Curator Dashboard

Software resource that extends the functionality of go-perl (on which it depends) with GO Database access functionality. go-db-perl comes bundled with various scripts and a shell command line interface that can be used as standalone tools. Installation is more involved than for go-perl; you will need a MySQL database plus the requisite DBI and DBD Perl modules. Full installation instructions are included in the download. go-db-perl is in use both to drive AmiGO and internally within Ensembl. Platform: Windows compatible, Mac OS X compatible, Linux compatible, Unix compatible

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• SciCrunch
• 15 years ago - by Anonymous

Framework and software to estimate time varying reproduction numbers during epidemics. Tools to quantify transmissibility throughout epidemic from analysis of time series of incidence. Used to estimate time varying instantaneous reproduction numbers from incidence time series.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Core is part of Unit for Laboratory Animal Medicine. Provides services to perform sterile, minimally-invasive, and non-sterile surgical procedures on both small and large animals. Facility personnel are licensed veterinary technicians and AALAS Technologists.ULAM Veterinary Board-Certified Surgeon also oversees daily operations.Users must have an approved animal use protocol from the Institutional Animal Care & Use Committee (IACUC) prior to utilizing ASOR services and facilities.

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• RRID
• 1 year ago - submitted by Edyta Vieth

THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 12, 2012. GARBAN is a tool for analysis and rapid functional annotation of data arising from cDNA microarrays and proteomics techniques. GARBAN has been implemented with bioinformatic tools to rapidly compare, classify, and graphically represent multiple sets of data (genes/ESTs, or proteins), with the specific aim of facilitating the identification of molecular markers in pathological and pharmacological studies. GARBAN has links to the major genomic and proteomic databases (Ensembl, GeneBank, UniProt Knowledgebase, InterPro, etc.), and follows the criteria of the Gene Ontology Consortium (GO) for ontological classifications. Source may be shared: e-mail garban (at) ceit.es. Platform: Online tool

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• SciCrunch
• 15 years ago - by Anonymous

Software toolkit for unambiguously describing molecular structure of DNA, RNA, and proteins, including non-canonical monomeric forms, crosslinks, nicks, and circular topologies. Aims to help epigenomics, transcriptomics, proteomics, systems biology, and synthetic biology researchers share and integrate information about DNA modification, post-transcriptional modification, post-translational modification, expanded genetic codes, and synthetic parts.

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• SciCrunch
• 6 years ago - submitted by Jonathan Karr

Core is part of the University of Michigan Rogel Cancer Center. Provides Rogel Cancer Center investigators with assistance in all quantitative aspects of cancer research -- including biostatistics, bioinformatics, computational biology, analytics and other emerging data-driven and data-intense endeavors.

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• RRID
• 1 year ago - submitted by Edyta Vieth

Public data warehouse for searching cell line data extracted from both ATCC and HyperCLDB. The knowledge base uses the Cell Line Ontology, created with the Protege ontology editing tool from the National Center for Biomedical Ontologies (NCBO) and merges concepts from other ontologies, including the Cell Type Ontology. The Cell Line Knowledge Base uses our Cell Line Ontology as the underlying data model. The ontology defines the following cell line attributes: Cell Line ID, Organism, Tissue, Pathology, Growth Mode, MeSH ID. To report errors in the data or to add cell line data to the knowledge base, please email: clbk-data (at) umich.edu

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• SciCrunch
• 15 years ago - by Anonymous

Provides instruments for materials and nanomaterials research and full service TEM and cryoTEM sample preparation and imaging. Conducts CLEM and cryoCLEM workflows utilizing cryoFluorescence, cryoSEM and cryoFIB with focus on bio samples.Provides equipment and expertise to work with nanomaterials for characterization and imaging purpose. Core imaging capabilities include high performance field emission transmission electron microscope equipped with STEM, EELS, EDS and cryo-imaging, high performance field emission scanning electron microscope and focused ion beam equipped with STEM and cryo-imaging, cryo-fluorescent confocal microscope for CLEM workflows, and atomic force microscope equipped with liquid cell. Instrumentation for material characterization includes high throughputdynamic light scattering, nanoparticle sizing and counting, and rheometry.

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• SciCrunch
• 6 years ago - submitted by Edyta Vieth

Provides access to the latest technologies, with consultation and services available throughout the design and execution of sequencing projects.

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• RRID
• 1 year ago - by Anonymous

A structured controlled vocabulary of the anatomy and development of the Zebrafish (Danio rerio). It includes a list of structures, organized hierarchically into an ontology, with descriptions of each structure. The current version is being written by a consortium of researchers, each serving as an expert for a particular set of anatomical structures. Additional anatomical information derived from the current literature is provided by the ZFIN curation group. Development of a complete and uniform anatomical ontology for the zebrafish is vital to the success of zebrafish science. The anatomical ontology is necessary for: * Effective data dissemination and informatics. * A reference framework. * Interoperability.

