressions made in genomics research have opened up exciting possibilities for genomics applications in other ... Genomics is a relatively new field of research, which began in earnest late in the twentieth century, although the basis of DNA ...
*  Public health genomics - Wikipedia
Turkish Centre for Public Health Genomics P3G Consortium - Public Population Project in Genomics [8] Public Health Genomics ... Public health genomics is the use of genomics information to benefit public health. This is visualized as more effective ... American Journal of Public Health Community health Nutritional genomics GRaPH-Int Bellagio Group on Public Health Genomics. " ... "Ethical, Legal and Social Implications (ELSI) of human genomics". Retrieved 3 September 2015. "Genomics and Its Impact on ...
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... the Connecticut Department of Public Health Genomics Office has published a new version of Cancer Genomics Best Practices for ... Cancer Genomics Best Practices for Connecticut Healthcare Providers With the rise of personalized medicine, and rapid advances ... To request copies of the Family Health History Workbook, Pocket Guide or Poster, email Looking for Answers ... Results were published online September 23, 2014 in the Journal of Genetic Counseling . Connecticut BRFSS Genomics Brief: ...
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personal genomics. 23andMe can finally tell you if you're at a higher risk for diseases like Alzheimer's - here's what you ...
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Although the applications of genomics have already found a place in many areas, there is potential for the study to ... The knowledge and understanding acquired from genomics research can be applied in a number of different settings, including ... Notable practical applications of genomics that are in use or development at present include:. *Oral immunization with plants: ... Although the applications of genomics have already found a place in many areas, there is potential for the study to ...
*  Beijing Genomics Institute
The Beijing Genomics Institute is the largest non-profit genomics research institute in China. Founded in July 1999 by a group ...
*  Nutritional genomics | The BMJ
Nutritional genomics is the application of high throughput functional genomic technologies in nutrition research. These ... Ruan Elliott (, nutritional genomics programme leadera, ... Nutritional genomics. BMJ 2002; 324 doi: (Published 15 June 2002) Cite this as: BMJ ... components are biologically active and how they exert their effects is being fuelled by the development of nutritional genomics ...

