Functional assessment of every gene in the mammalian cell is an on-going challenge. Understanding, not only the function of each gene in isolation but the complexity of functional networks and control systems is of particular importance for discovery of novel and valid drug targets. Answering complex biological questions in this context necessitates high- throughput gene functional characterization using an array of genomic, proteomic and in silico- based tools and technologies.  

Genomic applications map: Guide to terms in these glossaries    Site Map
Related glossaries include Sub-categories Metabolic engineering, Phylogenomics 
Applications Drug discovery & development, Proteomics Omes & omics
Informatics Bioinformatics, In silico & molecular modeling
Technologies Assays & screening  Gene amplification & PCR, Genetic Manipulation & disruption,  Microarrays
Biology Cell biology, Chemistry & biology  Expression  Gene Definitions, SNPs & genetic variations Nomenclature, particularly of genes in humans and in Model & other Organisms is an increasing challenge as comparing completed genomes becomes increasingly possible.  

age: The time period elapsed since an identifiable point in the life cycle of an organism. (If a developmental stage is specified, the identifiable point would be the beginning of that stage. Otherwise the identifiable point must be specified such as planting). MIAME Glossary, MGED http://www.mged.org/Workgroups/MIAME/miame_glossary.html 

A good illustration of the challenges inherent in cross species comparisons. 

animal model: Model & other organisms

applied molecular evolution: Combinatorial libraries & synthesis  

bacteriophage: Many phage have proved useful in the study of molecular biology and as vectors for the transfer of genetic information between cells … lambda bacteriophage can also undergo a lytic cycle or can enter a lysogenic cycle, in which the page DNA is incorporated into that of the host, awaiting a signal that initiates events leading to replication of the virus and lysis of the host cell. [Glick]  

The workhorse of phage display is the M13 bacteriophage virus.

Related terms: phage, phage display

biochemical function: My research is concerned with the three-dimensional structures of proteins and their biochemical functions. Gregory Petsko, Brandeis University, 2007 http://www.bio.brandeis.edu/faculty01/petsko.html

biochemical genomics: Chemistry & biology

biochemical networks, biochemical systems theory: Metabolic profiling

biological function: One key problem in this discussion involves the definition of "biological function".  Geneticists, cellular biologists, structural biologists, bioinformaticians, and biophysical chemists use this term to mean different things.  Some speakers used the word "function" to refer to the general biochemical activity of the gene produce (e.g. kinase activity), others referred to the cellular process in which the gene product is involved, while to others "function" meant an understanding of the details of the atomic mechanism of catalysis or recognition.  Still others referred to function in the genetic sense of a generalized phenotype.  This lack of consensus in defining what aspect of function one might learn about from an examination of protein structure prevented the group from reaching a consensus on the role that large scale structural genomics will have in the related area of functional genomics.  G. T. Montelione and S. Anderson, Report to the National Science Foundation:  Workshop on Structural Genomics - Understanding Proteins Universal to Life" Advanced Photon Light Source, Argonne Natl. Laboratories, Jan. 23 - 25, 1998

Related terms: biological process, Gene Ontology (GO)

biological process: A biological objective to which the gene or gene product contributes. Gene Ontology Consortium "Gene Ontology: tool for the unification of biology Nature Genetics 25: 25-29 May 2000

A biological process is accomplished via one or more ordered assemblies of molecular functions. Usually there is some temporal aspect to it, although a process event may be essentially instantaneous. It often involves transformation, in the sense that something goes into a process and something different comes out of it. ...  A biological process is not equivalent to a pathway. We are specifically not capturing or trying to represent any of the dynamics or dependencies that would be required to describe a pathway. [The semantic distinction between a biological process and a molecular function can, at times, be hard to draw, and GO takes a pragmatic, rather than dogmatic, approach: As a general rule a process must have >1 distinct steps.] Gene Ontology Consortium General Documentation, 2001  http://www.geneontology.org/doc/GO.doc.html

