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on page 1 showing 20 out of 28 results

Cite this (AnimalTFDB, RRID:SCR_001624)

URL: http://www.bioguo.org/AnimalTFDB/

Resource Type: Resource, data or information resource, database

A comprehensive transcription factor (TF) database in which they identified and classified all the genome-wide TFs in 50 sequenced animal genomes (Ensembl release version 60). In addition to TFs, it also collects transcription co-factors and chromatin remodeling factors of those genomes, which play regulatory roles in transcription. Here they defined the TFs as proteins containing a sequence-specific DNA-binding domain (DBD) and regulating target gene expression. Currently, the AnimalTFDB classifies all the animal TFs into 72 families according to their conserved DBDs. Gene lists of transcription factors, transcription co-factors and chromatin remodeling factors of each species are available for downloading.

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    Bpod

Cite this (Bpod, RRID:SCR_015943)

URL: https://github.com/sanworks

Resource Type: Resource, software resource

Software for a measurement and control system for behavior research, most often used to implement operant (Go/NoGo, 2AFC) tasks. This software controls a hierarchy of hardware modules, each powered by an Arduino-programmable microcontroller.

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Cite this (BrainMaps.org, RRID:SCR_006878)

URL: http://brainmaps.org

Resource Type: Resource, service resource, storage service resource, atlas, image repository, data repository, data or information resource

An interactive multiresolution brain atlas that is based on over 20 million megapixels of sub-micron resolution, annotated, scanned images of serial sections of both primate and non-primate brains and integrated with a high-speed database for querying and retrieving data about brain structure and function. Currently featured are complete brain atlas datasets for various species, including Macaca mulatta, Chlorocebus aethiops, Felis catus, Mus musculus, Rattus norvegicus, Tyto alba and many other vertebrates. BrainMaps is currently accepting histochemical, immunocytochemical, and tracer connectivity data, preferably whole-brain. In addition, they are interested in EM, MRI, and DTI data.

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    DGAP

Cite this ( DGAP , RRID:SCR_003036)

URL: http://www.diabetesgenome.org

Resource Type: Resource, narrative resource, data or information resource, resource, experimental protocol, database

Produce resources to unravel the interface between insulin action, insulin resistance and the genetics of type 2 diabetes including an annotated public database, standardized protocols for gene expression and proteomic analysis, and ultimately diabetes-specific and insulin action-specific DNA chips for investigators in the field. The project aims to identify the sets of the genes involved in insulin action and the predisposition to type 2 diabetes, as well as the secondary changes in gene expression that occur in response to the metabolic abnormalities present in diabetes. There are five major and one pilot project involving human and rodent tissues that are designed to: * Create a database of the genes expressed in insulin-responsive tissues, as well as accessible tissues, that are regulated by insulin, insulin resistance and diabetes. * Assess levels and patterns of gene expression in each tissue before and after insulin stimulation in normal and genetically-modified rodents; normal, insulin resistant and diabetic humans, and in cultured and freshly isolated cell models. * Correlate the level and patterns of expression at the mRNA and/or protein level with the genetic and metabolic phenotype of the animal or cell. * Generate genomic sequence from a panel of humans with type 2 diabetes focusing on the genes most highly regulated by insulin and diabetes to determine the range of sequence and expression variation in these genes and the proteins they encode, which might affect the risk of diabetes or insulin resistance. The DGAP project will define: * the normal anatomy of gene expression, i.e. basal levels of expression and response to insulin. * the morbid anatomy of gene expression, i.e., the impact of diabetes on expression patterns and the insulin response. * the extent to which genetic variability might contribute to the alterations in expression or to diabetes itself.

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Cite this ( Einstein-Mount Sinai Diabetes Research Center Animal Physiology Core , RRID:SCR_015076)

URL: http://www.einstein.yu.edu/centers/diabetes-research/diabetes.aspx?id=1286&ekmensel=15074e5e_4046_4048_28715_1

Resource Type: Resource, service resource, resource, core facility, access service resource

Core which assists with the in vivo assessment of glucose and fatty acid metabolism, insulin sensitivity and energy homeostasis in mice and rats. It provides tools to understand the behavior and physiology mediating the relationships among diabetes, nutrient sensing, obesity and diabetic cardiovascular complications in rodents.

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Cite this ( Einstein-Mount Sinai Diabetes Research Center Human Islet and Adenovirus Core , RRID:SCR_015066)

URL: http://www.einstein.yu.edu/centers/diabetes-research/human-Islet-and-adenovirus-core/

Resource Type: Resource, service resource, resource, core facility, access service resource

Core which provides methodologies, technology and infrastructure to support investigators in the use of human islets for research studies for the Einstein-Mount Sinai Diabetes Research Center. It isolates and prepares human and rodent islets/beta cells and cell lines for investigator-initiated research and generates specific viral vectors (adenovirus and lentivirus) for gene delivery of cDNAs and shRNAs of interest to beta cells and other islet cell types.

