Curator Dashboard

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 14,2026. A web-based, multi-dimensional image data-viewing application for original microscopy image datasets associated with articles published in The Journal of Cell Biology, a peer-reviewed journal published by The Rockefeller University Press. The JCB DataViewer can host multidimensional fluorescence microscopy images, 3D tomogram data, very large (gigapixel) images, and high content imaging screens. Images are presented in an interactive viewer, and the scores from high content screens are presented in interactive graphs with data points linked to the relevant images. The JCB DataViewer uses the Bio-Formats library to read over 120 different imaging file formats and convert them to the OME-TIFF image data standard. Image data are archived by the Journal and may be freely accessed by readers using the JCB DataViewer. Download of author-provided image data and associated metadata in OME-TIFF format is also possible with author permission, allowing for independent analysis of image data irrespective of acquisition or viewing software. Although the JCB DataViewer is designed to host and facilitate sharing and analysis of original microscopy image data, authors may also upload other types of original image data as supplements to their manuscripts, including histology and electron micrographs and digital scans of gels or blots.

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• SciCrunch
• 14 years ago - by Anonymous

Source code of statistical tests for linear mixed effects models as implemented in lme4. The package also provides the calculation of population means for fixed factors with confidence intervals and corresponding plots.

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• RRID-Legacy
• 9 years ago - by Anonymous

Provides research data and computing technologies, consulting, and community for the UC Berkeley campus to advance research through IT innovation.

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• RRID
• 3 years ago - submitted by Edyta Vieth

Enzyme database developed as a way to access the data of the IUBMB Enzyme Nomenclature List. The data, which are stored in a MySQL database, preserve the formatting of chemical names according to IUPAC standards. A simple, easy to use, web-based query interface is provided (Search), along with an advanced search engine for more complex queries (Advanced Search). Forms are provided to submit suggestions for new enzyme entries or to report errors in existing entries. Downloads of the database are available via FTP as SQL or XML.

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• SciCrunch
• 16 years ago - by Anonymous

diabetes portal

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• dkNET
• 9 years ago - submitted by Anita Bandrowski

Biacore 3000 processing unit is an established, label-free system for detailed studies of biomolecular interactions. The system delivers comprehensive characterization of the interaction, answers questions about the rate constants, affinity, specificity, and determines the active concentration of components. The ability to recover and transfer interaction partners directly to MALDI targets for identification and further characterization makes the system highly applicable to fast identification of unknown interactants.

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• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Software Python package for simulator-independent specification of neuronal network models. In other words, you can write the code for a model once, using the PyNN API, and then run it without modification on any simulator that PyNN supports (currently NEURON, NEST and PCSIM). The API has two parts, a low-level, procedural API (functions create(), connect(), set(), record(), record_v()), and a high-level, object-oriented API (classes Population and Projection, which have methods like set(), record(), setWeights(), etc.). The low-level API is good for small networks, and perhaps gives more flexibility. The high-level API is good for hiding the details and the book-keeping, and is intended to have a one-to-one mapping with FacetsML. The other thing that is required to write a model once and run it on multiple simulators is standard cell models. PyNN translates standard cell-model names and parameter names into simulator-specific names, e.g. standard model IF_curr_alpha is iaf_neuron in NEST and StandardIF in NEURON, while SpikeSourcePoisson is a poisson_generator in NEST and a NetStim in NEURON. Only a small number off cell models have been implemented so far.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented September 15, 2017.

A virtual database of annotations between databases.

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• SciCrunch
• 13 years ago - by Anonymous

Provides flow cytometry services. Instruments include Beckman Coulter CytoFLEX SRT sorter and CytoFLEX LX, as well as NanoAnalyzer from NanoFCM. Facility staff are able to assist with everything from experimental design, instrument training, sample collection, and data analysis.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 14,2026. Sample collection of oocytes obtained from various sized antral follicles, and embryos obtained through a variety of different protocols. The PREGER makes it possible to undertake quantitative gene-expression studies in rhesus monkey oocytes and embryos through simple and cost-effective hybridization-based methods.

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• SciCrunch
• 17 years ago - by Anonymous

3D editing software for manifold triangle meshes with advanced repairing features. It can post-process polygon meshes coming from digitization sessions and automatically filter out most of the typical flaws that models may have when coming from a 3D digitization session (degenerate triangles, isolated vertices, noise, topological artefacts, holes, ...).

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• RRID-Legacy
• 9 years ago - by Anonymous

Software R package to create and manipulate functions commonly used during modeling e.g. fitting the model, making predictions, etc.

