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on page 1 showing 20 out of 74 results from 1 sources

Cite this (3D DTI Atlas of the Rat Brain In Postnatal Day 5 14 and Adulthood, RRID:SCR_009437)

URL: http://www.nitrc.org/projects/dti_rat_atlas/

Resource Type: Resource, atlas, reference atlas, data or information resource

3D DTI anatomical rat brain atlases have been created by the UNC- Chapel Hill Department of Psychiatry and the CAMID research collaboration. There are three age groups, postnatal day 5, postnatal day 14, and postnatal day 72. The subjects were Sprague-Dawley rats that were controls in a study on cocaine abuse and development. The P5 and P14 templates were made from scans of twenty rats each (ten female, ten male); the P72, from six females. The individual cases have been resampled to isotropic resolution, manually skull-stripped, and deformably registered via an unbiased atlas building method to create a template for each age group. Each template was then manually segmented using itk-SNAP software. Each atlas is made up of 3 files, a template image, a segmentation, and a label file.

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Cite this (ABCD Study, RRID:SCR_015769)

URL: https://abcdstudy.org

Resource Type: Resource, data set, data or information resource

Long-term study of brain development and child health in the United States. The study tracks subjects' biological and behavioral development through adolescence into young adulthood to determine how childhood experiences (such as sports, videogames, social media, unhealthy sleep patterns, and smoking) interact with each other and with a child’s changing biology to affect brain development and social, behavioral, academic, health, and other outcomes.

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Cite this (Add Health (National Longitudinal Study of Adolescent Health), RRID:SCR_007434)

URL: http://www.cpc.unc.edu/projects/addhealth

Resource Type: Resource, data or information resource, database

Longitudinal study of a nationally representative sample of adolescents in grades 7-12 in the United States during the 1994-95 school year. Public data on about 21,000 people first surveyed in 1994 are available on the first phases of the study, as well as study design specifications. It also includes some parent and biomarker data. The Add Health cohort has been followed into young adulthood with four in-home interviews, the most recent in 2008, when the sample was aged 24-32. Add Health combines longitudinal survey data on respondents social, economic, psychological and physical well-being with contextual data on the family, neighborhood, community, school, friendships, peer groups, and romantic relationships, providing unique opportunities to study how social environments and behaviors in adolescence are linked to health and achievement outcomes in young adulthood. The fourth wave of interviews expanded the collection of biological data in Add Health to understand the social, behavioral, and biological linkages in health trajectories as the Add Health cohort ages through adulthood. The restricted-use contract includes four hours of free consultation with appropriate staff; after that, there''s a fee for help. Researchers can also share information through a listserv devoted to the database.

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Cite this (Addiction Research GPCR Assay Bank, RRID:SCR_002895)

URL: http://www.duke.edu/web/gpcr-assay/index.html

Resource Type: Resource, production service resource, biomaterial supply resource, material service resource, service resource, cell repository, material resource, biomaterial manufacture

Describes data from and access to permanent cell lines containing beta-arrestin fluorescent protein biosensors. This assay Bank provides plasmids, cells lines, and resulting data to the NIDA/NIH funded research community in order to better understand and combat addiction.

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Cite this (Antibody Registry, RRID:SCR_006397)

URL: http://antibodyregistry.org/

Resource Type: Resource, service resource, data or information resource, data repository, storage service resource, database

Public registry of antibodies with unique identifiers for commercial and non-commercial antibody reagents to give researchers a way to universally identify antibodies used in publications. The registry contains antibody product information organized according to genes, species, reagent types (antibodies, recombinant proteins, ELISA, siRNA, cDNA clones). Data is provided in many formats so that authors of biological papers, text mining tools and funding agencies can quickly and accurately identify the antibody reagents they and their colleagues used. The Antibody Registry allows any user to submit a new antibody or set of antibodies to the registry via a web form, or via a spreadsheet upload.

