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on page 2 showing 20 out of 15,940 results from 1 sources

Cite this (3D-Interologs, RRID:SCR_003101)

URL: http://gemdock.life.nctu.edu.tw/3D-Interologs

Resource Type: Resource, data analysis service, production service resource, analysis service resource, database, service resource, data or information resource

Database of physical protein-protein interactions across multiple genomes. Based on 3D-domain interolog mapping and a scoring function, protein-protein interactions are inferred by using three-dimensional (3D) structure heterodimers to search the UniProt database. For a query protein, the database utilizes BLAST to identify homologous proteins and the interacting partners from multiple species. Based on the scoring function and structure complexes, it provides the statistic significances, the interacting models (e.g. hydrogen bonds and conserved amino acids), and functional annotations of interacting partners of a query protein. The identification of orthologous proteins of multiple species allows the study of protein-protein evolution, protein functions, and cross-referencing of proteins.

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Cite this (3D Macromolecular Analysis and Kinemage Home Page, RRID:SCR_008569)

URL: http://rd.plos.org/pbio.0050257

Resource Type: Resource, data or information resource, database

Resources for macromolecular X-ray crystallography from the Richardson Laboratory, including kinemages (a scientific illustration presented as an interactive computer display), databases, software, training materials and images

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Cite this (3DMeshMetric, RRID:SCR_000043)

URL: http://www.nitrc.org/projects/meshmetric3d/

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

A visualization tool based on the VTK library. Its main feature is to measure and display surface-to-surface distance between two triangle meshes using user-specified uniform sampling ( based on the source code of MeshValmet ). 3dMeshMetric also offers all the basic tools to visualize meshes such as color, opacity, smoothing, down sampling or type of representation.

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Cite this (3D MRI Atlas of Mouse Development, RRID:SCR_008090)

URL: http://mouseatlas.caltech.edu/

Resource Type: Resource, atlas, data or information resource

A 3D digital atlas of normal mouse development constructed from magnetic resonance image data. The download is a zipped file containing the six atlases Theiler Stages (ts) 13, 21,23, 24, 25 and 26 and MRI data for an unlabeled ts19 embryo. To view the atlases, download and install MBAT from: http://mbat.loni.ucla.edu Specimens were prepared in aqueous, isotonic solutions to avoid tissue shrinkage. Limited specimen handling minimized physical perturbation of the embryos to ensure accurate geometric representations of developing mouse anatomy. Currently, the atlas contains orthogonal sections through MRI volumes, three stages of embryos that have annotated anatomy, photographs of several stages of development, lineage trees for annotated embryos and a gallery of images and movies derived from the annotations. Anatomical annotations can be viewed by selecting a transverse section and selecting a pixel on the displayed slice.

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Cite this (3D Ribosomal Modification Maps Database, RRID:SCR_003097)

URL: http://people.biochem.umass.edu/fournierlab/3dmodmap/

Resource Type: Resource, data or information resource, database

Database of maps showing the sites of modified rRNA nucleotides. Access to the rRNA sequences, secondary structures both with modification sites indicated, 3D modification maps and the supporting tables of equivalent nucleotides for rRNA from model organisms including yeast, arabidopsis, e. coli and human is provided. This database complements the Yeast snoRNA Database at UMass-Amherst and relies on linking to some content from that database, as well as to others by colleagues in related fields. Therefore, please be very cognizant as to the source when citing information obtained herein. Locations of modified rRNA nucleotides within the 3D structure of the ribosome.

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Cite this (3DSlicerLupusLesionModule, RRID:SCR_000853)

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

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

Slicer3 module to provide a capability for performing white matter lesion classification and summary.

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Cite this (3D Slicer, RRID:SCR_005619)

URL: http://slicer.org/

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

A free, open source software package for visualization and image analysis including registration, segmentation, and quantification of medical image data. Slicer provides a graphical user interface to a powerful set of tools so they can be used by end-user clinicians and researchers alike. 3D Slicer is natively designed to be available on multiple platforms, including Windows, Linux and Mac Os X. Slicer is based on VTK (http://public.kitware.com/vtk) and has a modular architecture for easy addition of new functionality. It uses an XML-based file format called MRML - Medical Reality Markup Language which can be used as an interchange format among medical imaging applications. Slicer is primarily written in C++ and Tcl.

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    3ds Max

Cite this (3ds Max, RRID:SCR_014251)

URL: http://www.autodesk.com/store/3ds-max/what-s-new#

Resource Type: Resource, software resource, software application, authoring tool

3D modeling, animation, and rendering software which allows users to create custom tools and share design projects. 3ds Max contains various tools and templates for rendering and and editing, including tools for graph construction, project collaboration, and complex topography creation.

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Cite this (3D surgical atlases of the murine head, RRID:SCR_008039)

URL: http://phm.utoronto.ca/~jeffh/surgical.htm

Resource Type: Resource, atlas, data or information resource

3D interactive atlas of two mouse brains, 129S1/SvImJ and C57Bl/6J. The aim of this resource is to enhance comparative morphometric analyses and stereotactic surgical procedures in mice. These representations of the murine brain and skull, in conjunction with the resource''s development of a new, more dynamic master coordinate system, provide improved accuracy with respect to targeting CNS structures during surgery compared with previous systems. The interactive three-dimensional nature of these atlases also provide users with stereotactic information necessary to perform accurate off-axis surgical procedures, as is commonly required for experiments such as in vivo micro-electroporation. In addition, three-dimensional analysis of the brain and skull shape in C57Bl, 129Sv, CD1, and additional murine strains, suggests that a stereotactic coordinate system based upon the lambda and rostral confluence of the sinuses at the sagittal midline, provides improved accuracy compared with the traditional lambdabregma landmark system. These findings demonstrate the utility of developing highly accurate and robust three-dimensional representations of the murine brain and skull, in which experimental outputs can be directly compared using a unified coordinate system.

