and interpretation either directly, or via user downloads . Microarraydatabases can fall ... NextBio uses various sources Some of the most known public, curated microarraydatabases are In order to keep this list short, please add new databases only if they are discussed in the article ... Gene Expression Databases See also Biological database DNA microarray DNA microarray Data warehousing ...The term microarray database is usually used to describe a wikt repository repository containing DNA microarraymicroarray gene expression data. The key features of a microarray database are to store the measurement ..., or academic. These databases might have one or more of the following characteristics A subscription ... repository for microarray data. See http www.med.yale.edu microarray YMD , last updated in 2003, for example ... analysis application , which incorporates studies from one or more public databases e.g. http www.bioinformatics.ubc.ca ... add your favourite databases to the maintained list at the Open Directory Project, linked below. class wikitable sortable Database Scope Microarray experiment sets Sample profiles As of date http www.fda.gov ... microarray data 2500 65000 Jan, 2012 http www.ncbi.nlm.nih.gov geo Gene Expression Omnibus NCBI ... 708914 October 28, 2011 http smd.stanford.edu Stanford Microarray database private and published microarray and molecule abundance database 82542 ? October 23, 2011 http www.genenetwork.org GeneNetwork ... studies with analysis suite 100 10000 July, 2010 https genome.unc.edu 8443 nimblegen UNC modENCODE Microarray ... UPSC BASE data generated by microarray analysis within Ume Plant Science Centre UPSC . 100 ? November ..., associated with ArrayExpress 100 2500 Sept. 1, 2007 https genome.unc.edu UNC Microarray database provides the service for microarray data storage, retrieval, analysis, and visualization 31 2093 ... is a repository for DNA microarray data generated by MUSC investigators as well as researchers ... Cancer data, prepared for analysis on caBIG 41 1741 November 15, 2006 For a directory of Microarray ... more details
sisterlinks q no commons no species no s no n no A microarray is a multiplex assay multiplex lab on a chip . It is a 2D array on a Substrate materials science solid substrate usually a glass slide or silicon thin film cell that assays large amounts of biological material using high throughput screening methods. Types of microarrays include DNA microarray s, such as cDNA microarrays, oligonucleotide microarrays and SNP microarrays MMChip s, for surveillance of microRNA populations Protein microarray s Peptide microarray s, for detailed analyses or optimization of protein protein interactions Tissue microarray s Cellular microarray s also called transfection microarrays Chemical compound microarray s Antibody microarray s Carbohydrate array s glycoarrays Category Microarrays de Microarray nl microarray ja ur ... more details
A DNA microarray also commonly known as gene chip, DNA chip, or biochip is a collection of microscopic ... to determine relative abundance of nucleic acid sequences in the target. The basic microarray Since an array can contain tens of thousands of probes, a microarray experiment can accomplish many genetic ..., in which case they are colloquially known as an Affy chip when an Affymetrix chip is used. Other microarray ... synthesis of oligonucleotide probes on solid surfaces. DNA arrays are different from other types of microarray ... polymorphism s SNPs , or to genotype or resequence mutant genomes see DNA microarray Uses and types ..., and cost see DNA microarray Fabrication fabrication section . Additional factors for microarray experiments are the experimental design and the methods of analyzing the data see DNA microarray Microarrays and bioinformatics Bioinformatics section . History Microarray technology evolved from Southern ... with a complementary DNA microarray journal Science volume 270 pages 467 470 pmid 7569999 doi 10.1126 ... on a microarray was published in 1997. ref name Lashkari et al. cite journal author Lashkari ... hybridization Details DNA microarray experiment KEEP SECTION SIMPLE The core principle behind microarrays ... and the identity of the feature is known by its position. File Microarray exp horizontal.svg thumb 900px none The steps required in a microarray experiment. Uses and types Image Affymetrix microarray.jpg ... can be placed in known locations on a single DNA microarray. The alternative bead array is a collection ... stages on gene expression. For example, microarray based gene expression profiling can be used ..., or pathogens for disease detection, mostly combining PCR and microarray technology. ChIP on chip ... can be then hybridized to a microarray such as a tiling array allowing the determination of protein ... to ChIP , genomic regions bound by a protein of interest can be isolated and used to probe a microarray ... genes, and can be used for detecting different splicing isoforms. Fusion gene s microarray A Fusion ... more details