Ontario Genomics Institute: The Ontario Genomics Institute (OGI) is a not-for-profit organization that manages cutting-edge genomics research projects and platforms.The Ontario Genomics Institute OGI also helps scientists find paths to the marketplace for their discoveries and the products to which they lead, and it works through diverse outreach and educational activities to raise awareness and facilitate informed public dialogue about genomics and its social impacts.Extracellular: In cell biology, molecular biology and related fields, the word extracellular (or sometimes extracellular space) means "outside the cell". This space is usually taken to be outside the plasma membranes, and occupied by fluid.PSI Protein Classifier: PSI Protein Classifier is a program generalizing the results of both successive and independent iterations of the PSI-BLAST program. PSI Protein Classifier determines belonging of the found by PSI-BLAST proteins to the known families.Global microbial identifier: The genomic epidemiological database for global identification of microorganisms or global microbial identifier (GMI) is a platform for storing whole genome sequencing (WGS) data of microorganisms, for the identification of relevant genes and for the comparison of genomes to detect and track-and-trace infectious disease outbreaks and emerging pathogens. The database holds two types of information: 1) genomic information of microorganisms, linked to, 2) metadata of those microorganism such as epidemiological details.List of sequenced eukaryotic genomesDNA sequencer: A DNA sequencer is a scientific instrument used to automate the DNA sequencing process. Given a sample of DNA, a DNA sequencer is used to determine the order of the four bases: G (guanine), C (cytosine), A (adenine) and T (thymine).Branching order of bacterial phyla (Gupta, 2001): There are several models of the Branching order of bacterial phyla, one of these was proposed in 2001 by Gupta based on conserved indels or protein, termed "protein signatures", an alternative approach to molecular phylogeny. Some problematic exceptions and conflicts are present to these conserved indels, however, they are in agreement with several groupings of classes and phyla.Molecular evolution: Molecular evolution is a change in the sequence composition of cellular molecules such as DNA, RNA, and proteins across generations. The field of molecular evolution uses principles of evolutionary biology and population genetics to explain patterns in these changes.Mac OS X Server 1.0Gene signature: A gene signature is a group of genes in a cell whose combined expression patternItadani H, Mizuarai S, Kotani H. Can systems biology understand pathway activation?Internet organizations: This is a list of Internet organizations, or organizations that play or played a key role in the evolution of the Internet by developing recommendations, standards, and technology; deploying infrastructure and services; and addressing other major issues.Sequence clustering: In bioinformatics, sequence clustering algorithms attempt to group biological sequences that are somehow related. The sequences can be either of genomic, "transcriptomic" (ESTs) or protein origin.Immersive technologyCellular microarray: A cellular microarray is a laboratory tool that allows for the multiplex interrogation of living cells on the surface of a solid support. The support, sometimes called a "chip", is spotted with varying materials, such as antibodies, proteins, or lipids, which can interact with the cells, leading to their capture on specific spots.Chromosome regionsProteomics Standards Initiative: The Proteomics Standards Initiative (PSI) is a working group of Human Proteome Organization. It aims to define data standards for proteomics in order to facilitate data comparison, exchange and verification.Coles PhillipsCS-BLASTClonal Selection Algorithm: In artificial immune systems, Clonal selection algorithms are a class of algorithms inspired by the clonal selection theory of acquired immunity that explains how B and T lymphocytes improve their response to antigens over time called affinity maturation. These algorithms focus on the Darwinian attributes of the theory where selection is inspired by the affinity of antigen-antibody interactions, reproduction is inspired by cell division, and variation is inspired by somatic hypermutation.Microbiota: A microbiota is "the ecological community of commensal, symbiotic and pathogenic microorganisms that literally share our body space". Joshua Lederberg coined the term, emphasising the importance of microorganisms inhabiting the human body in health and disease.Genetic variation: right|thumbConference and Labs of the Evaluation Forum: The Conference and Labs of the Evaluation Forum (formerly Cross-Language Evaluation Forum), or CLEF, is an organization promoting research in multilingual information access (currently focusing on European languages). Its specific functions are to maintain an underlying framework for testing information retrieval systems and to create repositories of data for researchers to use in developing comparable standards.SciDBMassive parallel sequencing: Massive parallel sequencing or massively parallel sequencing is any of several high-throughput approaches to DNA sequencing using the concept of massively parallel processing; it is also called next-generation sequencing (NGS) or second-generation sequencing. Some of these technologies emerged in 1994-1998 and became commercially available since 2005.Return of results: Return of results is a concept in research ethics which describes the extent of the duty of a researcher to reveal and explain the results of research to a research participant.ParaHox: The ParaHox gene cluster is an array of homeobox genes (involved in morphogenesis, the regulation of patterns of anatomical development) from the Gsx, Xlox (Pdx) and Cdx gene families.Human Proteinpedia: Human Proteinpedia is a portal for sharing and integration of human proteomic data,.Kandasamy et al.David Rimoin: David Lawrence Rimoin (November 9, 1936 – May 27, 2012) was a Canadian American geneticist. He was especially noted for his research into the genetics of skeletal dysplasia (dwarfism), inheritable diseases such as Tay–Sachs disease, and diabetes.Pharmacogenetics: Pharmacogenetics is the study of inherited genetic differences in drug metabolic pathways which can affect individual responses to drugs, both in terms of therapeutic effect as well as adverse effects. The term pharmacogenetics is often used interchangeably with the term pharmacogenomics which also investigates the role of acquired and inherited genetic differences in relation to drug response and drug behavior through a systematic examination of genes, gene products, and inter- and intra-individual variation in gene expression and function.Symmetry element: A symmetry element is a point of reference about which symmetry operations can take place. In particular, symmetry elements can be centers of inversion, axes of rotation and mirror planes.List of molecular graphics systems: This is a list of software systems that are used for visualizing macromolecules.Library (biology): In molecular biology, a library is a collection of DNA fragments that is stored and propagated in a population of micro-organisms through the process of