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    3dsvm

Cite this (3dsvm, RRID:SCR_014083)

URL: http://www.nitrc.org/projects/afni_3dsvm/

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

A command-line program and plugin for AFNI built around SVM-Light. It performs support vector machine (SVM) analysis on fMRI data and runs on Unix+X11+Motif systems, including SGI, Solaris, Linux, and Mac OS X.

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    3DSwap

Cite this (3DSwap, RRID:SCR_004133)

URL: http://caps.ncbs.res.in/3dswap/index.html

Resource Type: Resource, data or information resource, database

Curated knowledegbase of protein structures that are reported to be involved in 3-dimensional domain swapping. 3DSwap provides literature curated information and structure related information about 3D domain swapping in proteins. Information about swapping, hinge region, swapped region, extent of swapping, etc. are extracted from original research publications after extensive literature curation.

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    3DVC

Cite this (3DVC, RRID:SCR_001377)

URL: http://www.3dvcell.org/conference-toward-3d-virtual-cell

Resource Type: Resource, portal, community building portal, data or information resource

Community of researchers attempting to build a comprehensive virtual cell model. The 3DVC will do for cell biology what the Large Hadron Collider (LHC) does for particle physics, but through a virtual rather than physical resource. It will bring together collaborators around a shared infrastructure to advance the field through efficient groundbreaking science and technology, the results of which will be broadly disseminated to an audience ranging from K12 to professionals. The 3DVC is committed to open science, yet strives for sustainability through new business models that leverages that open content.

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Cite this (3DViewnix, RRID:SCR_007351)

URL: http://mipgsun.mipg.upenn.edu/~Vnews/

Resource Type: Resource, software resource, software application, data processing software, d visualization software

Data-, machine-, and application- independent software system for the visualization and analysis of multidimensional images. This transportable, very inexpensive software system, has capabilities for visualizing, manipulating, and analyzing multidimensional, multimodality image information. It is designed to run on Unix machines under X-windows. It uses a data protocol that is a multidimensional generalization of the ACR-NEMA standards. We have tested it extensively on SGI and Sun workstations and PCs. Other recipients of 3DVIEWNIX have installed it on a variety of platforms including IBM RS6000s, HP700s, and Stardent, all from a single source code version. UNIQUE FEATURES OF 3DVIEWNIX * Transportable - based on UNIX, X-window, and C * Based on multidimensional generalization of ACR-NEMA standards of data representation * Application-independent * Image dimensionality independent * Can handle rigid, non-rigid, static, and dynamic objects and object assemblies * Can handle object information from multiple modalities and longitudinal acquisitions * Multitudes of visualization, manipulation, and analysis methods incorporated * Open software system distributed with source code

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Cite this (3H Biomedical AB, RRID:SCR_008981)

URL: http://www.3hbiomedical.com/

Resource Type: Resource, material resource, reagent supplier, commercial organization, antibody supplier

An Antibody supplier

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    3Omics

Cite this (3Omics, RRID:SCR_014678)

URL: https://omictools.com/3omics-tool

Resource Type: Resource, software resource, web application

THIS RESOURCE IS NO LONGER IN SERVICE, documented October 19, 2016. A web tool for visualizing and integrating multiple inter- or intra-transcriptomic, proteomic, and metabolomic human data. 3Omics generates inter-omic correlation networks to visualize relationships in data with respect to time or experimental conditions for transcripts, proteins and metabolites.

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    3Scan

Cite this (3Scan, RRID:SCR_012685)

URL: http://www.scienceexchange.com/facilities/3scan

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

3Scan uses the cutting edge technology of the KESM (Knife Edge Scanning Microscope) to automatically section and image samples. Knife-edge scanning, introduced in the KESM instrument, not only preserves image registration throughout the depth of the specimen block but also isolates the tissue above the knife from that below to eliminate undesirable events (back-scattering of light and bleaching of fluorescent-stained tissue below the knife). Using the KESM, 3Scan is able to scan a one cc^3 block of tissue (for example, a whole mouse brain) at submicron resolution in under 100 hours. With this resolution (a voxel size of 0.6 um x 0.7 um x 1.0 um) 3Scan is able to show cell scale phenomena in the context of a compete organ. In the example of a whole mouse brain this means that 3Scan is able to accurately model every neuron in the mouse brain sample.

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Cite this (499 fROI atlas, RRID:SCR_014756)

URL: http://findlab.stanford.edu/functional_ROIs.html

Resource Type: Resource, atlas, data or information resource

Atlas of functional ROIs (fROIs) containing 499 regions, with extensive gray matter coverage. Atlases are available for download directly from the website.

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Cite this (4D Atlases Construction, RRID:SCR_002227)

URL: http://www.med.unc.edu/bric/ideagroup/free-softwares/4d-atlases-construction

Resource Type: Resource, software resource

Software package for constructing longitudinal atlases, which are the necessary steps for many brain-related applications.

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Cite this (4D-PARSeR Pathological Anatomy Regression via Segmentation and Registration, RRID:SCR_002480)

URL: http://www.nitrc.org/projects/parser_4d/

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

A tool for analyzing 4D images with pathology. Originally developed for processing longitudinal images of patients with traumatic brain injury, the tool contains new image analysis algorithms that combine registration and segmentation in a coherent framework, accounting for extreme changes due to extensive tissue damage.

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    4Peaks

Cite this (4Peaks, RRID:SCR_000015)

URL: http://nucleobytes.com/index.php/4peaks

Resource Type: Resource, software resource, software application

Software application for viewing and editing sequence trace files.

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