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• SciCrunch
• 15 years ago - by Anonymous

Guidelines to improve reporting of research using animals by maximizing information published and minimizing unnecessary studies. Guidelines, originally published in PLOS Biology, were developed in consultation with scientific community as part of NC3Rs initiative to improve standard of reporting of research using animals. Can be applied to any area of bioscience research using laboratory animals.

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• SciCrunch
• 6 years ago - submitted by Anita Bandrowski

Core performs routine transmission and scanning Electron Microscopy and all kinds of immune Electron Microscopy, correlative light electron microscopy, three-dimensional EM (3DEM), quantitative stereological evaluation of data and more.

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• SciCrunch
• 1 year ago - submitted by Edyta Vieth

Shuttleworth Foundation is supporting exceptional people to change the world. We provide funding for dynamic leaders who are at the forefront of social change. We identify amazing people, give them a fellowship grant, and multiply the money they put into their projects by a factor of ten or more. We are looking for social innovators who are helping to change the world for the better and are looking for some support through an innovative social investment model.

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• SciCrunch
• 15 years ago - by Anonymous

Microscopy service and shared instrumentation facility provides expertise and instrument access for electron and light microscopy imaging technologies as well as image analysis tools and services for basic scientists and clinical researchers. Provides access to electron and light microscopes; training in microscope use; full range of TEM and SEM sample preparatory services; and consultation regarding microscopy applications in biomedical investigations.

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• SciCrunch
• 6 years ago - submitted by Vicky Guo

Data repository that is hosting medical images.

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• dkNET
• 1 year ago - submitted by Ko-Wei Lin

API and demo application for accessing the Allen Brain Atlas Mouse Brain data. Data available via the API includes download high resolution images, expression data from a 3D volume, 3D coordinates of the Allen Reference Atlas, and searching genes with similar gene expression profiles using NeuroBlast. Data made available includes: * High resolution images for gene expression, connectivity, and histology experiments, as well as annotated atlas images * 3-D expression summaries registered to a reference space for the Mouse Brain and Developing Mouse Brain * Primary microarray results for the Human Brain and Non-Human Primate * RNA sequencing results for the Developing Human Brain * MRI and DTI files for Human Brain The API consists of the following resources: * RESTful model access * Image download service * 3-D expression summary download service * Differential expression search services * NeuroBlast correlative searches * Image-to-image synchronization service * Structure graph download service

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• SciCrunch
• 15 years ago - by Anonymous

Core provides imaging equipment including JEOL 1400 transmission electron microscope with AMT 11 megapixel digital camera,JEOL JSM 6060 scanning electron microscope with attached Oxford INCA energy dispersive spectroscopy detector for element analysis,Nikon Air HD confocal scanning laser microscope, Nikon C2 confocal scanning laser microscope, Andor Spinning Disk confocal microscope, Zeiss LSM 7 Multiphoton confocal microscope, Nikon STORM super-resolution light microscope, Olympus BX50 research microscope for transmitted light, phase contrast, and epi-fluorescence microscopy, Asylum Research MFP-3D BIO atomic force microscope, Asylum Research Cypher Environmental atomic force microscope,Arcturus XT-Ti Laser Capture Microdissector system, Olympus IX70 inverted microscope with associated Applied BioPhysics Electri Cell-Substrate Impedance Sensing (ECIS Ztheta) system, Leica VERSA 8 whole slide imager, Dell workstations containing Molecular Devices MetaMorph image analysis software for complex quantitative image analysis, Indica Labs HALO software, Improvision Volocity, MBR StereoInvestigator.

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• SciCrunch
• 6 years ago - submitted by Edyta Vieth

Cogentech's Histopathology (HP) Core Facility provides services including consultation, tissue trimming and embedding, cutting, staining, photographic documentation for the evaluation and characterization of normal and pathological tissues. Provides Optimization of protocols for new stains or biological specimen.The laboratory is ISO9001 certified.

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• SciCrunch
• 1 year ago - submitted by Edyta Vieth

Ontology of clinical terms Version 3 (CTV3) (Read Codes) (Q199): National Health Service National Coding and Classification Centre

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• SciCrunch
• 13 years ago - by Anonymous

Collection of guidelines to encourage rigorous and reproducible research practices for cardiovascular physiology.

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• RRID-Legacy
• 6 years ago - submitted by Tracey Weissgerber