biopanning: Encompasses aspects of both ‘encoded one bead, one compound’ and the reductive approaches employed in chemistry. Biopanning is generally applied to display libraries, such as phage, bacterial, ribosome , RNA or on-bead display libraries, in which proteins are physically linked to their encoding sequence. This enables large libraries to be expressed and screened en masse for their ligand- binding properties. The library is screened by several rounds of biopanning, whereby the complexes are incubated with the desired target molecule, which is typically immobilized on a solid support. Subsequent washing removes the weakly binding proteins while retaining the desired proteins, which are then eluted for the next round of biopanning. Successively smaller numbers of displayed proteins are screened until ‘active’ proteins are isolated. The identity of the active protein borne on the display vehicle is established by sequencing the linked encoding sequence (DNA or RNA) of the carrier vehicle (phage, bacteria, ribosome or bead). Marcus D. Hughes, Zhan-Ren Zhang, Andrew J. Sutherland, Albert F. Santos and Anna V. Hine, Discovery of active proteins directly from combinatorial randomized protein libraries without display, purification or sequencing: identification of novel zinc finger proteins, Nucleic Acids Research 2005 33(3):e32; doi:10.1093/nar/gni031 http://nar.oupjournals.org/cgi/content/full/33/3/e32 

Also referred to as panning.

candidate gene approach: SNPS & Genetic variations

cellular signaling networks: Metabolic profiling

chemical genetics, chemical genomics,  chemogenomics: Drug discovery & development

chemical mutagenesis: Chemistry & biology

comparative genomics: "We believe that the problem of the genome- phenotype connection, which, in a sense, is the central theme of biology, can be solved only through an experimental program strategically planned on the basis of comparative- genomic results. Much of the biological research of the next few decades is likely to develop along these lines. E. Koonin et al "The Impact of Comparative Genomics on our Understanding of Evolution" Cell 101:573-576 June 9, 2000 

Insights can be biochemical, genetic, metabolic and or physiological. The practice of uncovering the functions of human genes and other DNA regions by studying their parallels in nonhumans. 

Background on Comparative Genomic Analysis, NHGRI, 2007 http://www.genome.gov/10005835  
Wikipedia http://en.wikipedia.org/wiki/Comparative_genomics   

Related terms: biological process, molecular function,  Gene Ontology Consortium; Cell biology cellular components; Maps genomic & genetic comparative genome mapping; Model & other organisms; Phylogenomics comparative proteomics, evolutionary genomics,  

Narrower terms: comparative plant genomics, vertebrate comparative genomics

comparative metabolomics: Omes & omics

comparative plant genomics: With the publication of two draft  sequences of the complete rice genome (Science 296 ( ): 76, 92, 5 April 2002), in addition to Arabidopsis (Model & other organisms) the possibility of comparative plant genomics is upon us. 

comparative proteomics: Proteomics categories

complex genomes: Genomics

conditional knockout, Cre-lox:  Genetic manipulation & disruption  

DNA shuffling: Gene Manipulation & Disruption

deductive genomics:  deductive genomics, or large-scale forward genetics, bridges the gap between sequence and function by providing a function-driven in vivo screen of a highly orthologous mammalian model genome for medically relevant physiological functions and drug targets. This approach allows drug discovery to move beyond the focus on sequence-driven identification of new members of classical drug-able protein families towards the biology-driven identification of innovative targets and biological pathways. Deductive genomics: a functional approach to identify innovative drug targets in the post-genome era. Stumm G, Russ A, Nehls M., Am J Pharmacogenomics. 2(4): 263- 271, 2002 

discovery driven research: Research

embryonic lethal trait: Genetic manipulation & disruption 

enzymome: Omes & omics

evolutionary genomics, evolutionary homology: Phylogenomics

exon shuffling theory: Genetic manipulation & disruption

exon trapping (exon amplification), forward genetics, forward genomics: Genetic manipulation & disruption

forward genetics, forward genomics: Genetic manipulation & disruption

function: The vagueness of the term 'function' when applied to genes or proteins emerged as a particular problem, as this term is colloquially used to describe biochemical activities, biological goals and cellular structure. Gene Ontology Consortium "Gene Ontology: tool for the unification of biology Nature Genetics 25: 25-29 May 2000 

