Curator Dashboard

Publicly available database of summary level findings from genetic association studies in humans, including genome wide association studies (GWAS). Previously named HGBASE, HGVbase and HGVbaseG2P.

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• SciCrunch
• 17 years ago - by Anonymous

Collection of pre-calculated evolutionary conservation profiles for proteins of known structure in the Protein DataBase (PDB).Enables flexibility in setting the parameters of the calculation, and accepts optional uploads of atomic coordinates, multiple sequence alignments, and phylogenetic trees for use in the calculation of conservation profiles

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• SciCrunch
• 17 years ago - by Anonymous

A web portal devoted to genomic information and tools. It includes lists of techniques, databases of genes and microarrays, annotation tools and resources, functional information, bibliographic information, and supporting resources.

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• SciCrunch
• 17 years ago - by Anonymous

Software tool collection for analysis of FMRI, MRI and DTI brain imaging data. It runs on Apple and PCs (both Linux, and Windows via a Virtual Machine). FSL is completely self-contained. Most of the tools can be run both from the command line and through graphical interfaces. Tools include: STRUCTURAL TOOLS BET - Brain Extraction Tool - segments brain from non-brain in structural and functional data. SUSAN - Nonlinear noise reduction. FAST - FMRIB''s Automated Segmentation Tool - brain segmentation (into different tissue types) and bias field correction. FLIRT - FMRIB''s Linear Image Registration Tool - linear inter- and intra-modal registration. FUGUE - Unwarps distortion in EPI images using B0 field maps. SIENA - Structural brain change analysis, for estimating brain atrophy. (BET, FLIRT and FUGUE are also used in FMRI analysis) FUNCTIONAL TOOLS FEAT - Advanced FMRI analysis with easy-to-use yet powerful GUI. Includes all necessary preprocesing, model-based and semi-model-free statistical analysis, automatic registration to structural and/or standard space, and fixed- and random-effects group statistics. MCFLIRT - FMRI motion correction. MELODIC - ICA-based model-free analysis of FMRI (and other 4D) data. :An excellent set of tools for many types of analysis of neuroimaging structural and functional data

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on September 09, 2013. DCViewer opens img/hdr file pairs, allows browsing along X,Y Z and Time dimensions (if present) with configurable color and intensity settings. The files can be opened remotely from URLs if desired. Entire directories of files can be automatically combined into a single image. Multiple images can be layered for comparison.

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• SciCrunch
• 17 years ago - by Anonymous

Organization portal for neuromuscular disease community and contains comprehensive listing of biological and clinical aspects of neuromuscular disorders.This knowledge base contains information on the physiology, structure of ion channels, neurotransmitters, neuroreceptors, and associated diseases. Major categories include DISORDERS & SYNDROMES, INDEXES, NEUROMUSCULAR EVALUATION, ANTIBODY TESTING and NEUROMUSCULAR DIVISION.

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• SciCrunch
• 17 years ago - by Anonymous

Functional genomics data repository supporting MIAME-compliant data submissions. Tools are provided to help users query and download experiments and curated gene expression profiles. These data include microarray-based experiments measuring the abundance of mRNA, genomic DNA, and protein molecules, as well as non-array-based technologies such as serial analysis of gene expression (SAGE) and mass spectrometry proteomic technology. Array- and sequence-based data are accepted.

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• SciCrunch
• 17 years ago - by Anonymous

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
• 17 years ago - by Anonymous

Detailed multidimensional digital multimodal atlas of C57BL/6J mouse nervous system with data and informatics pipeline that can automatically register, annotate, and visualize large scale neuroanatomical and connectivity data produced in histology, neuronal tract tracing, MR imaging, and genetic labeling. MAP2.0 interoperates with commonly used publicly available databases to bring together brain architecture, gene expression, and imaging information into single, simple interface.Resource to visualise mouse development, identify anatomical structures, determine developmental stage, and investigate gene expression in mouse embryo. eMouseAtlas portal page allows access to EMA Anatomy Atlas of Mouse Development and EMAGE database of gene expression.EMAGE is freely available, curated database of gene expression patterns generated by in situ techniques in developing mouse embryo. EMA, e-Mouse Atlas, is 3-D anatomical atlas of mouse embryo development including histology and includes EMAP ontology of anatomical structure, provides information about shape, gross anatomy and detailed histological structure of mouse, and framework into which information about gene function can be mapped.

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• SciCrunch
• 17 years ago - by Anonymous

Software application (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

Software package dedicated to the handling of molecular marker data for multivariate analysis. This package is related to ADE4, a R package for multivariate analysis, graphics, phylogeny and spatial analysis. (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

BACPAC Resources (a BAC Clones Distribution Center) is the distribution arm of their academic laboratory. They operate on a cost-recovery mechanism in order to make the resources generated in their laboratory available to the academic scientific community. While clones and screening services are widely available, library arrays are primarily available to researchers with a scientific need to analyze most clones in the library. This site contains information on currently available BAC and PAC genomic DNA libraries, BAC Clones, PAC Clones, Fosmid Clones, cDNA collections, high-density colony hybridization filters, and BAC and PAC cloning vectors. Protocols used in our laboratory for the hybridization-based screening of colony filters, purification of BAC and PAC DNA, and end-sequencing methodologies, are also provided. BPRC does not list clones, for two reasons: 1)most clones have not been characterized and lack specific data. 2)all clones are part of libraries and all clones from a particular library share common characteristics. Hence, to find out if BPRC has a particular clone, one needs either use Automatic Clone Validation or else find out if the clone is compatible with the range of clone names for a corresponding clone library. Typically (although not always), clone names are derived from the library name. BPRC uses the NCBI-recommended clone nomenclature & library nomenclature. Most arrayed libraries are available in frozen microtiter dish format to academic and non-academic users provided that there is a scientific need for complete-library access. (for instance to annotate, modify or analyze all BAC clones as part of a genome project). Keywords: BAC, Distribution, SUplier, Laboratory, Scientifc, Clone, Screen, Library, Array, Researcher, Research, PAC, Genomic, DNA, Fosmid, cDNA, Hybridization, Filter, Vector, Cloning, Purification, Microtiter,