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    Ensembl

Cite this (Ensembl, RRID:SCR_002344)

URL: http://www.ensembl.org/

Resource Type: Resource, data analysis service, data access protocol, database, web service, production service resource, analysis service resource, catalog, service resource, software resource, data or information resource

Collection of genome databases for vertebrates and other eukaryotic species with DNA and protein sequence search capabilities. Used to automatically annotate genome, integrate this annotation with other available biological data and make data publicly available via web. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species.

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Cite this (Feeding Experimentation Device, RRID:SCR_015942)

URL: https://github.com/KravitzLab/fed/wiki

Resource Type: Resource, software resource

Software for a home cage-compatible feeding system that measures food intake with high accuracy and temporal resolution. FED offers a alternative to commercial feeders, with the convenience of use in tradition colony rack caging.

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Cite this (Hippocampome.org, RRID:SCR_009023)

URL: http://hippocampome.org

Resource Type: Resource, data or information resource, database

A curated knowledge base of the circuitry of the hippocampus of normal adult, or adolescent, rodents at the mesoscopic level of neuronal types. Knowledge concerning dentate gyrus, CA3, CA2, CA1, subiculum, and entorhinal cortex is distilled from published evidence and is continuously updated as new information becomes available. Each reported neuronal property is documented with a pointer to, and excerpt from, relevant published evidence, such as citation quotes or illustrations. Please note: This is an alpha-testing site. The content is still being vetted for accuracy and has not yet undergone peer-review. As such, it may contain inaccuracies and should not (yet) be trusted as a scholarly resource. The content does not yet appear uniformly across all combinations of browsers and screen resolutions.

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Cite this ( Indiana O'Brien Center for Advanced Microscopic Analysis Probe Delivery Core , RRID:SCR_015274)

URL: http://medicine.iupui.edu/neph/obrien/probe

Resource Type: Resource, service resource, resource, core facility, access service resource

Core facility which develops and characterizes methods for expressing fluorescent biosensors in the rodent kidney to be paried with intravital microscopy.

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Cite this ( Indiana University Cooperative Center of Excellence in Hematology Optical Microscopy Core , RRID:SCR_015347)

URL: http://medicine.iupui.edu/ICBM

Resource Type: Resource, service resource, resource, core facility, access service resource

Core facility which provides access to and training on optical microscopy instruments to Indiana University researchers.

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Cite this (JIP Analysis Toolkit, RRID:SCR_009588)

URL: http://www.nmr.mgh.harvard.edu/~jbm/jip/

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

Software toolkit for analysis of rodent and non-human primate fMRI data. The toolkit consists of binary executables, highly portable open-source c code, and image resources that enable 1) Automated registration based upon mutual information (affine, non-linear warps), with flexible control and visualization of each step; 2) visualization of 4-dimensional data using either mosaic or tri-planar display of the z/slice dimension, and integration of a general linear model for graphical display of time series analysis; 3) A simple and flexible 1st-order GLM for fMRI time series analysis, a 1st-order GLM analysis for PET data within the SRTM framework, plus a 2nd-order GLM analysis following the Worsley 2002 scheme, and 4) MRI templates to place your rodent and non-human primate data into standardized spaces.

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Cite this ( Joslin Diabetes Center Animal Physiology Core , RRID:SCR_009876)

URL: https://joslinresearch.org/drc-cores/Animal-Physiology-Core

Resource Type: Resource, service resource, resource, core facility, access service resource

Core that provides technically advanced physiological evaluation of metabolism in diabetes, obesity, and their associated complications in rodents for DRC investigators and outside users. It also provides training of investigators and trainees in several physiological procedures.

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Cite this (Med Associates Video Freeze Software, RRID:SCR_014574)

URL: http://www.med-associates.com/product-category/video-software/

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

Automation software used to analyze fear behavior in rodents. Freezing is represented in the data file in several different ways, including the total time the subject spends motionless during the session, the percent of time motionless, the number of freezing episodes or occurrences, or as an average index of motion.

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Cite this ( Michigan Diabetes Research Center Animal Studies Core , RRID:SCR_015133)

URL: http://diabetesresearch.med.umich.edu/Core_MDRC_Animal.php

Resource Type: Resource, service resource, resource, core facility, access service resource

Fee-for-service laboratory that provides consultation and utilizes specialized skills and equipment to assess the metabolic state and related endocrine and behavioral phenotypes of rats and mice. The labs include Rat Metabolic Phenotyping Lab, Optogenetics and Behavioral Phenotyping Lab, Islet Laboratory, and Continuous Glucose Monitoring Lab.