molecular cloning. There are different types of DNA libraries, including cDNA libraries (formed from reverse-transcribed RNA), genomic libraries (formed from genomic DNA) and randomized mutant libraries (formed by de novo gene synthesis where alternative nucleotides or codons are incorporated).Walter Reed Army Institute of ResearchLattice protein: Lattice proteins are highly simplified computer models of proteins which are used to investigate protein folding.Phenotype microarray: The phenotype microarray approach is a technology for high-throughput phenotyping of cells.Plant Proteome Database: The Plant Proteome Database is a National Science Foundation-funded project to determine the biological function of each protein in plants.Sun Q, Zybailov B, Majeran W, Friso G, Olinares PD, van Wijk KJ.WGAViewer: WGAViewer is a bioinformatics software tool which is designed to visualize, annotate, and help interpret the results generated from a genome wide association study (GWAS). Alongside the P values of association, WGAViewer allows a researcher to visualize and consider other supporting evidence, such as the genomic context of the SNP, linkage disequilibrium (LD) with ungenotyped SNPs, gene expression database, and the evidence from other GWAS projects, when determining the potential importance of an individual SNP.Biological network: A biological network is any network that applies to biological systems. A network is any system with sub-units that are linked into a whole, such as species units linked into a whole food web.List of systems biology conferences: Systems biology is a biological study field that focuses on the systematic study of complex interactions in biological systems, thus using a new perspective (integration instead of reduction) to study them. Particularly from year 2000 onwards, the term is used widely in the biosciences.De novo transcriptome assembly: De novo transcriptome assembly is the method of creating a transcriptome without the aid of a reference genome.Gene duplication: Gene duplication (or chromosomal duplication or gene amplification) is a major mechanism through which new genetic material is generated during molecular evolution. It can be defined as any duplication of a region of DNA that contains a gene.Weedy rice: Weedy rice, also known as red rice, is a variety of rice (Oryza) that produces far fewer grains per plant than cultivated rice and is therefore considered a pest. The name "weedy rice" is used for all types and variations of rice which show some characteristic features of cultivated rice and grow as weeds in commercial rice fields.PlasmoDB: PlasmoDB is a biological database for the genus Plasmodium. The database is a member of the EuPathDB project.Flux (metabolism): Flux, or metabolic flux is the rate of turnover of molecules through a metabolic pathway. Flux is regulated by the enzymes involved in a pathway.Indian Journal of Medical Microbiology: The Indian Journal of Medical Microbiology is a peer-reviewed open-access medical journal published by Medknow Publications on behalf of the Indian Association of Medical Microbiology. The journal publishes articles on medical microbiology including bacteriology, virology, phycology, mycology, parasitology, and protozoology.Protein subcellular localization prediction: Protein subcellular localization prediction (or just protein localization prediction) involves the computational prediction of where a protein resides in a cell.Horizontal gene transfer in evolutionProtein primary structure: The primary structure of a peptide or protein is the linear sequence of its amino acid structural units, and partly comprises its overall biomolecular structure. By convention, the primary structure of a protein is reported starting from the amino-terminal (N) end to the carboxyl-terminal (C) end.Genetic predisposition: A genetic predisposition is a genetic characteristic which influences the possible phenotypic development of an individual organism within a species or population under the influence of environmental conditions. In medicine, genetic susceptibility to a disease refers to a genetic predisposition to a health problem,What does it mean to have a genetic predisposition to a disease?Population stratification: Population stratification is the presence of a systematic difference in allele frequencies between subpopulations in a population possibly due to different ancestry, especially in the context of association studies. Population stratification is also referred to as population structure, in this context.Plant breeders' rights: Plant breeders' rights (PBR), also known as plant variety rights (PVR), are rights granted to the breeder of a new variety of plant that give the breeder exclusive control over the propagating material (including seed, cuttings, divisions, tissue culture) and harvested material (cut flowers, fruit, foliage) of a new variety for a number of years.Nutrigenetics: Nutrigenetics is a branch of nutritional genomics which aims to identify genetic susceptibility to diseases and genetic variation in the effects of nutrient intake on the genome. Nutrigenetics is not to be confused with nutrigenomics, which focuses on the role specific foods have in activating genes that affect susceptibility to certain illnesses such as Alzheimer’s Disease and cancer.Biotechnology Industry Organization: The Biotechnology Industry Organization (BIO) is the largest trade organization to serve and represent the biotechnology industry in the United States and around the world.Anna Edney, "Biosciences Defy U.Ferric uptake regulator family: In molecular biology, the ferric uptake regulator (FUR) family of proteins includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria.National Human Genome Research Institute: 240px|right The National Human Genome Research Institute (NHGRI) is a division of the National Institutes of Health, located in Bethesda, Maryland.MIPModDB: MIPModDB is a database of comparative protein structure models of MIP (Major intrinsic proteins) family of proteins.Sweet sorghumExogenous bacteria: Exogenous bacteria are microorganisms introduced to closed biological systems from the external world. They exist in aquatic and terrestrial environments, as well as the atmosphere.Andrew Dickson WhiteAcheiropodiaProcess mining: Process mining is a process management technique that allows for the analysis of business processes based on event logs. The basic idea is to extract knowledge from event logs recorded by an information system.Metabolomics: Metabolomics is the scientific study of chemical processes involving metabolites. Specifically, metabolomics is the "systematic study of the unique chemical fingerprints that specific cellular processes leave behind", the study of their small-molecule metabolite profiles.Open reading frame: In molecular genetics, an open reading frame (ORF) is the part of a reading frame that has the potential to code for a protein or peptide. An ORF is a continuous stretch of codons that do not contain a stop codon (usually UAA, UAG or UGA).Dda (DNA-dependent ATPase): Dda (short for DNA-dependent ATPase; also known as Dda helicase and Dda DNA helicase) is the 439-amino acid 49,897-atomic mass unit protein coded by the Dda gene of the bacteriophage T4 phage, a virus that infects enterobacteria.GAI (Arabidopsis thaliana gene)

