Curator Dashboard

A repository which provides specimen acquisition, processing and storage services, and access to archived frozen tissue specimens to the BWH/MGH/DFCI research community.

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• SciCrunch
• 13 years ago - by Anonymous

Provides highly sensitive elemental quantification, including sample preparation, data analysis, and experimental guidance, through Inductively Coupled Plasma Mass Spectrometry (ICP-MS) technology.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

A Python-based open source toolkit for magnetic resonance connectome mapping, data management, sharing, visualization and analysis. The toolkit includes the connectome mapper (a full DMRI processing pipeline), a new file format for multi modal data and metadata, and a visualization application.

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• SciCrunch
• 14 years ago - by Anonymous

Datasets used for Subsemble cell type classification performance benchmarks.

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• SciCrunch
• 4 years ago - submitted by David Chen

An integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling. Version 4 of Babelomics integrates primary (normalization, calls, etc.) and secondary (signatures, predictors, associations, TDTs, clustering, etc.) analysis tools within an environment that allows relating genomic data and/or interpreting them by means of different functional enrichment or gene set methods. Such interpretation is made not only using functional definitions (GO, KEGG, Biocarta, etc.) but also regulatory information (from Transfac, Jaspar, etc.) and other levels of regulation such as miRNA-mediated interference, protein-protein interactions, text-mining module definitions and the possibility of producing de novo annotations through the Blast2GO system . Babelomics has been extensively re-engineered and now it includes the use of web services and Web 2.0 technology features, a new user interface with persistent sessions and a new extended database of gene identifiers. In this release GEPAS and Babelomics have integrated into a unique web application with many new features and improvements: * Data input: import and quality control for the most common microarray formats * Normalization and base calling: for the most common expression, tiling and SNP microarrays (Affymetrix and Agilent). * Transcriptomics: diverse analysis options that include well established as well as novel algorithms for normalization, gene selection, class prediction, clustering and time-series analysis. * Genotyping: stratification analysis, association, TDT. * Functional profiling: functional enrichment and gene set enrichment analysis with functional terms (GO, KEGG, Biocarta, etc.), regulatory (Transfac, Jaspar, miRNAs, etc.), text-mining, derived bioentities, protein-protein interaction analysis. * Integrative analysis: Different variables can be related to each other (e.g. gene expression to gnomic copy number) and the results subjected to functional analysis. Platform: Online tool

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• SciCrunch
• 13 years ago - by Anonymous

BRAIN Initiative Cell Census Network data catalog. Provides access to all major data sets of the BICCN with descriptions.

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• RRID
• 4 years ago - submitted by Edyta Vieth

An ontology that models material entities, qualities, and processes related to collections of interacting organisms such as populations and communities. It is taxon neutral, and can be used for any species, including humans. The classes in the PCO are useful for describing evolutionary processes, organismal interactions, and ecological experiments. Practical applications of the PCO include community health care, plant pathology, behavioral studies, sociology, and ecology. The PCO is compliant with the Basic Formal Ontology (BFO) and is designed to be compatible with other OBO Foundry ontologies, such as the Gene Ontology (GO), which covers biological processes, and the Phenotypic Quality Ontology (PATO).

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• SciCrunch
• 13 years ago - by Anonymous

Facility, located at the University of Delaware Main campus (UD) in Newark, Delaware, provides flow cytometry and hematology services. Facility is equipped with 15-color FACSAria Fusion high-speed cell sorters,BD Rhapsody Express Cell Processing Unit,VetScan HM5c veterinary hematology analyzer, Nexcelom Cellometer Vision cell counter, Zeiss Axiovert 200 inverted fluorescent microscope,Thermo Shandon Cytospin 4 & a Beckman Spinchron DLX centrifuge,General Laboratory facilities for Mammalian Cell Culture and Sample preparation,Laminar flow BSL-2 biosafety cabinets, microscopes and centrifuges.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

A database for phenotyping human single nucleotide polymorphisms (SNPs)that primarily focuses on the molecular characterization and annotation of disease and polymorphism variants in the human proteome. They provide a detailed variant analysis using their tools such as: * TANGO to predict aggregation prone regions * WALTZ to predict amylogenic regions * LIMBO to predict hsp70 chaperone binding sites * FoldX to analyse the effect on structure stability Further, SNPeffect holds per-variant annotations on functional sites, structural features and post-translational modification. The meta-analysis tool enables scientists to carry out a large scale mining of SNPeffect data and visualize the results in a graph. It is now possible to submit custom single protein variants for a detailed phenotypic analysis., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 17 years ago - by Anonymous

Interdisciplinary NMR spectroscopy research facility for structural elucidation and study of conformation and dynamics of organic compounds, peptides, oligonucleotides and other small biopolymers.