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Cite this (BMAP - Brain Molecular Anatomy Project, RRID:SCR_008852)

URL: http://trans.nih.gov/bmap/index.htm

Resource Type: Resource, topical portal, portal, funding resource, data or information resource

The Brain Molecular Anatomy Project is a trans-NIH project aimed at understanding gene expression and function in the nervous system. BMAP has two major scientific goals: # Gene discovery: to catalog of all the genes expressed in the nervous system, under both normal and abnormal conditions. # Gene expression analysis: to monitor gene expression patterns in the nervous system as a function of cell type, anatomical location, developmental stage, and physiological state, and thus gain insight into gene function. In pursuit of these goals, BMAP has launched several initiatives to provide resources and funding opportunities for the scientific community. These include several Requests for Applications and Requests for Proposals, descriptions of which can be found in this Web site. BMAP is also in the process of establishing physical and electronic resources for the community, including repositories of cDNA clones for nervous system genes, and databases of gene expression information for the nervous system. Most of the BMAP initiatives so far have focused on the mouse as a model species because of the ease of experimental and genetic manipulation of this organism, and because many models of human disease are available in the mouse. However, research in humans, other mammalian species, non-mammalian vertebrates, and invertebrates is also being funded through BMAP. For the convenience of interested investigators, we have established this Web site as a central information resource, focusing on major NIH-sponsored funding opportunities, initiatives, genomic resources available to the research community, courses and scientific meetings related to BMAP initiatives, and selected reports and publications. When appropriate, we will also post initiatives not directly sponsored by BMAP, but which are deemed relevant to its goals. Posting decisions are made by the Trans-NIH BMAP Committee

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Cite this (BMAP cDNA Resources, RRID:SCR_002973)

URL: http://trans.nih.gov/bmap/resources/resources.htm

Resource Type: Resource, topical portal, production service resource, material service resource, service resource, portal, biomaterial manufacture, data or information resource

As part of BMAP gene discovery efforts, mouse brain cDNA libraries and Expressed Sequence Tags (ESTs) have been generated. Through this project a BMAP mouse brain UniGene set consisting of over 24,000 non-redundant members of unique clusters has been developed from EST sequencing of more than 50,000 cDNA clones from 10 regions of adult mouse brain, spinal cord, and retina (http://brainEST.eng.uiowa.edu/). In 2001, NIMH along with NICHD, NIDDK, and NIDA, awarded a contract to the University of Iowa ( M.B. Soares, PI) to isolate full-length cDNA clones corresponding to genes expressed in the developing mouse nervous system and determine their full-coding sequences. The BMAP mouse brain EST sequences can be accessed at NCBI's dbEST database (http://www.ncbi.nlm.nih.gov/dbEST/). Arrayed sets of BMAP mouse brain UniGenes and cDNA libraries, and individual BMAP cDNA clones can be purchased from Open Biosystems, Huntsville, AL (http://www.openbiosystems.com

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Cite this (Brain Architecture Project, RRID:SCR_004283)

URL: http://brainarchitecture.org/

Resource Type: Resource, topical portal, portal, data or information resource

Evolving portal that will provide interactive tools and resources to allow researchers, clinicians, and students to discover, analyze, and visualize what is known about the brain's organization, and what the evidence is for that knowledge. This project has a current experimental focus: creating the first brainwide mesoscopic connectivity diagram in the mouse. Related efforts for the human brain currently focus on literature mining and an Online Brain Atlas Reconciliation Tool. The primary goal of the Brain Architecture Project is to assemble available knowledge about the structure of the nervous system, with an ultimate emphasis on the human CNS. Such information is currently scattered in research articles, textbooks, electronic databases and datasets, and even as samples on laboratory shelves. Pooling the knowledge across these heterogeneous materials - even simply getting to know what we know - is a complex challenge that requires an interdisciplinary approach and the contributions and support of the greater community. Their approach can be divided into 4 major thrusts: * Literature Curation and Text Mining * Computational Analysis * Resource Development * Experimental Efforts

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Cite this (CAMO - Cell Adhesion Molecule Ontology, RRID:SCR_004392)