Image Tissue MicroArray Block.jpg 215px thumb right A Tissue MicroArray Block Image rob7 melanoma.jpg 215px thumb right 0.6 mm core Tissue MicroArray Block Image Tissue MicroArray Slide.jpg 215px thumb right A Tissue MicroArray Section Tissue biology Tissue microarrays also TMA s consist of paraffin blocks in which up to 1000 ref http tissuearray.org yale tisarray.html Yale University Core Tissue MicroArray Facility ref separate Biological tissue tissue cores are assembled in array fashion to allow multiplex assay multiplex Histology histological analysis . History The major limitations in molecular Clinical research clinical analysis of tissues include the cumbersome nature of procedures, limited availability of medical diagnosis diagnostic reagents and limited patient sample size. The technique of tissue microarray was developed to address these issues. Multi tissue blocks were first introduced by H. Battifora in 1986 with his so called multitumor sausage tissue block and modified in 1990 with its improvement, the checkerboard tissue block . In 1998, J. Kononen and collaborators developed the current technique, which uses a novel sampling approach to produce tissues of regular size and shape that can be more densely and precisely arrayed. Procedure In the tissue microarray technique, a hollow needle is used to remove tissue cores as small as 0.6 mm in diameter from regions of interest ... by any method of standard histological analysis. Each microarray block can be cut into 100 500 sections, which can be subjected to independent tests. Tests commonly employed in tissue microarray ... useful in analysis of cancer samples. See also Cytomics MicroArray and Gene Expression MAGE .... External links http tissuearray.org Yale University Core Tissue MicroArray Facility http tmalab.jhmi.edu Johns Hopkins University Tissue MicroArray Facility https cbio.mskcc.org tma Memorial Sloan Kettering Cancer Center Tissue MicroArray Software http bioitalliance.org blogs ocimum archive 2007 10 ... more details
refimprove date June 2008 Image Antibody microarray.jpg thumb right 300 px Samples of antibody microarray creations and detections. An antibody microarray is a specific form of protein microarray s, a collection of capture antibodies are spotted and fixed on a solid surface such as glass, plastic or silicon chip, for the purpose of detecting antigens. Antibody microarray is often used for detecting protein expression s from cell lysate s in general research and special biomarker s from blood plasma serum or urine for diagnostic applications. ref name pmid18837515 cite journal author Rivas LA, Garc a Villadangos M, Moreno Paz M, Cruz Gil P, G mez Elvira J, Parro V title A 200 antibody microarray biochip for environmental monitoring searching for universal microbial biomarkers through immunoprofiling journal Anal. Chem. volume 80 issue 21 pages 7970 9 year 2008 month November pmid 18837515 doi 10.1021 ac8008093 ref ref name pmid18370316 cite journal author Chaga GS title Antibody arrays for determination of relative protein abundances journal Methods Mol. Biol. volume 441 issue pages 129 51 year 2008 pmid 18370316 doi 10.1007 978 1 60327 047 2 9 ref Background The theoretical background for protein microarray based ligand binding assays was initially developed by Ekins et al. in the late ..., S, Luft, P, Duschl, A, Syagailo, YV title Antibody microarray based profiling of complex specimens ... samples and many other sample types. One main focus in antibody microarray based profiling studies ... related research the development and application of an antibody microarray comprising 810 different ... profiling of complex samples with a microarray of 810 cancer related antibodies. journal Molecular ... http www.mcponline.org content 9 6 1271.abstract ref . See also ELISA protein microarray DNA microarray tissue microarray chemical compound microarray References Reflist External links http www.biosims.fr en home BioSIMS Microarrays DEFAULTSORT Antibody Microarray Category Microarrays ... more details
Nofootnotes article date April 2012 A protein microarray , sometimes referred to as a protein binding microarray , provides a multiplex assay multiplex approach to identify protein protein interactions, to identify the substrates of protein kinase s, to identify transcription factor protein activation, or to identify the targets of biologically active small molecules. The array is a piece of glass on which different molecules of protein or specific DNA binding sequences as capture probes for the proteins have been affixed at separate locations in an ordered manner thus forming a microscopic array. The most common protein microarray is the antibody microarray , where antibodies are spotted onto the protein chip and are used as capture molecules to detect proteins from cell lysate solutions. Related microarray technologies also include DNA microarray s, cellular microarray s, antibody microarray s, tissue microarray s and chemical compound microarray s. Applications Protein microarrays also biochip , proteinchip are measurement devices used