(1/10766) Analysis of flanking sequences from dissociation insertion lines: a database for reverse genetics in Arabidopsis.

We have generated Dissociation (Ds) element insertions throughout the Arabidopsis genome as a means of random mutagenesis. Here, we present the molecular analysis of genomic sequences that flank the Ds insertions of 931 independent transposant lines. Flanking sequences from 511 lines proved to be identical or homologous to DNA or protein sequences in public databases, and disruptions within known or putative genes were indicated for 354 lines. Because a significant portion (45%) of the insertions occurred within sequences defined by GenBank BAC and P1 clones, we were able to assess the distribution of Ds insertions throughout the genome. We discovered a significant preference for Ds transposition to the regions adjacent to nucleolus organizer regions on chromosomes 2 and 4. Otherwise, the mapped insertions appeared to be evenly dispersed throughout the genome. For any given gene, insertions preferentially occurred at the 5' end, although disruption was clearly possible at any intragenic position. The insertion sites of >500 lines that could be characterized by reference to public databases are presented in a tabular format at http://www.plantcell. org/cgi/content/full/11/12/2263/DC1. This database should be of value to researchers using reverse genetics approaches to determine gene function.  (+info)

(2/10766) Microbial genomics: from sequence to function.

The era of genomics (the study of genes and their function) began a scant dozen years ago with a suggestion by James Watson that the complete DNA sequence of the human genome be determined. Since that time, the human genome project has attracted a great deal of attention in the scientific world and the general media; the scope of the sequencing effort, and the extraordinary value that it will provide, has served to mask the enormous progress in sequencing other genomes. Microbial genome sequencing, of particular interest to the community studying emerging infectious diseases, prompted the series of articles presented in the following pages. These articles review technological and scientific advances that have occurred since publication of the Haemophilus influenzae genome sequence in July 1995; that was the first demonstration that an entire genome sequence could be deciphered by a "shotgun" approach, i.e., the sequencing and assembly of random fragments of the genome. This is now the method of choice for sequencing of most other genomes, including human (as performed by Celera Genomics).  (+info)

(3/10766) Genomics and bacterial pathogenesis.

Whole-genome sequencing is transforming the study of pathogenic bacteria. Searches for single virulence genes can now be performed on a genomewide scale by a variety of computer and genetic techniques. These techniques are discussed to provide a perspective on the developing field of genomics.  (+info)

(4/10766) Comparative genomics and understanding of microbial biology.

The sequences of close to 30 microbial genomes have been completed during the past 5 years, and the sequences of more than 100 genomes should be completed in the next 2 to 4 years. Soon, completed microbial genome sequences will represent a collection of >200,000 predicted coding sequences. While analysis of a single genome provides tremendous biological insights on any given organism, comparative analysis of multiple genomes provides substantially more information on the physiology and evolution of microbial species and expands our ability to better assign putative function to predicted coding sequences.  (+info)

(5/10766) Using DNA microarrays to study host-microbe interactions.