URL: http://okcam.cbi.pku.edu.cn/ontology.php

Resource Type: Resource, ontology, data or information resource, controlled vocabulary

CAMO (Cell Adhesion Molecule Ontology) is a set of standard vocabulary that provide a hierarchical description of cell adhesion molecules and their functions. We compiled a list for cell adhesion molecules by integrating Gene Ontology annotations, domain structure information, and keywords query against NCBI Entrez Gene annotations. Totally 496 unique human genes were identified to function as cell adhesion molecules, which is by far the most comprehensive dataset including cadherin, immunoglobulin/FNIII, integrin, neurexin, neuroligan, and catenin families. CAMO was constructed as a directed acyclic graph (DAG) using DAG-Edit to input, manage and update data. We annotated each term with name, definition and source references, as well as the relationship to other terms, based on manual reviews of domain architecture and functional annotations. If vertices represent terms and the relationships between terms are represented by edges, the terms in a DAG can be connected via a directed graph without cycles. CAMO thus provides a hierarchical description of functions of CAMs with five top-level categories: CAM gene families, CAM genetics, CAM regulation, CAM expression and CAM diseases. Each top-level term is further divided into several categories to describe the functions in detail.

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Cite this (Center for Inherited Disease Research, RRID:SCR_007339)

URL: http://www.cidr.jhmi.edu/

Resource Type: Resource, production service resource, analysis service resource, training service resource, material analysis service, service resource, biomaterial analysis service, data computation service

Next generation sequencing and genotyping services provided to investigators working to discover genes that contribute to disease. On-site statistical geneticists provide insight into analysis issues as they relate to study design, data production and quality control. In addition, CIDR has a consulting agreement with the University of Washington Genetics Coordinating Center (GCC) to provide statistical and analytical support, most predominantly in the areas of GWAS data cleaning and methods development. Completed studies encompass over 175 phenotypes across 530 projects and 620,000 samples. The impact is evidenced by over 380 peer-reviewed papers published in 100 journals. Three pathways exist to access the CIDR genotyping facility: * NIH CIDR Program: The CIDR contract is funded by 14 NIH Institutes and provides genotyping and statistical genetic services to investigators approved for access through competitive peer review. An application is required for projects supported by the NIH CIDR Program. * The HTS Facility: The High Throughput Sequencing Facility, part of the Johns Hopkins Genetic Resources Core Facility, provides next generation sequencing services to internal JHU investigators and external scientists on a fee-for-service basis. * The JHU SNP Center: The SNP Center, part of the Johns Hopkins Genetic Resources Core Facility, provides genotyping to internal JHU investigators and external scientists on a fee-for-service basis. Data computation service is included to cover the statistical genetics services provided for investigators seeking to identify genes that contribute to human disease. Human Genotyping Services include SNP Genome Wide Association Studies, SNP Linkage Scans, Custom SNP Studies, Cancer Panel, MHC Panels, and Methylation Profiling. Mouse Genotyping Services include SNP Scans and Custom SNP Studies.

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Cite this (Clair library, RRID:SCR_007019)

URL: http://www.clairlib.org

Resource Type: Resource, data analysis software, data processing software, software application, text-mining software, software resource, software toolkit, text extraction software

A suite of open-source Perl modules intended to simplify a number of generic tasks in natural language processing (NLP), information retrieval (IR), and network analysis (NA). Its architecture also allows for external software to be plugged in with very little effort. The latest version of clairlib is 1.06 which was released on March 2009 and includes about 130 modules implementing a wide range of functionalities. Clairlib is distributed in two forms: * Clairlib-core, which has essential functionality and minimal dependence on external software, and * Clairlib-ext, which has extended functionality that may be of interest to a smaller audience. Much can be done using Clairlib on its own. Some of the things that Clairlib can do are: Tokenization, Summarization, Document Clustering, Document Indexing, Web Graph Analysis, Network Generation, Power Law Distribution Analysis, Network Analysis, RandomWalks on Graphs, Tf-IDF, Perceptron Learning and Classification, and Phrase Based Retrieval and Fuzzy OR Queries.

