Curator Dashboard

Client-server software for management, visualization, and analysis of biological microscopy images. OMERO handles images in a secure central repository where users can view, organize, analyze and share data from anywhere with internet access. Work with images from a desktop app (Windows, Mac or Linux), from the web or from 3rd party software.

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• SciCrunch
• 14 years ago - by Anonymous

Software R package. Fit linear and generalized linear mixed-effects models. The models and their components are represented using S4 classes and methods. The core computational algorithms are implemented using the 'Eigen' C++ library for numerical linear algebra and 'RcppEigen' "glue."

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• RRID-Legacy
• 9 years ago - by Anonymous

Provides advanced computing resources and services to support needs of UC San Diego research community. In addition, researchers from other academic institutions and industries can also participate in this research computing program. TSCC operates on two different computing models – Condo (a system purchase model) and Hotel (a pay-as-you-go model) to support broad range of research computing workloads including traditional HPC, HTC, and emerging big data pipelines.

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• RRID
• 3 years ago - submitted by Edyta Vieth

Software for visual and interactive quality control of large Illumina 450k data sets. Bad quality samples are detected using sample-dependent and sample-independent controls present on the array and user adjustable thresholds. In depth exploration of bad quality samples can be performed using several interactive diagnostic plots of the quality control probes present on the array. Furthermore, the impact of any batch effect provided by the user can be explored.

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• SciCrunch
• 12 years ago - by Anonymous

Collection of genome-wide transcriptional expression data from cultured human cells treated with bioactive small molecules and simple pattern-matching algorithms. camp aims to enable the discovery of functional connections between drugs, genes and diseases through the transitory feature of common gene-expression changes., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• RRID-Legacy
• 9 years ago - by Anonymous

CCAM Microscopy Facility provides access to equipment for quantitative fluorescence imaging applications. Instruments include laser scanning confocal microscopes equipped with 34 channel highefficiency QUASAR detectors. One of these microscopes supports nonlinear optical excitation, fluorescence correlation spectroscopy, and fluorescence lifetime imaging microscopy. Additionally, there is a light sheet microscope available for micro/mesoscale 3D imaging. The Zeiss Elyra 7 microscope is capable of total internal reflection fluorescence microscopy and supports several super resolution techniques such as lattice structured illumination microscopy, stochastic optical reconstruction microscopy, 3D photoactivated localization microscopy, and DNA points accumulation for imaging in nanoscale topography.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Imaging Core facility that provides a comprehensive research imaging service to meet the needs of investigators and research subjects using imaging facilities at Brigham and Women's Hospital (BWH). A unique feature of BRIC is the complete anonymity of research subjects. Research image scheduling, image acquisition and image storage are all kept completely separate from BWH clinical Radiology systems. The BRIC provides the administrative infrastructure, customer service architecture and institutional support to promote investigative applications of imaging technologies.

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• SciCrunch
• 14 years ago - by Anonymous

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

Not yet vetted by NIF curator

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• SciCrunch
• 16 years ago - by Anonymous

Web tool for translation of nucleotide sequence to protein sequence.

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• RRID
• 3 years ago - by Anonymous

Center that aims to provide an environment to support biomedical research directed towards human health issues and nonhuman primate health and biology. To meet this mission, the WaNPRC supports biomedical research activities, professional research staff, specifically bred and maintained nonhuman primate colonies, and dedicated facilities and equipment required for nonhuman primate research protocols.

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• SciCrunch
• 17 years ago - by Anonymous

Core facility that supports the study of molecular mechanisms of disease by providing equipment, expertise, and services in molecular phenotyping, including nucleic acid sequence analyses, gene expression, and other "omics" analyses, which would be too specialized or costly for individual laboratories to perform independently. Formerly known as the Advanced Genomics and Genetics Core, the Molecular Phenotyping Core is newly-named in recognition of the expansion of its analytical capacities to reflect not only genetic and genomic analyses but also metabolic phenotyping.

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• SciCrunch
• 9 years ago - submitted by Ko-Wei Lin

Software R package to provide orthology mappings between species, based on NCBI Gene IDs and NCBI orthology mappings.

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• RRID
• 3 years ago - by Anonymous

Web application for sequence analysis and the prediction of protein structure and function. The user interface intakes protein sequences or alignments and returned multiple sequence alignments, motifs, and nuclear localization signals., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 15,2026.

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• SciCrunch
• 17 years ago - by Anonymous

Web portal that allows free access to supercomputing resources for large scale modeling and data processing. Portal facilitates access and use of National Science Foundation (NSF) High Performance Computing (HPC) resources by neuroscientists.

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• NIF
• 9 years ago - submitted by Matt Travers

Core provides services for mouse genotyping and tissue histology, access to tools for analyzing cardiovascular function, data analysis, expertise and training. Services include genotyping using PCR or RT PCR, histology services with tissue processing, paraffin-embedding and sectioning, along with several cardiovascular relevant histological stains such as Picrosirius Red and Masson Trichrome.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software that provides a unified API to the common file formats and parsers available for mass spectrometry data. It comes with a wrapper for the ISB random access parser for mass spectrometry mzXML, mzData and mzML files.

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• SciCrunch
• 12 years ago - by Anonymous

Software plug-in for ImageJ that allows users to determine the size of worms. It can calculate volume, surface area, and other parameters of worm specimens.

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• RRID-Legacy
• 9 years ago - submitted by Anita Bandrowski

Core is equipped with instrumentation supporting areas of NMR, EPR and related techniques.

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• RRID
• 3 years ago - submitted by John Warren

Software package that carries out association analysis of common copy number variants in population-based studies. It includes functions for analysing association under a series of study designs (case-control, cohort, etc), using several dependent variables (class status, censored data, counts) as response, adjusting for covariates and considering various inheritance models. It also includes functions for inferring copy number (CNV genotype calling). Various classes and methods for generic functions (print, summary, plot, anova, ... ) have been created to facilitate the analysis.

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• SciCrunch
• 12 years ago - by Anonymous

Matlab-based routines for the detection and clustering of putative single units from a multi-unit time series, along with quality metrics. This sofwtare was developed by the David Kleinfeld Laboratory at UC San Diego.

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• RRID-Legacy
• 9 years ago - by Anonymous