in biomedical applications to determine the presence and or amount referred to as relative quantitation of proteins in biological samples, e.g. blood . They have the potential to be an important tool for proteomics research. Usually a multitude of different capture agents, most frequently monoclonal antibodies , are deposited on a chip surface glass or silicon in a miniature array. This format is often also referred to as a microarray a more general term for chip based biological measurement devices . Types of chips There are several types ... detection method is compatible with standard microarray scanners, the spots on the resulting image can be quantified by commonly used microarray quantification software packages. However ... Plasmon Resonance. See also Antibody microarray Cellular microarray Chemical compound microarray DNA microarray Tissue microarrayMicroArray and Gene Expression MAGE Cell free protein array Software source ... more details
A cellular microarray , is a laboratory tool that allows for the multiplex assay multiplex interrogation of living cell biology 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. Combinations of different materials can be spotted in a given area, allowing not only cellular capture, when a specific interaction exists, but also the triggering of a cellular response, change in phenotype , or detection of a response from the cell, such as a specific secretion secreted factor. An example of cellular microarrays are PMHC Cellular Microarrays . Cellular microarrays were developed by Daniel Chen, Yoav Soen, Dan Kraft, Patrick Brown and Mark Davis at Stanford University Medical Center . References Chen DS, Davis MM 2006 Molecular and functional analysis using live cell microarrays. Curr Opin Chem Biol 10 28 34 Chen DS, Soen Y, Stuge TB, Lee PP, Weber JS, Brown PO, Davis MM 2005 Marked Differences in Human Melanoma Antigen Specific T Cell Responsiveness after Vaccination Using a Functional Microarray. PLoS Med 2 10 e265 http medicine.plosjournals.org perlserv ?request get document&doi 10.1371 2Fjournal.pmed.0020265 Soen Y., Chen D. S., Kraft D. L., Davis M. M. and Brown P.O. 2003 Detection and characterization of cellular immune responses using peptide MHC microarrays. PLoS Biol. 1 E65 http biology.plosjournals.org perlserv ?request get document&doi 10.1371 journal.pbio.0000065 Chen DS, Davis MM 2005 Cellular immunotherapy Antigen recognition is just the beginning. Springer Semin Immunopathol 27 119 127 Chen DS, Soen Y, Davis MM, Brown PO 2004 Functional and molecular profiling of heterogeneous tumor samples using a novel cellular microarray. J Clin Oncol 22 9507 http meeting.jco.org cgi content ... microarray identifies functional deficiences in tumor specific T cell responses. J Clin Oncol 22 2510 ... more details
wikify reason Needs infobox daye March 2012 date March 2012 A peptide microarray also commonly known as peptide chip or peptide epitope microarray is a collection of peptides displayed on a solid surface, usually a glass or plastic chip. Peptide chips are used by scientists in biology, medicine and pharmacology to study binding properties and functionality and kinetics of protein protein interactions in general. In basic research, peptide microarray s are often used to profile an enzyme like kinase , phosphatase , protease , acetyltransferase , histone deacetylase etc. , to map an antibody epitope or to find key residues for protein binding. Practical applications are biomarker discovery seromarker discovery , profiling of changing humoral immune responses of individual patients during disease progression, monitoring of therapeutic interventions, patient stratification and development of diagnostic ... of results Data analysis and evaluation of results is the most important part of every microarray ... Zettl first7 UK last8 Thiesen first8 HJ title Computational analysis of high density peptide microarray ... 90 doi 10.1016 j.autrev.2011.05.010 journal Autoimmunity reviews ref After scanning the microarray ... image enables interpretation and quantification of each fluorescent spot on the scanned microarray ... events or peptide modifications on the microarray slide. For evaluation and interpretation of detected ... file and supplied together with the peptide microarray. The .gal file a tab separated text file can be opened using microarray evaluation software modules or processed with a text editor e.g. notepad ... show several advantages over protein microarray s Detection of binding events on epitope ... j.jaci.2009.05.024 title Development of a novel peptide microarray for large scale epitope mapping of food ... ref Profiling of antibody signatures ref cite journal doi 10.1128 CVI.00208 09 title Peptide Microarray ... of molecular biology ref Production of a peptide microarray A peptide microarray is a planar slide ... more details