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Cite this (Molecular Imaging and Contrast Agent Database, RRID:SCR_006712)

URL: http://www.ncbi.nlm.nih.gov/books/NBK5330/

Resource Type: Resource, narrative resource, data set, data or information resource, book, database

Searchable book regarding molecular imaging and contrast agents (under development, in clinical trials or commercially available for medical applications) that have in vivo data (animal or human) published in peer-reviewed scientific journals prior to June 30 of 2013. 1444 agents are currently listed and there will be no more updates. Also available is a downloadable list of FDA approved contrast agents (Latest update: January 2013) and a Molecular Imaging Probes and Contrast Agents List (MIP & CA List) created by the MICAD staff by screening the PubMed / MedLine databases and other appropriate sources of such information. Only agents used in animal or human studies yielding in vivo data were selected for inclusion in the list. The list is by no means considered complete. No one imaging modality has been given preference over the others and the omission of any agent(s) or the introduction of any errors in the list is purely unintentional. The MIP & CA List is subject to the same copyright and disclaimers as the rest of the MICAD content. The database includes, but is not limited to, agents developed for positron emission tomography (PET), single photon emission computed tomography (SPECT), magnetic resonance imaging (MRI), ultrasound (US), computed tomography (CT), optical imaging, planar radiography, and planar gamma imaging. The information on each agent is summarized in a book chapter format containing several sections such as Background, Synthesis, in vitro studies, Animal Studies (with sub-sections: rodents, other non-human primate animals, and human primates), Human Studies, and References. In addition, the references are linked to PubMed for retrieval of the publication abstract. Also, each chapter contains links to resources at the National Center for Biotechnology Information (NCBI) and other relevant databases regarding the target of the imaging probe or contrast agent.

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    MRtrix

Cite this (MRtrix, RRID:SCR_006971)

URL: http://www.brain.org.au/software/mrtrix/

Resource Type: Resource, software resource, software toolkit, source code, data processing software, software application

A set of tools to perform diffusion-weighted MRI white matter tractography in the presence of crossing fibres, using Constrained Spherical Deconvolution (Tournier et al.. 2004; Tournier et al. 2007), and a probabilisitic streamlines algorithm (e.g. Behrens et al., 2003; Parker et al., 2003). These applications have been written from scratch in C++, using the functionality provided by the GNU Scientific Library, and gtkmm. The software is currently capable of handling DICOM, NIfTI and AnalyseAVW image formats, amongst others. Installation * Unix/Linux * Microsoft Windows * Mac Os X

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Cite this (MVZ Collections, RRID:SCR_010608)

URL: http://mvz.berkeley.edu/Collections.html

Resource Type: Resource, database, biomaterial supply resource, biospecimen repository, image collection, tissue bank, narrative resource, book, audio track, storage service resource, service resource, material storage repository, material resource, data or information resource

A collection of over 640,000 specimens of amphibians, reptiles, birds, bird eggs or nests, and mammals, as well as over 50,000 tissue samples from these vertebrate groups. These research collections are ranked as one of the largest in the United States, and the largest of any university museum. In addition, the Museum has numerous special collections that include archived field notes and photographs, historical annotated maps and correspondence, avian sound recordings, chromosome and histology preparations, Milton Hildebrand anatomical and film collections, artwork related to terrestrial vertebrate natural history, and a library of books, reprints, and journals for curation and research activities. Specimen data are accessible online, and the Museum is working to improve data access to the other collections. Museum Collections * Mammal Collection * Herpetological Collection * Bird Collection * Egg & Nest Collection * Tissue Collection * Fieldnotes, Photos, & Map Collection * Other Collections The Museum of Vertebrate Zoology (MVZ) welcomes donations of amphibians, reptiles, birds, bird eggs and nests, mammals and related materials. Acceptance of a donation is at the discretion of MVZ Curators. * Specimens -- May include preserved specimens and/or parts (e.g., tissue samples) as well as unpreserved material (e.g., frozen carcasses, live animals) that will be prepared by Museum Curators, curatorial staff, or students. * Related Materials -- Donations of images (digital or printed photographs or slides), sound recordings, field notes, and other natural history archival material. Materials must be connected to specimens or research projects. Donated material and associated data will be made available for research, education, or public exhibit according to the mission and policies of the Museum and Regents, except by prior signed agreement between the donor and the Museum.

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Cite this ( O'Brien Center for Benign Urologic Research at University of Wisconsin-Madision and University of Massachusetts-Boston Rodent Urinary Function Testing Core , RRID:SCR_015477)

URL: http://www.urology.wisc.edu/research/u54-george-m-obrien-center-for-benign-urology-research/rodent-urinary-function-testing-ruft-core/

Resource Type: Resource, service resource, resource, core facility, access service resource

Core that designs, validates, and disseminates protocols for rodent urinary function testing. It also provides urinary function testing services, expertise, laboratory space, vivarium, and equipment for complete mouse urinary function testing.

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    PhenoSys

Cite this (PhenoSys, RRID:SCR_004072)

URL: http://www.phenosys.com/

Resource Type: Resource, material resource, commercial organization, instrument supplier

A research- and development-oriented company based in Berlin that engineers and markets technology for animal behavior research offering unique, automated instrumentation. This includes specialized applications of virtual reality and touch screen technology for animal behavior environments and RFID (transponder) operated devices in home cage environments. Their experimental systems are used for behavioral phenotyping, brain research, experimental psychology, and the diagnostic characterization of animal models for translational medicine.

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