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Cite this (Community Epidemiology Work Group, RRID:SCR_002751)

URL: http://www.drugabuse.gov/about/organization/CEWG/

Resource Type: Resource, training resource, narrative resource, book, meeting resource, report, knowledge environment, data or information resource

A network composed of researchers from major metropolitan areas of the United States and selected foreign countries which meet semiannually to discuss the current epidemiology of drug abuse. The primary mission of the Work Group is to provide ongoing community-level surveillance of drug abuse through analysis of quantitative and qualitative research data. Through this program the CEWG provides current descriptive and analytical information regarding the nature and patterns of drug abuse, emerging trends, characteristics of vulnerable populations and social and health consequences. Reports Reports are available from the biannual meetings at which the network members discuss current and emerging problems of substance abuse. At the meetings, CEWG members present data on drug abuse from a variety of city, State, Federal, and other sources. These data are enhanced with information gathered through ethnographic research, focus groups, interviews, and other qualitative methods. This integration of quantitative with qualitative data provides invaluable insight into emerging drug use trends. Book In 1998, the National Institute on Drug Abuse (NIDA) published the first edition of Assessing Drug Abuse Within and Across Communities: Community Epidemiology Surveillance Networks on Drug Abuse to share information on establishing drug abuse epidemiology networks at community and State levels. Its purpose is to provide guidelines for establishing epidemiology networks to monitor and assess drug abuse patterns and trends and emerging drug problems at community and State levels to provide a foundation of information for public health response. The second edition differs from the first in format. For each data source, there is a description of the source and database, followed by guidelines on how to access the data (including Web sites) and what to request, and examples of how the data have been used by epidemiology work groups or Federal agencies. NIDA hopes that this revised guide is helpful to agencies, organizations, and researchers that are involved in or wish to establish epidemiology networks in their communities or States.

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Cite this (Comprehensive Drug Self-administration and Discrimination Bibliographic Databases, RRID:SCR_000707)

URL: http://www.dd-database.org/

Resource Type: Resource, data or information resource, bibliography, database

Database of bibliographic details of over 9,000 references published between 1951 and the present day, and includes abstracts, journal articles, book chapters and books replacing the two former separate websites for Ian Stolerman's drug discrimination database and Dick Meisch's drug self-administration database. Lists of standardized keywords are used to index the citations. Most of the keywords are generic drug names but they also include methodological terms, species studied and drug classes. This index makes it possible to selectively retrieve references according to the drugs used as the training stimuli, drugs used as test stimuli, drugs used as pretreatments, species, etc. by entering your own terms or by using our comprehensive lists of search terms. Drug Discrimination Drug Discrimination is widely recognized as one of the major methods for studying the behavioral and neuropharmacological effects of drugs and plays an important role in drug discovery and investigations of drug abuse. In Drug Discrimination studies, effects of drugs serve as discriminative stimuli that indicate how reinforcers (e.g. food pellets) can be obtained. For example, animals can be trained to press one of two levers to obtain food after receiving injections of a drug, and to press the other lever to obtain food after injections of the vehicle. After the discrimination has been learned, the animal starts pressing the appropriate lever according to whether it has received the training drug or vehicle; accuracy is very good in most experiments (90 or more correct). Discriminative stimulus effects of drugs are readily distinguished from the effects of food alone by collecting data in brief test sessions where responses are not differentially reinforced. Thus, trained subjects can be used to determine whether test substances are identified as like or unlike the drug used for training. Drug Self-administration Drug Self-administration methodology is central to the experimental analysis of drug abuse and dependence (addiction). It constitutes a key technique in numerous investigations of drug intake and its neurobiological basis and has even been described by some as the gold standard among methods in the area. Self-administration occurs when, after a behavioral act or chain of acts, a feedback loop results in the introduction of a drug or drugs into a human or infra-human subject. The drug is usually conceptualized as serving the role of a positive reinforcer within a framework of operant conditioning. For example, animals can be given the opportunity to press a lever to obtain an infusion of a drug through a chronically-indwelling venous catheter. If the available dose of the drug serves as a positive reinforcer then the rate of lever-pressing will increase and a sustained pattern of responding at a high rate may develop. Reinforcing effects of drugs are distinguishable from other actions such as increases in general activity by means of one or more control procedures. Trained subjects can be used to investigate the behavioral and neuropharmacological basis of drug-taking and drug-seeking behaviors and the reinstatement of these behaviors in subjects with a previous history of drug intake (relapse models). Other applications include evaluating novel compounds for liability to produce abuse and dependence and for their value in the treatment of drug dependence and addiction. The bibliography is updated about four times per year.