DeZign for Databases is a database design and data modeling tool for multiple database platforms Oracle Database Oracle , MySQL , IBM DB2, PostgreSQL , MS SQL Sever, MS Access, ... . It can be used to create, maintain and document new or existing database systems. The tool uses Entity relationship diagram . Similar tools are Embarcadero ER Studio , IBM Data Architect, Oracle Designer and Sybase PowerDesigner . History DeZign for Databases was created by Heraut Solutions in 1998. Later the company name was changed to Datanamic. DeZign for Databases was the first modeling tool to support MySQL . Support for more databases was added in the late nineties. About 20 databases are supported in the 2008 version of the tool. See also Computer aided software engineering Relational Model Data modeling RDBMS External links http www.datanamic.com dezign Official website http www.datanamic.com support lt dez005 introduction db modeling.html Introduction to database design Category Desktop database application development tools Category Data modeling tools ... more details
Orphan date June 2011 There are a number of databases that psychologists use to access the knowledgebase of their science. They include MEDLINE PubMed PsycINFO PsycARTICLES PsycFIRST PsycSCANs Online PsycSCAN Applied Psychology PsycSCAN Behavior Analysis & Therapy PsycSCAN Developmental Psychology PsycSCAN LD MR PsycSCAN Psychopharmacology Cochrane Library CINAHL EMBASE Psychological Abstracts PsycLit Ulrich International Periodical Directory , PUBLIST The Internet Directory Publications , ISSN International , PSICODOC , PSEDISOC , the ISOC database CSIC RISO , CIRBIC REVISTAS , COMPLUDOC Institute for Scientific Information Thomson ISI Science Citation Index Social Sciences Citation Index Psychology stub Category Psychology lists Category Scientific databases ... more details
Glass databases are a collection of glass compositions, glass properties, glass model s, associated trademark names, patent s etc. These data were collected from publications in scientific papers and patents, from personal communication with scientists and engineers, and other relevant sources. History Since the beginning of scientific glass research in the 19th century thousands of glass property composition datasets were published. The first attempt to summarize all those data systematically was the monograph Glastechnische Tabellen . ref Glastechnische Tabellen engl. Glass Technical Tables , edited by W. Eitel, M. Pirani, and K. Scheel, Springer Verlag, Berlin, 1932 ref World War II and the Cold War prevented similar efforts for many years afterwards. In 1956 Phase Diagrams for Ceramists was published the first time, containing a collection of phase diagram s. ref Levin, E.M., McMurdie, H.F., and Hall, F.P., Phase Diagrams for Ceramists Volume 1, The American Ceramic Society, Columbus, Ohio, p. 6, 1956. ref This database is known today as Phase Equilibria Diagrams . ref http www.ceramics.org phase Phase Equilibria Diagrams Database ref In 1991 the Japanese database Interglad was created, ref http www.newglass.jp interglad 6 gaiyo info e.html INTERGLAD ref followed by the publication of the Handbook of Glass Data in 1993. ref Handbook of Glass Data , edited by O. V. Mazurin, M. V. Streltsina, and T. P. Shvaiko Shvaikovskaya, Elsevier, 1993 ref The Handbook of Glass Data was later digitalized and substantially expanded under the name SciGlass . ref http www.sciglass.info SciGlass ref Currently, SciGlass contains properties of about 350,000 glass compositions, INTERGLAD about ... features see the references section below. All databases contain citations to the original data sources ... point s, crystalline phases, primary crystalline phase s Application of glass databases Experimental ... Glass chemistry Category Chemical databases Category Ceramic materials ... more details
Dablink This article deals with the term directory with respect to a computer database . The term also commonly refers to a Directory file systems folder in a computer file system . Unreferenced date April 2007 Merge Directory service date September 2009 Generally, a directory , as used in computing and telephony , refers to a digital library repository or database of information which is heavily optimized for reading, under the assumption that data updates are very rare compared to data reads. Commonly, a directory supports search and browsing in addition to simple lookups. A website which offer access to a categorized listing of other websites optimized for lookup, search, or browsing is a directory, a web directory . The Open Directory Project is an example of a web directory. Directory technology is often used in White pages white page applications and network information services. WHOIS is a prominent example of directory service providing white pages. The Domain Name System DNS is a prominent example of directory service providing a network information service. DNS is also an example of a Distributed computing distributed hierarchical directory service that only has simple lookup capabilities. The X.500 and Lightweight Directory Access Protocol LDAP directory services are examples of general purpose distributed hierarchical object oriented directory technologies. Both offer complex searching and browsing capabilities and are used for white pages, network information services, public key infrastructure , and a wide range of other applications. See also Database Directory service Reference works Web directory RSS directory DEFAULTSORT Directory Databases Category Types of databases Category Reference works ... more details