Narrower terms:  biological function, gene function; Proteomics protein function. Related terms: Gene Ontology ^TM ;  Omes & omics functome, transcriptome

functional bioinformatics: Bioinformatics

functional cloning:  Genetic manipulation & disruption 

functional genome annotation: Functional annotation of the genome is primarily hampered by the lack of a unified transcript index. Current transcript information still largely consists of anonymous and highly redundant ESTs. The situation is further complicated by extensive splicing variation and elusive gene expression. To address these problems, the Ensembl consortium relies initially on computational prediction, followed by confirmation with EST/ protein alignments... We have found evidence for a large number of transcriptional units (65,000- 75,000) and performed initial annotation and classification. The effective study of transcription and protein function requires the compilation of all available evidence of transcription and protein homology. FA Wright et. al. A draft annotation and overview of the human genome, Genome Biology 2(7): 2001 http://genomebiology.com/2001/2/7/research/0025

functional genomic data - integration with proteomic: Proteomics

functional genomics:  The development and application of global (genome- wide or system- wide) experimental approaches to assess gene function by making use of the information and reagents provided by structural genomics [in the original more limited sense of construction of high- resolution genetic, physical and transcript maps of an organism]. It is characterized by high throughput or large- scale experimental methodologies combined with statistical and computational analysis of the results. The fundamental strategy is to expand the scope of biological investigation from studying single genes or proteins to studying all genes or proteins at once in a systematic fashion. Phil Hieter and Mark Boguski "Functional Genomics: It's All How You Read It" Science 278: 601- 602, October 24, 1997

Functional genomics aims to discover the biological function of particular genes and to uncover how sets of genes and their products work together in health and disease. In its broadest definition, functional genomics encompasses many traditional molecular genetic and other biological approaches. 

Google = 199,000 Feb. 4, 2004,  = about 2,080,000 Nov 7, 2005, about 1,640,000 July 24, 2007

Related terms: biological process,  genome function,  molecular function, Metabolic profiling networks, pathways,  physiological genomics;  Phylogenomics comparative genomics, homology, phylogenomics,

functional genomics data: A useful way to tackle noise and complexity of functional genomics information is to average the data from many different genes into broad 'omic categories (Jansen & Gerstein 2000. For instance, instead of looking at how the level of expression of an individual gene changes over a time- course, we can average all the genes in a functional category (e.g. glycolysis) together. This gives a more robust answer about the degree to which a functional system changes over the time- course. Dov Greenbaum, Mark Gerstein et. al. "Interrelating Different Types of  Genomic Data" Dept. of Biochemistry and Molecular Biology, Yale Univ. 2001 http://bioinfo.mbb.yale.edu/e-print/omes-genomeres/text.pdf.

Related terms: Omes & omics

functional genomics technologies: Conditional or tissue- specific gene expression in animal models is a major area of interest. Other increasingly popular methods of downregulating gene expression, in order to study function, include antisense, ribozyme, and zinc finger protein (ZFP) approaches. In addition, a limited number of companies have developed chemical- genetics methods.

Include gene disruption, gene manipulation, gene shuffling, gene targeting, gene trapping, knockdowns, knockins, knockouts, mutagenesis, phage display, positional cloning, Post Translational Gene Silencing PTGS; Genetic Manipulation & Disruption RNA interference RNAi.  Related terms chemical genetics, chemical genomics

functional glycomics: Glycosciences

Google = about  742  Feb. 4, 2004, about 389,000 July 24, 2007

functional homology: Sequence homology does not necessarily indicate functional homology. A number of labs are working with yeast and other non-human organisms to try to determine what the relationship between sequence and function might be, if there is any.