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• RRID
• 3 years ago - by Anonymous

Cross-species microarray expression database focusing on high-throughput expression data relevant for germline development, meiosis and gametogenesis as well as the mitotic cell cycle. The database contains a unique combination of information: 1) High-throughput expression data obtained with whole-genome high-density oligonucleotide microarrays (GeneChips). 2) Sample annotation (mouse over the sample name and click on it) using the Multiomics Information Management and Annotation System (MIMAS 3.0). 3) In vivo protein-DNA binding data and protein-protein interaction data (available for selected species). 4) Genome annotation information from Ensembl version 50. 5) Orthologs are identified using data from Ensembl and OMA and linked to each other via a section in the report pages. The portal provides access to the Saccharomyces Genomics Viewer (SGV) which facilitates online interpretation of complex data from experiments with high-density oligonucleotide tiling microarrays that cover the entire yeast genome. The database displays only expression data obtained with high-density oligonucleotide microarrays (GeneChips)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 15,2026.

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• SciCrunch
• 17 years ago - by Anonymous

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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• SciCrunch
• 9 years ago - submitted by Anita Bandrowski

Facility includes Analytic Redox Biology and Molecular Signaling Sub-Cores. Provided services include measurements of reactive oxygen species, reactive nitrogen species, reactive sulfide species, protein, peptides, metabolites, and lipids in cell culture and tissue samples. High-performance liquid chromatography systems, coupled with UV-vis and fluorescence detectors to quantify cellular and mitochondrial superoxide production, hydrogen sulfide pools (free sulfide, sulfide bound to transitional metals, and sulfane sulfur), and thiols (glutathione, GSH/GSSG, cysteine, cystine, homocysteine, persulfides, and glutathionylation).Instruments include Sievers NO Analyzer (NOA 280i, GE), Agilent 8890 GC and 8335 sulfur chemiluminescence detector ,Thermo Scientific Orbitrap Exploris 480 and SCIEX Triple Quad 7500 mass spectrometer. Molecular Signaling Sub-Core offers services for molecular cloning and site-directed mutagenesis, design and production of vectors for CRISPR/Cas9 modification of vascular cells, services for endothelial, smooth muscle, and cardiac myocyte cell isolation, for generation of vascular cell lines, and for lentivirus production for transient or stable modification of cardiovascular cells, access to equipment and expertise for studying cellular effects of hypoxia/reoxygenation injury (Coy Hypoxic Chamber, CLARIOstar Spectrofluorometer), for automated capillary Western blot analysis (ProteinSimple Jess Simple Western), and for high-resolution fluo-respirometry to study mitochondrial function (Oroboros O2k modular system).

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Anatomical atlas about structural anatomy of Caenorhabditis elegans. Provides simple interface allowing user to easily navigate through every anatomical structure of worm. Contains set of images which can be sorted by different characteristics: sex, genotype, age, body portion or tissue type. Includes links to other major worm websites and databases. Application for viewing and downloading thousands of unpublished electron micrographs and associated data. These images have been generated by several labs in the C. elegans community, including the MRC, the Hall lab (Center for C. elegans Anatomy), and the Culotti and Riddle labs.

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• SciCrunch
• 14 years ago - by Anonymous

Software for tracking and analysis based on algorithms describing structural and topological features of fiber-like objects. The program operates on images from any microscopic source (atomic force or transmission electron microscopy, optical, fluorescence, confocal, etc.), acquiring the spatial coordinates of objects.

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• RRID-Legacy
• 9 years ago - by Anonymous

Core to build partnerships with government, National Facilities, industrial and academic stakeholders at Harwell and beyond, to jointly address challenges set by UK’s Industrial Strategy through research and to discover and develop innovative techniques and technologies to enhance facility science, data analytics and workplace safety.

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• RRID
• 3 years ago - submitted by John Warren

MATLAB toolbox for deep-brain-stimulation (DBS) electrode reconstructions and visualizations based on postoperative MRI and computed tomography (CT) imaging. The toolbox also facilitates visualization of localization results in 2D/3D, analysis of DBS-electrode placement's effects on clinical results, simulation of DBS stimulations, diffusion tensor imaging (DTI) based connectivity estimates, and fiber-tracking from the VAT to other brain regions (connectomic surgery).

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• SciCrunch
• 12 years ago - by Anonymous

Framework for spike sorting that includes tools for pre-processing, spike detection, spike sorting, and sorting quality evaluation. It is principally designed for sorting of single-wire microwire recordings in humans, but is being used for other types of recordings as well.

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• RRID-Legacy
• 9 years ago - by Anonymous