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• SciCrunch
• 14 years ago - by Anonymous

Interactive Matlab toolbox for processing continuous and event-related EEG, MEG and other electrophysiological data incorporating independent component analysis (ICA), time/frequency analysis, artifact rejection, event-related statistics, and several useful modes of visualization of the averaged and single-trial data. First developed on Matlab 5.3 under Linux, EEGLAB runs on Matlab v5 and higher under Linux, Unix, Windows, and Mac OS X (Matlab 7+ recommended). EEGLAB provides an interactive graphic user interface (GUI) allowing users to flexibly and interactively process their high-density EEG and other dynamic brain data using independent component analysis (ICA) and/or time/frequency analysis (TFA), as well as standard averaging methods. EEGLAB also incorporates extensive tutorial and help windows, plus a command history function that eases users'' transition from GUI-based data exploration to building and running batch or custom data analysis scripts. EEGLAB offers a wealth of methods for visualizing and modeling event-related brain dynamics, both at the level of individual EEGLAB ''datasets'' and/or across a collection of datasets brought together in an EEGLAB ''studyset.'' For experienced Matlab users, EEGLAB offers a structured programming environment for storing, accessing, measuring, manipulating and visualizing event-related EEG data. For creative research programmers and methods developers, EEGLAB offers an extensible, open-source platform through which they can share new methods with the world research community by publishing EEGLAB ''plug-in'' functions that appear automatically in the EEGLAB menu of users who download them. For example, novel EEGLAB plug-ins might be built and released to ''pick peaks'' in ERP or time/frequency results, or to perform specialized import/export, data visualization, or inverse source modeling of EEG, MEG, and/or ECOG data. EEGLAB Features * Graphic user interface * Multiformat data importing * High-density data scrolling * Defined EEG data structure * Open source plug-in facility * Interactive plotting functions * Semi-automated artifact removal * ICA & time/frequency transforms * Many advanced plug-in toolboxes * Event & channel location handling * Forward/inverse head/source modeling

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• SciCrunch
• 17 years ago - by Anonymous

Provides resources and expertise in genomics and mass spectrometry at Wake Forest Center for Precision Medicine. Provides unique access to instrumentation and analytical expertise to NCDRC faculty in support of advancement of diabetes research.Overlooks the use of existing resources at NCDRC partner institutions (UNC, NC A&T, and Duke University) to coordinate work and data analysis with Metabolomics Core to provide omics analyses.Offers analytic services, expertise, and tools to integrate data to better understand interactive systems at play in disease processes.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Preclinical MRI Core at Beth Israel Deaconess Medical Center provides services including imaging of anatomy and function for small animals including mice, rats, and amphibians. Ex vivo samples from larger animals and patients can be imaged. Offers consultation on protocol design and pilot data for new projects. Analysis services are available as well.

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• SciCrunch
• 13 years ago - by Anonymous

Facility houses Bruker AVANCE IIIHD 600 and Bruker AVANCE III 500 NMR spectrometer. These are equipped with high sensitivity inverse and broadband probes, single axis gradients, pulse shaping capabilities, variable temperature control(-50C to 150C), and automatic tuning and matching.Bruker AVANCE IIIHD 600 is also equipped with robotic sample changer (Bruker SamplExpress) allowing automated acquisition of up to 60 samples. Sample preparation can also be automated with Gilson sample preparation robot.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core facility that provides the following services: Rapid golgi staining service, Luxol fast blue service, Electron microscopy service, Electron microscopy embedding service, Electron microscopy sectioning service, H&E and cresyl violet staining service, Golgi Cox service, Cryostat, vibratome, and microtome usage service, Ultramicrotome usage service. The core allows investigators to perform diverse types of histological studies at several levels, including light and electron microscopy. Furthermore, since mental retardation may not be associated with structural abnormalities visible at the light microscopic level, analysis of protein expression by immunohistochemistry and gene expression by in situ hybridization are also facilitated by this Core.

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• SciCrunch
• 13 years ago - by Anonymous

Offers services in fragment based screening and drug discovery, characterization and QC of biologics and biosimilar drugs, metabolomics, protein NMR, small molecule NMR, and NMR of natural products. Offers 400-700MHz systems, many with cryogenic probes.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core facility that provides the following services: Animal in vivo MRI and MRS Service.

The Biomedical NMR Research Center belongs to the Research Division of the Department of Diagnostic Radiology. Dr. Barjor Gimi is currently Director of the MR center. The Center houses a 7T horizontal bore Varian MR scanner in Vail and a 9.4T horizontal bore Varian MR scanner in Borwell. Research at the Biomedical NMR Research Center aims to advance applications of NMR techniques for tissue characterization in health and disease. We are developing non-invasive MR techniques to reveal unexplored details of anatomy, physiology and biochemistry in vivo. We use multinuclear MR technique both in imaging and spectroscopy modes and work with several animal models to achieve the goals above. Biomedical NMR Research Center provides a wide range of in vivo MR protocols for Dartmouth College and Dartmouth-Hitchcock Medical Center scientists. These include high resolution anatomical and functional MRI scanning procedures from rodents. Localized ��������H and ����������������P NMR spectroscopy can be acquired from several target organs to map, for instance metabolite concentrations, energy state, intracellular pH or tissue temperature.

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• SciCrunch
• 13 years ago - by Anonymous

Core is resource launched by NYU Langone, based in Information Technology department in close collaboration with NYU Grossman School of Medicine.Used to design, develop, optimize, and customize software to accelerate research. Requires iLab log in.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core facility that provides the following services: Access/training service.

Lab performs services related to paleontology, paleopathology, and paleohistology. This core houses significant expertise in processing and analysis of mineralized tissues.

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• SciCrunch
• 13 years ago - by Anonymous

This is the description of your tool/resource, which will be shown on the Tool/Resource Summary page, in search results, etc. It should not be as comprehensive and as formal as the Tool/Resource Purpose and Summary description (step 2), so please feel free to use concise and catchy wording. Maximum length is 1023 characters. This description may be changed once the tool/resource has been registered.

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• NIF
• 4 years ago - by Anonymous