saved book title Databases subtitle The Complete Wikipedia Guide cover image cover color Databases Introduction Data management Database Database system Database management system Types of DBMS Data store Technical Information Project Data Modeling Introduction to Data Modeling Data modeling Data model Database model Database design Conceptual schema Data structure diagram Hierarchical database model Network model Navigational database ERD Entity relationship model Has a Many to many data model Enhanced Entity Relationship Model Weak entity Associative Entities Structured Entity Relationship Model Barker s Notation Peter Chen Other Data Modeling Techniques Unified Modeling Language The Third Manifesto Three schema approach White pages schema Anchor Modeling Bachman diagram Bitemporal Modeling Bitemporal data IDEF1X Universal Data Element Framework Terminology model Georelational data model Semantic data model Relational Model Tasmania Relational Schema Relational model Relational database Relational database management system Life cycle of a relational database Logical data model Logical schema Relation database Table database Tuple Row database Attribute domain Candidate key Unique ... language Nonprocedural language Facebook Query Language Technologies Databases Programming Active ... Cursor databases SQL Problems Requiring Cursors WxSQLite3 Database connectivity Application programming ... in Relational Databases Normal Form Data redundancy Database normalization Functional dependency ... Soft error Two pass verification Validation rule Non Relational Databases XML Semi structured data ... Object Database Zope Object Database No SQL Databases NoSQL RDBMS NoSQL Graph database DEX Graph database ... MongoDB Spatiotemporal Databases Temporal database RRDtool Spatial database Spatial query Spatiotemporal ... metadata Geographical database Time series database Operational historian Special Databases Real time ... Mobile Transaction Models Well Known Databases Standard data model Suppliers and Parts database ... more details
, Richard Stones Beginning Databases with PostgreSQL From Novice to Professional , Apress, ISBN ... com.ibm.db2.udb.apdv.sql.doc doc c0024361.htm Cursors in DB2 SQL stored procedures Databases DEFAULTSORT Cursor Databases Category Database management systems Category SQL es Cursor base de datos ... more details
Image Microarray2.gif thumb 350px Example of an approximately 40,000 probe spotted oligo microarray with enlarged inset to show detail. Microarray analysis techniques are used in interpreting the data generated from experiments on DNA, RNA, and protein microarray s, which allow researchers to investigate ..., especially in the absence of good gene annotation. Introduction Microarray data analysis involves ... toxicoinformatics maqc title MicroArray Quality Control MAQC Project accessdate 2007 12 26 author ... Most microarray manufacturers, such as Affymetrix and Agilent , ref cite web url http www.chem.agilent.com ... work Dead link date October 2010 bot H3llBot ref provide commercial data analysis software with microarray ... spots. ref cite web url http bioinf.wehi.edu.au limma title LIMMA Library Linear Models for Microarray ... of Microarray data journal BMC Bioinformatics volume 11 pages 553 year 2010 pmid 21070630 doi ... A title Comparative analysis of microarray normalization procedures effects on reverse engineering ... 10.1093 bioinformatics btm201 ref Factor Analysis for Robust Microarray Summarization FARMS ref Sepp ... al. title The MicroArray Quality Control MAQC project shows inter and intraplatform reproducibility ... Rat toxicogenomic study reveals analytical consistency across microarray platforms journal Nat ... network data procured from one or several microarray experiments. A wide variety of microarray analysis ... cited SAM Excel module and other microarray tools ref cite web url http www stat.stanford.edu tibs ... in a microarray experiment relative to a reference state have also been developed to aid in identifying ... the user information on the genes or gene sets of interest, including links to entries in databases such as NCBI s GenBank and curated databases such as Biocarta ref cite web url http www.biocarta.com ... software farms farms.html FARMS Factor Analysis for Robust Microarray Summarization, an R package &mdash software http www.arraymining.net ArrayMining.net web application for online analysis of microarray ... more details