Google = about 4,260  Feb. 4, 2004, about 109,000 July 24, 2007

functional imaging: Molecular Imaging

functional informatics: Bioinformatics

Google = about 36  Feb. 4, 2004, about 1,010 July 24, 2007

functional maps: Maps: genomic & genetic

functional metabolics: Metabolic profiling  
Google = about 9  Feb. 4, 2004, about 7 July 24, 2007

Related terms: metabolic profiling; Expression gene and protein;  Omes & omics metabolome, metabolomics, metabonome, metabonomics

functional profiling:  Linking genes and proteins to disease. 

functional proteomics: Proteomics

Google = about 8,480  Feb. 4, 2004, about 167,000 July 24, 2007

functome, functomics : -Omes & -omics

gene disruption: Genetic manipulation & disruption

gene expression networks: Expression, genes & beyond

gene function: A chart from NCBI’s Cluster of Orthologous Groups (COGs) of proteins database lists as functional annotation descriptions: information storage and processing (translation, ribosomal structure and biogenesis, transcription, DNA replication, recombination and repair) Cellular processes (cell division and chromosome partitioning, post- translational modification, protein turnover, chaperones, cell envelope biogenesis, outer membrane, cell motility and secretion, inorganic ion transport and metabolism, signal transduction mechanisms) metabolism (energy production and conversion, carbohydrate transport and metabolism, amino acid transport and metabolism, nucleotide transport and metabolism, coenzyme metabolism, lipid metabolism) and poorly characterized.  [NCBI, COG website]    http://www.ncbi.nlm.nih.gov/COG/  

gene functional analysis: The lack of a common language for gene functions is … proving to be a serious problem. E Pennisi "Seeking common language in a Tower of Babel" Science 286 (5439): 449 Oct. 15 1999

The nature of gene function was substantially specified by George W. Beadle and Edward Tatum [19] and Adrian M. Srb and Norman H. Horowitz [20] when they showed, using Neurospora crassa (Ascomycetes) as their experimental organism, that genes control the synthesis of enzymes, and in particular that each individual gene is responsible for the synthesis of one single enzyme. This one gene - one enzyme hypothesis was the culmination of the classical view of the gene. ... The classical concept of the gene started to break down as soon as it had been completely formulated.  Petter Portin in "The Origin, Development and Present Status of the Concept of the Gene: A Short Historical Account of the Discoveries" Univ. of Turku, Finland, Current Genomics, 2000   http://www.bentham.org/cg/sample/cg1-1/Portin.pdf

Related terms: biological function, function, genome function, molecular function; protein function Proteomics

gene interference, gene knockout, gene manipulation: Genetic manipulation & disruption

Gene Ontology^TM (GO):  The Gene Ontology project provides a controlled vocabulary to describe gene and gene product attributes in any organism. … GO terms are organized in structures called directed acyclic graphs (DAGs), which differ from hierarchies in that a child, or more specialized, term can have many parent, or less specialized, terms. http://www.geneontology.org/

A collaborative effort to address the need for consistent descriptions of gene products in different databases. The project began as a collaboration between three model organism databases: FlyBase (Drosophila), the Saccharomyces Genome Database (SGD) and the Mouse Genome Database (MGD) in 1998. Since then, the GO Consortium has grown to include many databases, including several of the world's major repositories for plant, animal and microbial genomes. An introduction to the Gene Ontology http://www.geneontology.org/GO.doc.shtml

Gene Ontology: tool for the unification of biology. The Gene Ontology Consortium (2000) Nature Genet. 25: 25-29 http://www.geneontology.org/GO_nature_genetics_2000.pdf

Gene Ontology Faq-O-Matic Gene Ontology Consortium

GO Term definitions, Gene Ontology Consortium ^TM http://www.geneontology.org/ontology/GO.defs

Gene Ontology Annotation Project: Gene Ontology controlled vocabulary will be applied to a non- redundant set of proteins described in the Swiss- Prot, TrEMBL and Ensembl databases that collectively provide complete proteomes for Homo sapiens and other organisms.  European Bioinformatics Institute, UK http://www.ebi.ac.uk/GOA/

