Curator Dashboard

Facility provides infrastructure and support for investigators to undertake single crystal X-ray structural studies. Provides instrumentation, training, and collaboration for Protein characterization, including dynamic light scattering, differential scanning calorimetry, bio-layer interferometry, and circular dichroism; Binding studies using isothermal titration calorimetry; Robotic crystallization, incubators, UV, and digital microscopes;Robotic imaging; Diffraction data collection and processing; Structure determination and analysis; Molecular modeling; Small angle X-ray scattering. Staff is available to train researchers to use equipment and to assist with project development and research.

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• SciCrunch
• 3 years ago - submitted by Craig Praul

A collection of Pathway/Genome Databases which describes the genome and metabolic pathways of a single organism. The BioCyc collection of Pathway/Genome Databases (PGDBs) provides an electronic reference source on the genomes and metabolic pathways of sequenced organisms. BioCyc PGDBs are generated by software that predicts the metabolic pathway complements of completely sequenced organisms from their genome sequences. They also include the results of a number of other computational inference procedures applied to these genomes, including predictions of which genes code for missing enzymes in metabolic pathways, and predicted operons. The BioCyc Web site provides a suite of software tools for database searching and visualization, for omics data analysis, and for comparative genomics and comparative pathway questions. The databases within the BioCyc collection are organized into tiers according to the amount of manual review and updating they have received. Tier 1 PGDBs have been created through intensive manual efforts, and receive continuous updating. Tier 2 PGDBs were computationally generated by the PathoLogic program, and have undergone moderate amounts of review and updating. Tier 3 PGDBs were computationally generated by the PathoLogic program, and have undergone no review and updating. There are 967 DBs in Tier 3. The downloadable version of BioCyc that includes the Pathway Tools software provides more speed and power than the BioCyc Web site.

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• SciCrunch
• 16 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 30,2023. Core facility that provides support to investigators in designing and carrying out translational studies assessing outcomes for patients with diabetes, or populations at risk.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Web server for local superposition free score for comparing protein structures and models using distance difference tests. Superposition free score that evaluates local distance differences of all atoms in model, including validation of stereochemical plausibility.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. The aim of this locus-specific mutation database was to provide an online resource that contains summarized and updated information on familial hypertrophic cardiomyopathy (FHC)-associated mutations and related data, for researchers and clinicians. It also serves as a means of publishing previously unpublished data, which could be of value in understanding genotype/phenotype correlations. This database contains mutations in various genes known to cause familial hypertrophic cardiomyopathy, a genetic disorder associated with defects in the sarcomere [1]. Only gene symbols approved by HUGO are used and mutations are reported in accordance with guidelines recommended by the Mutation Database Initiative of HUGO and EBI.

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• SciCrunch
• 17 years ago - by Anonymous

Core facility that provides clinical applications and methods to make kidney research translational and applicable to care settings.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Core centralizes process of producing and distributing viral vectors and cDNA plasmids.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

A magnetoencephalography facility hosted at NeuroSpin (CEA Saclay, France) equipped with a 306-channel MEG system from Elekta Neuromag, EEG and EGI systems, and an Eyelink 1000 eye-tracker from SR research. A large set of MEG data analysis tools are being used in the lab including mne-python, fieldtrip, brainstorm, spm, adjust and in-house techniques are also being developed.

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 27,2022. Core facility that provides transmission electron microscopy and scanning electron microscopy for Fred Hutch, Cancer Consortium and Seattle area researchers. Services include immunogold labeling, negative staining, and a variety of sample preparations including cryo techniques, high pressure freezing (HPF) and automatic freeze substitution (AFS).

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Provides infrastructure for self service sample management tools, centralized broad consent, standardized laboratory services, and long term sample storage solutions.Tracks biological samples collected in every study at Stanford and linking each with associated electronic health records (i.e., EPIC), REDCap, and molecular data.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Manuals, training materials, and computational tools developed by the National Consortium on Alcohol and NeuroDevelopment in Adolescence (NCANDA) Data Component. The NCANDA consortium consists of an Administrative Component at UC San Diego, the Data Integration Component at SRI International, and five data collection sites, Duke University, Oregon Health & Sciences University, SRI International, University of Pittsburgh, and UC San Diego. Each collection site will collect data from about 150 adolescents, each of them seen for one baseline and three annual follow-up visits.

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• SciCrunch
• 14 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 16,2025. Core whose mission is to provide analytical tools to investigators to permit determination of the structure of the microbiome in mouse models of disease and assistance in the cultivation of microbes that will permit hypothesis testing in murine models including the germfree animals that are available in the Animal Care Core.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Houses four whole-body MRI systems (three 3.0T, one 7.0T). 3T2 and 3T3 are part of the Lucas Service Center. Individual researchers are trained in magnet safety and scanner operations by the magnet manager or MR research technologists.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

A matlab script which takes near-infrared spectroscopy data recorded by NIRx system(s) and converts it to a .nirs file format for use with the HOMER2 NIRS processing pacakge.

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• SciCrunch
• 14 years ago - by Anonymous

Interactive web visualization tool for populations of bacterial genomes linked by a phylogeny.

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• RRID-Legacy
• 10 years ago - by Anonymous

Supports oceanographic research by providing access to high quality, global, vessel-based CTD and hydrographic data from GO-SHIP, WOCE, CLIVAR and other repeat hydrography programs. These data are openly accessible and served in standardized community formats (WHP-Exchange, WOCE, and netCDF). CCHDO also manages public and non-public CTD data for use by the global Argo and OceanSITES programs.

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• SciCrunch
• 14 years ago - by Anonymous

A stand-alone MATLAB-based toolkit for the rapid and flexible exploration of Region of Interest (ROI) response waveforms and other signals from across large fMRI datasets. An alpha-release is currently available for use with an example dataset and tutorial.

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• SciCrunch
• 14 years ago - by Anonymous

Probabilistic atlas of human white matter tracts/regions underlying several well-known resting state brain networks. The atlas includes group probability maps for each network, as well as each individual tract that are aligned to both the SPM and MRIStudio ICBM templates.

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• NIF
• 10 years ago - submitted by Matt Travers

Population biobank hosts heterogeneous collection of samples from general population spread across Flanders and over time and covers different ages. Biobank in which bio-specimen including human peripheral blood, cord blood, serum, plasma, cells, RNA, DNA), urine, hair, nails, exhaled breath condensate, saliva DNA, and human breast milk collected from non-diseased populations are preserved. These biospecimen were collected since 2002 in different human biomonitoring studies comprising European (e.g., DEMOCOPHES, HBM4EU), national (e.g., WHO human breastmilk studies), Flemish (Flemish Environment and Health Study (FLEHS) campaigns), and local (e.g., hotspots, 3xG project) well-defined and ethically approved research projects.

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• RRID
• 3 years ago - by Anonymous

Software Python library that relies on the REST API provided by the XNAT platform since its 1.4 version. XNAT is an extensible database for neuroimaging data. The main objective is to ease communications with an XNAT server to plug-in external tools or python scripts to process the data.

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• SciCrunch
• 14 years ago - by Anonymous