The MicroArray and Gene Expression MAGE group is a project of the FGED Society to develop a standard for the representation of gene expression data from DNA microarray microarrays to facilitate the exchange of information between different data systems. ref cite web url http www.mged.org mage title MAGE Project homepage work FGED Society website accessdate 2008 11 23 ref MAGE has in the past worked with the OMG Object Management Group , which provided a framework for developing, ratifying, and publishing the MAGE based standards documents. The MAGE standards include a data exchange model MAGE OM Microarray Gene Expression Object Model and data exchange formats MAGE ML Microarray Gene Expression Markup Language MAGE TAB Microarray Gene Expression Tabular format for microarray expression experiments. See also LSID Life Science Identifier DNA microarray FGED Society SDRF Strand Life Sciences Genespring References references bioinformatics stub Category Standards organizations Category Microarrays ... more details
cleanup date May 2011 Databases for oncogenomic research are biological databases dedicated to cancer data and oncogenomics oncogenomic research . They can be a primary source of cancer data, offer a certain level of analysis processed data or even offer online data mining . The table below gives an overview of databases for that serve specifically for oncogenomic research. Note that this is not a comprehensive list and does not contain databases that have a generic focus. You may find databases containg cancer data among the List of biological databases or Microarraydatabases . border 1 cellpadding 1 class wikitable sortable style width 100 font size 95 width 20 Database width 17 Institute Organization width 21 Alteration Types width 6 Primary Source ref group t The database is the publication site for some of its cancer raw data ref width 6 Processed Data ref group t The database contains cancer data at a certain level of analysis non raw data ref width 7 Organisms width 6 Cell lines ref group t The database also contains cell line data ref width 6 Public Data ref group t The database contains cancer data that is available for everyone ref width 6 Restricted Data ref group t The database contains cancer data that is only available under some restriction ref span id C span Cosmic cancer database Catalogue Of Somatic Mutations In Cancer COSMIC http www.sanger.ac.uk genetics CGP cosmic Wellcome Trust Sanger Institute , UK Mutation no yes Human no yes no span id C span cBio Cancer Genomics Portal http cbioportal.org Memorial Sloan Kettering Cancer Center , USA Copy number , Mutation ... Roche Diagnostics, Penzberg, Germany reflist group t See also Cancer Research List of biological databasesMicroarraydatabases Oncogenomics Oncology Notes references group note Category Applied genetics Category Bioinformatics Category Biological databases Category Medical genetics Category Cancer genome databases ... more details
Microarraydatabases main Microarraydatabases http www.ebi.ac.uk arrayexpress ArrayExpress European ... http smd.stanford.edu Stanford Microarray Database SMD Stanford University Exosomal databases ...Multiple issues cleanup January 2011 external links November 2010 orphan April 2012 Biological databases ... A title Databases, data tombs and dust in the wind. journal Bioinformatics volume 24 issue 19 pages ... databases ref name metabase cite journal author Bolser D.M et al. title MetaBase the wiki database of biological databases journal NAR volume 40 pages D1250 year 2012 url http nar.oxfordjournals.org content early 2011 12 01 nar.gkr1099.abstract ref . Primary nucleotide sequence databases The International ... INSD http www.insdc.org consists of the following databases. http www.ddbj.nig.ac.jp Welcome e.html ... Information The three databases, DDBJ Japan , GenBank USA and European Nucleotide Archive Europe , are repositories for nucleotide primary structure sequence data from all organism s. All three databases ... to achieve optimal synchronisation between them. These three databases are primary databases, as they house ... of databases, rather than any one integration project or technology. They collect data from ... other databases. Entrez http www.ncbi.nlm.nih.gov gquery gquery.fcgi National Center for Biotechnology ... database of biological databases. http www.cyber indian.com bioperl index.html mGen containing four of the world biggest databases GenBank, Refseq, EMBL and DDBJ easy and simple program friendly ... of over 20 heterogeneous biomedical knowledge bases Genome databases These databases collect ... literature to improve computed annotations. These databases may hold many species genomes ... machinery of the model organism E. coli K 12 Ensembl provides automatic annotation databases ... JGI Genomes of the DOE Joint Genome Institute provides databases of many eukaryote ... Resource Center for Invertebrate Vectors of Human Pathogens Protein sequence databases UniProt ... more details