Complete genomic sequences of microbial pathogens and hosts offer sophisticated new strategies for studying host-pathogen interactions. DNA microarrays exploit primary sequence data to measure transcript levels and detect sequence polymorphisms, for every gene, simultaneously. The design and construction of a DNA microarray for any given microbial genome are straightforward. By monitoring microbial gene expression, one can predict the functions of uncharacterized genes, probe the physiologic adaptations made under various environmental conditions, identify virulence-associated genes, and test the effects of drugs. Similarly, by using host gene microarrays, one can explore host response at the level of gene expression and provide a molecular description of the events that follow infection. Host profiling might also identify gene expression signatures unique for each pathogen, thus providing a novel tool for diagnosis, prognosis, and clinical management of infectious disease.  (+info)

(6/10766) Automatic detection of conserved gene clusters in multiple genomes by graph comparison and P-quasi grouping.

We previously reported two graph algorithms for analysis of genomic information: a graph comparison algorithm to detect locally similar regions called correlated clusters and an algorithm to find a graph feature called P-quasi complete linkage. Based on these algorithms we have developed an automatic procedure to detect conserved gene clusters and align orthologous gene orders in multiple genomes. In the first step, the graph comparison is applied to pairwise genome comparisons, where the genome is considered as a one-dimensionally connected graph with genes as its nodes, and correlated clusters of genes that share sequence similarities are identified. In the next step, the P-quasi complete linkage analysis is applied to grouping of related clusters and conserved gene clusters in multiple genomes are identified. In the last step, orthologous relations of genes are established among each conserved cluster. We analyzed 17 completely sequenced microbial genomes and obtained 2313 clusters when the completeness parameter P: was 40%. About one quarter contained at least two genes that appeared in the metabolic and regulatory pathways in the KEGG database. This collection of conserved gene clusters is used to refine and augment ortholog group tables in KEGG and also to define ortholog identifiers as an extension of EC numbers.  (+info)

(7/10766) The gene guessing game.

A recent flurry of publications and media attention has revived interest in the question of how many genes exist in the human genome. Here, I review the estimates and use genomic sequence data from human chromosomes 21 and 22 to establish my own prediction.  (+info)

(8/10766) Featured organism: Danio rerio, the zebrafish.

The zebrafish has long been a favourite model for the study of vertebrate development. Here we provide an overview of the current state of knowledge and resources for the study of this fish, with comments on the future direction of zebrafish genomics from Professor Mark Fishman and Dr Stephen Wilson.  (+info)