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 29,2025. Database of functional residues in alpha-helical and beta-barrel membrane proteins. Each protein is identified with its name and source alongwith the Uniprot code. The protein data bank (PDB) codes are also given for available proteins. Different methods and experimental parameters, for example, affinity, dissociation constant, IC50, activity etc. (Details are available at the "Help" page) are given in the database. Further, we have provided the numerical experimental value for each residue (or mutant) in a protein. The experimental data are collected from the literature both by searching the journals as well as with the keyword search at PUBMED. In addition, complete reference is given with journal citation and PMID number. TNFunction is cross-linked with the sequence database, Uniprot, structural database, PDB, and literature database, PubMed. The WWW interface enables users to search data based on various terms with different display options for outputs.

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• SciCrunch
• 17 years ago - by Anonymous

Ontology and database that links plant anatomy, morphology and growth and development to plant genomics data.Plant Ontology Consortium develops, curates and shares controlled vocabularies (ontologies) that describe plant structures and growth and developmental stages, providing semantic framework for meaningful cross species queries across databases. PO is under active development to expand to encompass terms and annotations from all plants.

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• SciCrunch
• 16 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 4th,2023. The Tissue Bank began collecting tissue from neurosurgical operations in 1978 and has established an organized repository of characterized tissues that have been collected and maintained in a manner useful for a wide range of studies. Copies of each patient''s consent to donate their tissue for research are maintained in a secure area of the Tissue Bank. Clinical data from each case are logged into a secured computer data base. Tissue received into the Tissue Bank is catalogued and referenced by a consecutive numbering system in order to maintain patients'' confidentiality. We have established a complete histology service including tissue processing, embedding, sectioning and H&E staining for fixed tissues, in addition to creating and staining frozen sections. This facility enables the Tissue Bank to support research needs for fixed samples from animal model experiments, to fulfill requests for paraffin sections from diagnostic samples and to provide frozen sections for histologic review.

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• SciCrunch
• 16 years ago - by Anonymous

Web service with well defined methods to enable programmatic access to molecular interactions. Standard for computational access to molecular interaction data resources.

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• SciCrunch
• 14 years ago - by Anonymous

Provides standardized vocabulary of phenotypic abnormalities encountered in human disease. Structured and controlled vocabulary for phenotypic features encountered in human hereditary and other disease. HPO is being developed in collaboration with members of OBO Foundry (Open Biological and Biomedical Ontologies), and logical definitions for HPO terms are being developed using PATO and a number of other ontologies including FMA, GO, ChEBI, and MPATH.

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• SciCrunch
• 14 years ago - by Anonymous

A tool for automatically scheduling events for rapid-presentation event-related (RPER) fMRI experiments (the schedule is the order and timing of events). Events in RPER are presented closely enough in time that their hemodynamic responses will overlap. This requires that the onset times of the events be jittered in order to remove the overlap from the estimate of the hemodynamic response. RPER is highly resistant to habituation, expectation, and set because the subject does not know when the next stimulus will appear or which stimulus type it will be. RPER is also more efficient than fixed-interval event related (FIER) because more stimuli can be presented within a given scanning interval at the cost of assuming that the overlap in the hemodynamic responses will be linear. In SPM parlance, RPER is referred to as ''stochastic design''. This is a subproject of the Center for Functional Neuroimaging Techniques (http://www.nitrc.org/projects/cfnt/)

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• SciCrunch
• 15 years ago - by Anonymous

Commercial marketer, distributor and importer of industrial, medical, pharmaceutical and biological research and health innovation products.

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• SciCrunch
• 14 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. Despite considerable research, fundamental questions about chronic fatigue syndrome (CFS) remain at best partially answered. These questions include its definition, validity, the degree to which it results from genetic versus environmental factors, the nature of the substantial comorbidity observed with other conditions, and the basis of the female preponderance. The overarching aim of this project is to shed light on a number of basic questions about CFS via a large, population-based classical twin study. First, we collected data on ~32,000 adults aged 42-65 years (13,000 complete twin pairs) who are members of the Swedish Twin Registry for persistent fatigue, several overlapping conditions (fibromyalgia, irritable bowel syndrome, tension headache, allergy/eczema, generalized anxiety disorder, and major depression), and a detailed medical history. Second, the medical records of all twins who appeared to have CFS-like illness and a subset of those with CFS-explained were requested reviewed by experts. We have addressed a set of critical questions regarding CFS. First, we estimated the prevalence of CFS and its common comorbidities (fibromyalgia, irritable bowel syndrome, tension headache, allergy/eczema, generalized anxiety disorder, and major depression) in one of the largest samples yet studied. Second, we used a variety of multivariate techniques to derive an empirical typology of prolonged fatigue and to assess how this typology compares to the CFS definition. Third, we quantified the genetic and environmental sources of variation for CFS and its comorbid conditions. Fourth, we examined the influence of gender on these sources of variation. Finally, we analyzed the patterns of comorbidity between CFS and fibromyalgia, irritable bowel syndrome, tension headache, allergy/eczema, generalized anxiety disorder, and major depression using multivariate twin analyses and thereby estimated the extent of overlap between the shared and unique genetic and environmental sources of variation. In a follow-up study of 50 MZ twin pairs stringently discordant for CFS, we are now looking at intrapair differences in gene expression.

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• SciCrunch
• 15 years ago - by Anonymous