Related terms: biological process, molecular function; cellular component Cell biology; Computers & computing controlled vocabulary; Broader terms: Information management & interpretation: ontology, taxonomy

gene shuffling, gene suppression: gene targeting, gene titration, gene trapping: Genetic manipulation & disruption 

genome function: Efficient interpretation of the functions of human genes and other DNA sequences requires that resources and strategies be developed to enable large- scale investigations across whole genomes. A technically challenging first priority is to generate complete sets of full- length cDNA clones and sequences for human and model- organism genes. Other functional genomics goals include studies into gene expression and control, creation of mutations that cause loss or alteration of function in nonhuman organisms, and development of experimental and computational methods for protein analyses. [Oak Ridge National Lab, Human Genome Management Information Services, US] http://www.ornl.gov/hgmis/resource/function.html

genome integrity: Maintaining the integrity of genetic information is fundamental for the life of a cell and the survival of a species. Cells can encounter DNA damage as a consequence of normal cellular metabolism or as a result of exposure to chemical or physical agents. Humpath.com http://www.humpath.com/genome-integrity 

Related term: DNA repair

genotype to phenotype: Pharmacogenomics

homolog, homologue, homologous: Used by geneticists in two different senses: (1) one member of a chromosome pair in diploid organisms, and (2) a gene from one species - -for example, the mouse - -that has a common origin and functions the same as a gene from another species -- for example, humans, Drosophila, or yeast. [NHLBI] 

Related terms: Phylogenomics lateral genomics, ortholog, orthologous, paralog, paralogous, synologous, xenolog, xenologous; Model organisms; Structural genomics homology modeling

This is different from homologue as defined in the Pharmaceutical biology

homology:  The relationship among sequences due to descent from a common ancestral sequence. An important organizing principle for genomic studies because structural and functional similarities tend to change together along the structure of homology relationships. When applied to nucleotide or protein sequences, means relationship due to descent from a common ancestral sequence. Two DNA molecules (or regions thereof) are homologous if they both "descended" through a series of replication from a single DNA strand … The terms "homology" and "similarity" are often, incorrectly, used interchangeably.

Homology has been used by various people with different meanings, even though similarity was a common denominator among these meanings. The two most important of these meanings related homology to similar structures and/ or to similar functions. By structures I mean both molecular sequences and morphology. Life would have been simple had phylogenetic homology necessarily implied structural homology or either of them necessarily implied functional homology. However, they map onto each other imperfectly and my definition of homology includes all forms of characters. We could reduce confusion by always indicating the kind of homology we are referring to when using the tern. Walter Fitch "Homology a personal view on some of the problem" Trends in Genetics 16 (5): 227-231 May 2000

Note that homology can be genic, structural, functional or behavioral.  

Wikipedia http://en.wikipedia.org/wiki/Homology_%28biology%29 

Related terms: Drug targets target homology  Phylogenomics evolutionary homology, orthology, paralogy, similarity; Proteomics;  regulatory homology;  Sequencing sequence homology;  Structural genomics homology modeling, structural homology; 

horizontal gene transfer: See xenology; Related term: microbiome Omes & omics

hypomorph: Loss of function.  

Related term: null mutation

hypothesis-driven research:  Research

insertional mutagenesis: Genetic manipulation & disruption 

interactions- molecular: Related terms: Biomolecules  biomolecular interactions; Omes & omics interactome; Proteomics protein- DNA interactions, protein- protein interactions, protein- RNA interactions; RNAi: RNA- RNA interactions

knockdown, knockin, knockout: Genetic manipulation & disruption 

knockout mice: Model & other organisms

Knockout-mouse technology is considered an essential and standard technique in functional genomics and target validation. 

lambda phage: See under bacteriophage

library, library - genomic:  Combinatorial libraries & synthesis

loss of function: Genetic manipulation & disruption

metabolic engineering, metabolite: Metabolic Profiling

metabolite expression; metabolite systems biology: Expression

molecular breeding, molecular evolution: Genetic manipulation & disruption 

molecular function: The biochemical activity including specific binding to ligands or structures) of a gene product. This definition also applied to the capability that a gene product (or gene product complex) carries as a potential. It describes only what is done without specifying where or when the event actually occurs.  Gene Ontology Consortium "Gene Ontology: tool for the unification of biology Nature Genetics 25: 25-29 May 2000