Orphan date November 2006 Methylation specific oligonucleotide microarray was developed as a technique to map methylation changes in DNA in cancer . This technique was developed by Professor Tim Hui Ming Huang and was published in journal Genome Research on 2002 Gitan et al., 2002 . The method utilizes bisulfite modified DNA that is used as templates for PCR amplification , which is subsequently hybridized to oligonucleotide microarray. External links Commons Methylation specific oligonucleotide microarray http www.epigeneticstation.com Resources, information and specific protocols for DNA Methylation Analysis Category Cancer research Category Microarrays genetics stub medicine stub ... more details
For DNA microarrays in general DNA microarray Merge DNA microarray date April 2012 Orphan date April 2012 technical date March 2012 Image Microarray.svg thumb 300px steps involved in a microarray experiment some steps omitted This is an example of a DNA microarray experiment , detailing a particular case to better explain DNA microarray experiments, while enumerating possible alternatives. The two samples to be compared pairwise comparison are grown acquired. In this example treated sample Case control case and untreated sample Case control control . The nucleic acid of interest is purified this can be all RNA for expression profiling , DNA for comparative hybridization , or DNA RNA bound to a particular protein which is immunoprecipitated ChIP on chip for Epigenetics epigenetic or regulation studies. In this example total RNA is isolated total as it is nuclear and cytoplasm ic by Guanidinium ... rRNA , MicroRNA miRNA microarray ligate an oligonucleotide to the purified small RNA isolated ... step after amplification if present. The sense that is labelled depends on the microarray ... is denatured and added to a pin hole in a microarray, which can be a gene chip holes in the back or a glass microarray which is bound by a cover, called a mixer, containing two pinholes and sealed with the slide at the perimeter. The holes are sealed and the microarray hybridized, either in a hyb oven, where the microarray is mixed by rotation, or in a mixer, where the microarray is mixed ... is washed off SDS and SSC . The microarray is dried and scanned in a special machine where a laser ... microarray Microfluidics or lab on chip Quantification of nucleic acids Cyanine dyes, such as Cy3 ... expression External links http learn.genetics.utah.edu content labs microarray DNA microarray ..., 3rd edition, Cold Spring Harbor Laboratory Press. Lab protocols found on microarray labs http www.microarrays.ca support proto.html http www.daf.jhmi.edu microarray protocols.htm http dms.dartmouth.edu ... more details
A chemical compound microarray is a collection of organic chemical compounds spotted on a solid surface, such as glass and plastic. This microarray format is very similar to DNA microarray , protein microarray and antibody microarray . In chemical genetics research, they are routinely used for searching proteins that bind with specific chemical compounds, and in general drug discovery research, they provide a multiplex assay multiplex way to search potential drugs for therapeutic targets. There are three different forms of chemical compound microarrays based on the fabrication method. The first form is to covalently immobilize the organic compounds on the solid surface with diverse linking techniques this platform is usually called small molecule Small Molecule Microarray, which is invented and advanced by Dr. Stuart Schreiber and colleagues http cgr.harvard.edu macbeath research small mol.html . The second form is to spot and dry organic compounds on the solid surface without immobilization, this platform has a commercial name as Micro Arrayed Compound Screening ARCS , which is developed by scientists in Abbott Laboratories http jbx.sagepub.com cgi content abstract 9 1 12 . The last form is to spot organic compounds in a homogenous solution without immobilization and drying effect, this platform is developed by Dr. Scott Diamond http www.seas.upenn.edu diamond and later commercialized as DiscoveryDot technology by Reaction Biology Corporation http www.reactionbiology.com . Polymer Microarrays Polymer microarrays have been developed to allow screening for new polymeric materials to direct different tissue lineages. Research has also been directed towards studying the surface ... Kinase Profiling.jpg thumb DiscoveryDot Microarray for Kinase Profiling References Uttamchandani ..., H. et al. 2005 Nanoliter Homogenous Ultra High Throughput Screening Microarray for Lead Discoveries ... content refs 11 1 48 . Ma, H. and Horiuchi, K.Y. 2006 Chemical Microarray a new tool for drug screening ... more details