  • genes
  • According to the CDC, Public Health genomics is an emerging field of study that assesses the impact of genes and their interaction with behavior, diet and the environment on the population's health. (
  • Since the field of genomics takes into account the entire genome of an organism and not simply its individual genes, the study of latent viral infection falls into this realm. (
  • This has led to a deepened understanding of genomics and the role of genes in causing or preventing disease. (
  • 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 genes, which direct the production of proteins with the assistance of enzymes and messenger molecules. (
  • Synthetic genomics is unlike genetic modification in the sense that it does not use naturally occurring genes in its life forms. (
  • Social genomics researchers have thus examined the role of social factors (e.g. isolation, rejection) on the expression of individual genes, or more commonly, clusters of many genes (i.e. gene profiles, or gene programs). (
  • Ernest L. Rossi describes the new science of Psychosocial Genomics: "I call this new perspective on the role of genes as active players in psychological experience psychosocial genomics. (
  • genomic
  • To begin addressing this need for reliable information, CDC's Office of Public Health Genomics (OPHG) established the Evaluation of Genomic Applications in Practice and Prevention (EGAPP™) Initiative project to systematically evaluate genetic tests and other applications of genomic technology that are in transition from research to clinical and public health practice. (
  • With the rise of personalized medicine, and rapid advances in genomic sequencing technology and diagnostic testing, healthcare providers and consumers have an increased need for accurate information about genetic testing, genomics, and heritable conditions. (
  • Nutritional genomics is the application of high throughput functional genomic technologies in nutrition research. (
  • However, preliminary examples of predictive genomics for personalising healthcare include: using an individuals gene expression data to monitor progress to treatment, or using the genomic profile of the P450 drug metabolising system of individuals to assist dosage and selection. (
  • CD Genomics, a genomics services company, innovates sequencing services as well as genotyping and library construction to develop integrated systems of genomic products and services. (
  • Color Genomics is an American genomic testing company. (
  • week's
  • However, reports in this week's Nature powerfully demonstrate how genomics can lead to a new understanding of biodiversity, ecology and biogeochemistry. (
  • Nutritional
  • The link between diet and health is well established, but renewed interest in which dietary components are biologically active and how they exert their effects is being fuelled by the development of nutritional genomics. (
  • It also draws on consensus views for future challenges and opportunities reached at a recent EU funded workshop addressing nutritional genomics, hosted by the Institute of Food Research. (
  • utilizes
  • Predictive medicine describes the field of medicine that utilizes information, often obtained through personal genomics techniques, to both predict the possibility of disease, and institute preventative measures for a particular individual. (
  • Approaches
  • 2) Discuss the problems and opportunities inherent in coordinating and funding future cross-site collaborations in microbial ecological genomics, and we will discuss approaches to annotation and deposition molecular datasets and metadata. (
  • focuses
  • Cofactor Genomics focuses on RNA-Seq applications with the ability to handle low quantity and low quality samples. (
  • Psychosocial genomics focuses on the how the highly personal and subjective states of human consciousness can modulate gene expression in the brain and body for illness or health. (
  • company
  • Genomics plc is a spin-out company from the University of Oxford founded in 2014 by Professors Peter Donnelly and Gilean McVean. (
  • Pathway Genomics is a privately held global precision medical diagnostic company with mobile applications designed to empower physicians and their patients to take control of their health and wellness. (
  • personal
  • Predictive genomics is at the intersection of multiple disciplines: predictive medicine, personal genomics and translational bioinformatics. (
  • In 2014, IBM Watson Group announced its partnership with Pathway Genomics, to help "deliver the first-ever cognitive consumer-facing app based on genetics from a user's personal makeup. (
  • science
  • Genomics is indexed in: BIOBASE BIOSIS Biological Abstracts Biological and Agricultural Index Biosis Previews Chemical Abstracts Current Awareness in Biological Sciences Current Contents/Life Sciences EMBASE EMBiology Genetics Abstracts MEDLINE Pascal et Francis (INST-CNRS) Science Citation Index Scopus Genomics homepage. (
  • future
  • Although the applications of genomics have already found a place in many areas, there is potential for the study to revolutionize fields involving human and other life on earth even further in the future. (
  • Specifically, predictive genomics deals with the future phenotypic outcomes via prediction in areas such as complex multifactorial diseases in humans. (
  • Medicine
  • Genomics and Precision Medicine: How Can Emerging Technologies Address Population Health Disparities? (
  • Precision medicine is an application of genomics in the field of medicine that allows individualized information about a patient's genetic makeup to direct the type of treatment they receive. (
  • technologies
  • The development of synthetic genomics is related to certain recent technical abilities and technologies in the field of genetics. (
  • The TREC Genomics track was a workshop held under the auspices of NIST for the purpose of evaluating systems for information retrieval and related technologies in the genomics domain. (
  • website
  • Test are not delivered directly to the consumer, and must be ordered through a physician-either a family physician, specialist, or via the independent physicians that can be contacted through the Color Genomics website. (
  • species
  • In the study of S. pombe (more commonly known as fission yeast), a popular model organism, population genomics has been used to understand the reason for the phenotypic variation within a species. (
  • Precision
  • Pathway Genomics owns and operates a clinical laboratory accredited by the College of American Pathologists (CAP) and Clinical Laboratory Improvement Amendments (CLIA) which "provides physicians and their patients with actionable and accurate precision healthcare information to improve or maintain, health and wellness in more than 40 different countries. (
  • Studies
  • In the last few years there has been a dramatic increase in studies at LTER sites that have a focus in ecological genomics or metagenomics. (
  • 1) Review microbial studies in ecological genomics including manipulation experiments along latitudinal gradients and across time scales. (
  • Understanding and analyzing the vast data that comes from population genomics studies requires various mathematical models. (
  • topics
  • CDC experts and invited bloggers provide blog posts on topics in genomics that are important to health care providers, public health professionals, policy makers and the public. (
  • entire
  • Synthetic genomics is a nascent field of synthetic biology that uses aspects of genetic modification on pre-existing life forms, or artificial gene synthesis to create new DNA or entire lifeforms. (