There is a potential for semantic confusion between a gene product and its molecular function, because very often these are described in exactly the same words. For example, "alcohol dehydrogenase" can describe what you can put in an Eppendorf tube (gene product) or it can describe the function of this stuff. There is, however, a formal difference -- a "product" has a (potentially) many- to- many relationship with a "molecular function."  Gene Ontology Consortium General Documentation, 2001 http://www.geneontology.org/GO.doc.html  

Related terms: biological function, biological process, function, gene function, Gene Ontology^TM; Cell biology cellular component Gene definitions gene product 

mutagenesis: Genetic manipulation & disruption 

null mutation: SNPs & Genetic variations

OBO Foundry Ontologies http://obofoundry.org/ 

ortholog (orthologue): That relationship where sequence divergence follows speciation, that is, where the common ancestor of the two genes lines in the cenancestor of the taxa from which the two sequences were obtained … There is a tendency to wish that there could be only one ortholog in an organism. This is frequently not the case. [Walter Fitch “Homology a personal view on some of the problem” Trends in Genetics 16 (5): 227-231 May 2000].

Narrower term: Phylogenomics super- orthologs

orthologous: Homologous sequences in different species that arose from a common ancestral gene during speciation; may or may not be responsible for a similar function. [NCBI Bioinformatics]  

paralog (paralogue): That condition where sequence divergence follows gene duplication. Such genes might descend and diverge while existing side by side in the same lineage. [Walter Fitch “Homology a personal view on some of the problem” Trends in Genetics 16 (5): 227-231 May 2000].

Narrower term: Phylogenomics ultra- paralogs

paralogous: Homologous sequences within a single species that arose by gene duplication. [NCBI Bioinformatics]   

Related term:  SNPs & Genetic variations duplication  

Pathogen Functional Genomics Resource Center PFGRC: A centralized facility providing the research community with resources necessary to conduct functional genomics research on human pathogens and invertebrate vectors of infectious diseases. The PFGRC provides scientists with genomic resources and reagents such as microarrays, protein expression clones, genotyping and bioinformatics services. The PFGRC supports the training of scientists in the latest techniques in functional genomics and emerging genomic technologies. PFGRC, NIAID, NIH, 2005 http://www.niaid.nih.gov/dmid/genomes/pfgrc/default.htm   

pathway modeling: In silico & molecular modeling

pathways: Metabolic profiling 

peptide display, phage, phage display: Genetic manipulation & disruption 

phenotype to genotype: Pharmacogenomics

phenotypic screening: Assays & screening

phylogenomics: Phylogenomics    phylome: Phylogenomics

positional candidates: The positional candidate approach relies on a three- step process that saves time and effort: (1) localizing a disease gene to a chromosomal subregion, generally by using traditional linkage analysis; (2) searching databases for an attractive candidate gene within that subregion; and (3) testing the candidate gene for disease- causing mutations. ... Since 1990, scientists have used this approach to find genes implicated in such conditions as Marfan syndrome, inherited nonpolyposis colon cancer, retinitis pigmentosa, long QT syndrome, Jackson-Weiss syndrome, Crouzon syndrome, Alzheimer's disease, and several others. ["Positional Cloning Approach Expedites Gene Hunts" Human Genome News, Mar.-Apr. 1995; 6(6): 1]  http://www.ornl.gov/hgmis/publicat/hgn/v6n6/1kuska.html

Related terms: functional cloning, positional cloning.

positional cloning: Involves using a genetic map to determine the location of a disease gene. Researchers use such maps to analyze genetic markers in extended families that include individuals affected by a heritable disease, and to pinpoint regions of the genome that are associated with the disease. They then use that information to isolate the DNA from the region, and to identify and sequence the disease gene and identify mutations. 