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Cite this (Conditioned Taste Aversion: An Annotated Bibliography, RRID:SCR_005953)

URL: http://www.ctalearning.com/

Resource Type: Resource, data or information resource, bibliography, database

A searchable, keyword-indexed bibliography on conditioned taste aversion learning, the avoidance of fluids and foods previously associated with the aversive effects of a variety of drugs. The database includes articles as early as 1951, and papers just published given that the database is ongoing and constantly updated. In the mid 1950''s, John Garcia and his colleagues at the Radiological Defense Laboratory at Hunters Point in San Francisco assessed the effects of ionizing radiation on a myriad of behaviors in the laboratory rat. One of their behavioral findings was that radiated rats avoided consumption of solutions that had been present during radiation, presumably due to the association of the taste of the solution with the aversive effects of the radiation. These results were published in Science and introduced to the literature the phenomenon of conditioned taste aversion learning (or the Garcia Effect). Subsequently, Garcia and his colleagues demonstrated that such learning appeared unique in a number of respects, including the fact that these aversions were acquired often in a single conditioning trial, selectively to gustatory stimuli and even when long delays were imposed between access to the solution and administration of the aversive agent. Together, these unique characteristics appeared to violate the basic tenets of traditional learning theory and along with a number of other behavioral phenomena (e.g., bird song learning, species-specific defense reactions, tonic immobility and schedule-induced polydipsia) introduced the concept of biological constraints on learning that forced a reconceptualization of the role evolution played in the acquisition of behavior (Garcia and Ervin, 1968; Revusky and Garcia, 1970; Rozin and Kalat, 1971). Although the initial investigations into conditioned taste aversion learning focused on these biological and evolutionary issues and their relation to learning, research in this area soon assessed the basic generality of the phenomenon, specifically, under what conditions such learning did or did not occur. With such research, a wide variety of gustatory stimuli were reported as effective conditioned stimuli and an extensive list of drugs with diverse consequences were reported as effective aversion-inducing agents. Aversions were established in a range of strains and species and under many experimental conditions. Research in this area continues to extend the conditions under which such learning occurs and to demonstrate its biological, neurochemical and anatomical substrates. Although the conditions under which aversion learning are reported to occur appear to generalize from the specific conditions under which they were originally reported, a number of factors including sex, age, training and testing procedures, deprivation level and drug history, all affect the rate of its acquisition and its terminal strength (Riley, 1998). In addition to these experimental demonstrations and assessments of generality, research on conditioned taste aversions has expanded to include investigations into its research and clinical applications (Braveman and Bronstein, 1985). In so doing, taste aversion learning has been applied to the characterization and classification of drug toxicity, the demonstration of the stimulus properties of abused drugs, the management of wildlife predation, the assessment of the etiology and treatment of cancer anorexia, the study of the biochemistry and molecular biology of learning, the etiology and control of alcohol use and abuse, the receptor characterization of the motivational effects of drugs, the occurrence of drug interactions, the characterization of drug withdrawal, the determination of taste psychophysics, the treatment of autoimmune diseases and the evaluation of the role of malaise in drug-induced satiety and drug-induced behavioral deficits. The speed with which aversions are acquired and the relative robustness of this preparation have made conditioned taste aversion learning a widely used, highly replicable and sensitive tool. In 1976, we published the first of three bibliographies on conditioned taste aversion learning. In this initial publication (see Riley and Baril, 1976), we listed and annotated 403 papers in this field. Subsequent lists published in 1977 (Riley and Clarke, 1977) and 1985 (Riley and Tuck, 1985) listed 632 and 1373 papers, respectively. Since that time, we have maintained a bibliography on taste aversion learning utilizing a variety of journal and on-line searches as well as benefiting from the generous contribution of preprints, reprints and pdf files from many colleagues. To date, the number of papers on conditioned taste aversion learning is approaching 3000. The present database lists these papers and provides a mechanism for searching the articles according to a number of search functions. Specifically, it was constructed to provide the reader access to these articles via a variety of search terms, including Author(s), Key Words, Date, Article Title and Journal. One can search for single or multiple items within any specific category. Further, one can search a single or combination of categories. The database is constantly being updated, and any feedback and suggestions are welcome and can be sent to CTALearning (at) american.edu.