PMHC cellular microarrays are a type of cellular microarray that has been spotted with pMHC complexes peptide MHC class I or peptide MHC class II . These biochips can be used to interrogate immune cells, particularly antigen specific T cell s, from clinical samples for what they are capable of recognizing. They can also be co spotted with other molecules, such as antibodies that capture cytokines, allowing for high throughput functional analysis of the captured T cells. Molecules spotted on a pMHC cellular microarray can be classified as capture molecules, detector molecules and effector molecules. They were developed by Daniel Chen, Yoav Soen, Dan Kraft, Pat Brown and Mark Davis at Stanford University Medical Center . References Chen DS, Davis MM 2006 Molecular and functional analysis using live cell microarrays. Curr Opin Chem Biol 10 28 34 Chen DS, Soen Y, Stuge TB, Lee PP, Weber JS, Brown PO, Davis MM 2005 Marked Differences in Human Melanoma Antigen Specific T Cell Responsiveness after Vaccination Using a Functional Microarray. PLoS Med 2 10 e265 http medicine.plosjournals.org perlserv ?request get document&doi 10.1371 2Fjournal.pmed.0020265 Soen Y., Chen D. S., Kraft D. L., Davis M. M. and Brown P.O. 2003 Detection and characterization of cellular immune responses using peptide MHC microarrays. PLoS Biol. 1 E65 http biology.plosjournals.org perlserv ?request get document&doi 10.1371 journal.pbio.0000065 Chen DS, Davis MM 2005 Cellular immunotherapy Antigen recognition is just the beginning. Springer Semin Immunopathol 27 119 127 Soen Y, Chen DS, Stuge TB, Weber JS, Lee PP, et al. 2004 A novel cellular microarray identifies functional deficiences in tumor specific T cell responses. J Clin Oncol 22 2510 Category Microarrays ... more details
Orphan date February 2009 Glacio geological databases compile data on glacially associated sedimentary deposits and erosional activity from former and current ice sheets, usually from published peer reviewed sources. Their purposes are generally directed towards two ends Mode 1 compiling information about glacial landforms , which often inform about former ice flow directions and Mode 2 compiling information which dates the absence or presence of ice. These databases are used for a variety of purposes i as bibliographic tools for researchers ii as the quantitative basis of mapping of landforms or dates of ice presence absence and iii as quantitative databases which are used to constrain physically based mathematical models of ice sheets. Antarctic Ice Sheet The AGGDB is a Mode 2 glacio geological database for the Antarctic ice sheet using information from around 150 published sources, covering glacial activity mainly from the past 30000 years. It is available online, and aims to be comprehensive to the end of 2007. ref http www.antarctica.ac.uk met rcah agdb index.htm Database main page Bot generated title ref British Ice Sheet BRITICE is a Mode 1 database which aims to map all glacial landforms of Great Britain. ref http www.sheffield.ac.uk geography staff clark chris britice.html Clark, Chris Bot generated title ref Eurasian Ice Sheet DATED 1 is a Mode 2 database for the Eurasian ice sheet. Its sister project DATED 2 uses the information in DATED 1 to map the retreat of the Eurasian ice sheet since the Last Glacial Maximum . ref http www.gyllencreutz.se research.html R i c h a r d G y l l e n c r e u t z Bot generated title ref See also Glacial landforms Sediment Geology Ice sheet Exposure Age Dating Radio carbon dating References reflist Category Quaternary Category Physical geography Category Physical oceanography Category Scientific databases ... more details
The China Economic Databases CED zh c is a project of the China Studies Center at National Chengchi University , Taiwan . It collects and publishes information on China s Economy of the People s Republic of China economic economic development development to support scholarly research. The CED is available in Chinese language Chinese and English language English . Mission The CED is designed for scholars, students and those interested in the study and development of the economy of the People s Republic of China . Anyone is able to add information to the platform by submitting relevant material. History The CED is sponsored by the Center for China Studies in National Chengchi University , in Taiwan , and is supported by the Taiwan Ministry of Education. The project was launched in December 2003 and is currently directed by Dr. Chen yuan Tung , a Professor at the Graduate Institute of Development Studies, National Chengchi University. Databases Currently there are ten databases 1. China Economic Literature Index Database The China Economic Literature Database CELD currently collects data from 47 Chinese periodicals and 22 English sources. Additionally, online databases such as SSCI and EconLit are used to keep the database up to date. Information in the CELD range in topics including macroeconomics, capital investment, regional development, economical reform, trade between Taiwan and Mainland China, Chinese foreign trade, Renminbi exchange, economical globalization, financial ... databases of the China Economic Databases platform. 10. The OpenCourseWare OCW Project gathers ... publications of the bi weekly China Economic Databases E paper are available online. The E paper ... links http ics.nccu.edu.tw eced China Economic Databases Website The official CED site http ics.nccu.edu.tw eced eocw China s Economy OCW The OpenCourseWare project of the China Economic Databases Category Economic databases Category Economy of the People s Republic of China Category Databases in Taiwan ... more details
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