A process which, through gene mapping techniques, is able to locate a gene responsible for a disease when little or no information is known about the biochemical basis of the disease. [NHGRI]

In the new genomic era, positional cloning is a key tool of  forward genetics. Like other forward genetics strategies, positional cloning starts with a phenotype, for example a Mendelianly inherited human disease trait. However, positional cloning requires a genetic map with a large number of markers (especially in the region of interest), and the use of physical mapping and DNA sequencing technologies to isolate and sequence the targeted gene. A disease gene is usually identified from among candidate genes in the region of interest by showing that affected individuals carry mutations within that gene. [CHI Functional Genomics report]

Positional cloning was incorrectly called "reverse genetics" early on. Reverse genetics in its purest definition refers to the analysis of gene function by assaying proteins expressed from gene variants. "[Positional cloning] is not "reverse" at all, but rather genetics in its purest form, unadulterated by any influences of biochemistry, cell biology or physiology." ( Francis S Collins "Positional cloning: Let’s not call it reverse anymore" Nature Genetics. 1: 3-6, 1992) 

The term "positional cloning" was coined by Francis Collins.

Related terms: functional cloning, positional candidate approach;  Genetic variations and SNPs candidate gene approach; Maps- genomic & genetic

Post-Transcriptional Gene Silencing PTGS: Genetic manipulation & disruption

protein knockouts: Proteins

protein function: Proteomics

RNAi, RNA interference, Genetic Manipulation & Disruption  

RNA silencing:  Genetic Manipulation & Disruption 

random homozygous knockout: Genetic manipulation & disruption

regulatory homology: Proteomics

regulatory networks: See under networks. Related terms: Omes & omics regulatory, regulome, regulomics

reverse genetics, reverse genomics, ribosome display, saturation mutagenesis, second site mutations: Genetic manipulation & disruption

robogenomics: -Omes & -omics

sequence homology: Sequencing

shuffling: Genetic manipulation & disruption See DNA shuffling, domain shuffling, exon shuffling, gene shuffling, protein shuffling 

signal transduction: Metabolic engineering 

similarity: how related one nucleotide or protein sequence is to another. The extent of similarity between two sequences is based on the percent of sequence identity and/or conservation. DOE, Glossary of Bioinformatics Terms, 2002 http://www.ornl.gov/sci/techresources/Human_Genome/posters/chromosome/genejargon.shtml 

Related term: homology

siRNA Small interfering RNA: RNA May be useful in assessing gene function

Related terms: Genetic manipulation & disruption RNAi, Post-Transcriptional Gene Silencing PTGS

site-directed mutagenesis: Genetic manipulation & disruption

standards and ontologies - functional genoics: Standards and ontologies for functional genomics,  http://www.sofg.org/

structural homology: Structural genomics

synology: See under xenology

systems biology: Genetic manipulation & disruption

targeted mutation: Genetic manipulation & disruption

transcriptome, transcriptomics: Omes & omics

transgenic: Model & other organisms

translatome:-Omes & omics

transposon: Gene definitions

xenology (xenologous): That conditional (horizontal transfer) where the history of the gene involves an interspecies transfer of genetic material. It does not include transfer between organelles and the nucleus.  It is the only form of homology in which the history has an episode where the descent is not from parent to offspring but, rather, from one organism to another … Gogarten has proposed a special term, synology, for those xenologs that arise, not by the transfer of a gene between two species, but by a hybridization of two species.  Walter Fitch “Homology a personal view on some of the problems” Trends in Genetics 16 (5): 227-231 May 2000

Bibliography
Comparative & Functional Genomics Fact Sheet,  Human Genome Project Information, Oak Ridge National Lab, 2007 http://www.ornl.gov/sci/techresources/Human_Genome/faq/compgen.shtml 
MIAME Glossary, MGED, 2005 about 80 terms  http://www.mged.org/Workgroups/MIAME/miame_glossary.html 
NCBI Bioinformatics glossary, National Center for Biotechnology Information, 2000. 40 terms. http://www.ncbi.nlm.nih.gov/Education/BLASTinfo/glossary2.html 
Science Magazine "Functional Genomics" website http://www.sciencemag.org/feature/plus/sfg/  Archived since Feb 2005

Alpha glossary index

How to look for other unfamiliar  terms

IUPAC definitions are reprinted with the permission of the International Union of Pure and Applied Chemistry.