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Cite this (Consortium for Reliability and Reproducibility, RRID:SCR_003774)

URL: http://fcon_1000.projects.nitrc.org/indi/CoRR/html/

Resource Type: Resource, data set, portal, data or information resource

Consortium that has aggregated resting state fMRI (R-fMRI) and diffusion imaging data from laboratories around the world, creating an open science resource for the imaging community, that facilitates the assessment of test-retest reliability and reproducibility for functional and structural connectomics. Given that this was a retrospective data collection, they have focused on basic phenotypic measures that are relatively standard in the neuroimaging field, as well as fundamental for analyses and sample characterization. Their phenotypic key is organized to reflect three classifications of variables: 1) core (i.e., minimal variables required to characterize any dataset), 2) preferred (i.e., variables that were strongly suggested for inclusion due to their relative import and/or likelihood of being collected by most sites), and 3) optional (variables that are data-set specific or only shared by a few sites). CoRR includes 33 datasets consisting of: * 1629 Subjects * 3357 Anatomical Scans * 5093 Resting Functional Scans * 1302 Diffusion Scans * 300 CBF and ASL Scans

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Cite this (Criminal Justice Drug Abuse Treatment Studies, RRID:SCR_006996)

URL: http://www.cjdats.org

Resource Type: Resource, knowledge environment

A cooperative research program to explore the issues related to the complex system of offender treatment services. Nine research centers and a Coordinating Center were created in partnership with researchers, criminal justice professionals, and drug abuse treatment practitioners to form a national research infrastructure. The establishment of CJ-DATS is an outstanding example of cooperation among Federal agencies with the research community... We need to understand how to provide better drug treatment services for criminal justice offenders to alter their drug use and criminal behavior. - Dr. Nora Volkow, Director of NIDA. CJ-DATS PHASE I In 2002, NIDA launched the National Criminal Justice??????????Drug Abuse Treatment Studies (CJ-DATS). CJ-DATS is a multisite research program aimed at improving the treatment of offenders with drug use disorders and integrating criminal justice and public health responses to drug involved offenders. From 2002 through 2008, CJ-DATS researchers from 9 research centers, a coordinating center, and NIDA worked together with federal, state, and local criminal justice partners to develop and test integrated approaches to the treatment of offenders with drug use disorders. The areas that were studied included: * Assessing Offender Problems * Measuring Progress in Treatment and Recovery * Linking Criminal Justice and Drug Abuse Treatment * Adolescent Interventions * HIV and Hepatitis Risk Reduction * Understanding Systems CJ-DATS PHASE II In 2008, CJ-DATS began to focus on the problems of implementing research-based practices drug treatment practices. This research concerns the organizational and systems processes involved in implementing valid, evidence-based practices to reduce drug use and drug-related recidivism for individuals in the criminal justice system. 12 CJ-DATS Research Centers are conducting implementation research in three primary domains: * Research to improve the implementation of evidence-based assessment processes for offenders with drug problems * Implementing effective treatment for drug-involved offenders * Implementing evidence-based interventions to improve an HIV continuum-of-care for offenders

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Cite this (Demon Voltammetry and Analysis Software, RRID:SCR_014468)

URL: http://www.wakeforestinnovations.com/technology-for-license/demon-voltammetry-and-analysis-software/

Resource Type: Resource, data analytics software, software application, data processing software, data acquisition software, software resource

A software for performing fast scan cyclic voltammetry recordings in brain tissue for detection of neurotransmitters. It was written in the LabView programming language and can be used to provide command voltage to equipment and record the resulting waveforms. The analysis portion of the software can view and export data, apply noise filters, perform chemometric and waveform kinetic analysis, and create figures.

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Cite this (DOTS WM tract segmentation, RRID:SCR_009459)

URL: http://www.nitrc.org/projects/dots/

Resource Type: Resource, segmentation software, image analysis software, data processing software, software resource, software application

A fast, scalable tool developed at the Johns Hopkins University to automatically segment the major anatomical fiber tracts within the human brain from clinical quality diffusion tensor MR imaging. With an atlas-based Markov Random Field representation, DOTS directly estimates the tract probabilities, bypassing tractography and associated issues. Overlapping and crossing fibers are modeled and DOTS can also handle white matter lesions. DOTS is released as a plug-in for the MIPAV software package and as a module for the JIST pipeline environment. They are therefore cross-platform and compatible with a wide variety of file formats.

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Cite this (Eutectic NTS, RRID:SCR_008062)

URL: http://bellsouthpwp.net/c/a/capowski//NTSPublic.html

Resource Type: Resource, software resource

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. A hardware and software package with which a scientist could trace the structure of neurons and other neuroscientific features directly from tissue sections or from a stack of their images into a computer. Then it also could edit, merge, filter, display in 3D, and make realistic plots of the structures. The NTS also includes a substantial statistical package that provided many, now standardized, mathematical and statistical summaries that described each neuron and compared one population to another. Additionally, NTS also provided an embryonic electrotonic modeler that simulates and displayes the electrical functioning of a cell. The NTS uses a special purpose graphics display processor called the VDP3 whose output is presented on a very high resolution CRT. During tracing, the VDP3 presents a variable-diameter cursor and other information directly in the microscope and enables tracing at a high spatial resolution and with measurement of process diameters limited only by the microscope''s optics. Control of tracing is done with a 3D joystick that allows easy control of five input variables: X,Y,Z position, cursor diameter, and a numeric tag. Finally, superb 3D interactive displays of completed cells are provided on the VDP3.

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Cite this (GeneNetwork, RRID:SCR_002388)

URL: http://www.genenetwork.org/

Resource Type: Resource, service resource, data or information resource, data repository, storage service resource, database

A group of linked data sets and tools used to study complex networks of genes, molecules, and higher order gene function and phenotypes. It combines more than 25 years of legacy data generated by hundreds of scientists together with sequence data (SNPs) and massive transcriptome data sets (expression genetic or eQTL data sets). The quantitative trait locus (QTL) mapping module that is built into GN is optimized for fast on-line analysis of traits that are controlled by combinations of gene variants and environmental factors. GeneNetwork can be used to study humans, mice (BXD, AXB, LXS, etc.), rats (HXB), Drosophila, and plant species (barley and Arabidopsis). Most of these population data sets are linked with dense genetic maps (genotypes) that can be used to locate the genetic modifiers that cause differences in expression and phenotypes, including disease susceptibility. Users are welcome to enter their own private data directly into GeneNetwork to exploit the full range of analytic tools and to map modulators in a powerful environment. This combination of data and fast analytic functions enable users to study relations between sequence variants, molecular networks, and function. What can be done with GeneNetwork? * QTL Mapping: ** Interval Mapping ** Simple interval mapping ** Composite interval mapping ** Pair-scan * Correlation Analysis ** Correlation Matrix / Principal Components Analysis ** QTL Heatmaps ** Compare Correlates ** Network Graph * Systems Genetics and Complex Trait Analysis Source code is available and is written in Python, C, and JavaScript. The QTL Reaper module of GeneNetwork that is used by several mapping modules of GeneNetwork is also available.

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