Curator Dashboard

A standalone Java application with a GUI (graphical user interface) for editing genome annotations. Like GBrowse, it allows users to scroll and zoom in on areas of interest in a sequence; authorized users can edit annotations and write the changes back to the underlying database. Apollo can run off GFF3 or a Chado database, and it can also integrate with remote services, such as BLAST and Primer BLAST analyses.

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. 02111-1307, USA. Sponsors: ImageJ Mosaic Plug-Ins software presented here was produced at the National Center for Microscopy and Imaging Research at San Diego, which is supported by the National Institutes of Health (NIH) through a National Center for Research Resources program grant P41 RR04050.

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• SciCrunch
• 17 years ago - by Anonymous

Database integrating physical (protein-protein) and functional interactions within the context of an E. coli knowledgebase. Presently the resource offers access to two types of network: * A network of functional interactions derived through exploiting available functional genomic datasets within a Bayesian framework * Two networks of experimentally derived protein-protein interactions - a "core" network consisting of interactions deemed to be of "high quality"; and an "extended" network which extends the "core" network by including interactions for which experimental evidence is less strong.

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• SciCrunch
• 17 years ago - by Anonymous

Computational neuroscience center that observes and models how functional activities in multiple brain areas interact dynamically to support human cognition, creativity and social interaction. Center research involves development computational methods and software, experimental methods and equipment, collection and analysis of human cognitive experiments, and collaborations to analyze data collected by other groups in such experiments. The Center has a 72-channel EEG recording system customized for use in the fMRI environment, and a very-high density Biosemi Active Two active-electrode EEG system, rapidly configurable either as a 256-channel system for a single subject or as two 136-channel systems for recording from two subjects simultaneously. In addition, UCSD now has a 306-channel MEG plus 128-channel EEG system (Neuromag/Elektra). Projects in the Center include studies of human cognitive processes including attention and memory, role of the anterior/posterior cingulate, time perception and emotional expression. Data acquisition includes high-density EEG, concurrent EEG and fMRI recording and analysis, and face video processing. Current analysis approaches include independent component and time-frequency analysis.

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• SciCrunch
• 14 years ago - by Anonymous

Commercial antibody supplier that specializes in the development and manufacture of viral antigens and anti-viral antibodies for diagnosis, monitoring, and treatment of significant viral infectious diseases.

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• SciCrunch
• 14 years ago - by Anonymous

The Department of Psychiatry at the University of California, San Diego is one of the most innovative and productive academic departments of psychiatry in the country. The guiding principle in this development has been that the educational and research programs of a psychiatry department must be at the cutting edge and encompass and integrate the most current innovations in the field with those approaches from the past which have proven to be valid and effective. The department has a strong commitment to the dynamic understanding of an individual's current social context and feelings, and past behaviors and experiences. We believe we have created one of the best available integrations of the biopsychosocial approaches to understanding normal and abnormal human behavior. By design, a rich diversity of scientific and clinical strategies are represented within the department, but the core organizing ethic of our educational and training programs is a profound commitment to our patients well being. It is the department's conviction that clinical psychiatry can only be learned in the context of meaningful interaction and contact with patients. The Residency Training Program is developmental in nature, appropriately challenging the residents at each level as they move from intensively supervised beginners to autonomous, confident, skilled clinicians and colleagues at graduation. The training occurs within the department's ambiance of collegiality, enthusiasm, openness of communication, intellectual and scientific rigor, and spirit of inquiry, which characterize our highly productive and energetic faculty. The UCSD faculty represent a virtual who's who of world-class basic and clinical scientists and clinicians, all of whom are available and participate in our residents training and experiences. The tradition at UCSD, both on the general campus and within the School of Medicine, is that of academic excellence. The department shares in this tradition and expects it from its faculty, trainees, and students. The goal of the residency program is to develop highly competent psychiatric physicians and leaders who are comprehensively trained in the most up-to-date diagnostic and treatment techniques which have proven effective for the full spectrum of mental disorders.

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• SciCrunch
• 15 years ago - by Anonymous

The Computational Neuroscience specialization is a new facet of the broader Neuroscience graduate program at UCSD. The goal of the specialization is to train the next generation of neuroscientists with the broad range of computational and analytical skills that are essential to understand the organization and function of complex neural systems. The specialization is intended for students with backgrounds in neuroscience, physics, chemistry, biology, psychology, computer science, engineering, and mathematics. This specialization allows Neuroscience students to concentrate on a focused program of rigorous course work in both the theoretical and experimental aspects of computational neuroscience. Students are encouraged to pursue thesis research that includes both an experimental and a computational component, often arranged by the student as a collaboration between two research groups. The program is focused on these major themes relevant for computational neuroscience research: - Neurobiology of Neural Systems - the anatomy, physiology, and behavior of systems of neurons, with emphasis on basic phenomenology. - Advanced Measurement Tools in Neuroscience - Advanced imaging and recording techniques reflecting the impact of experimental physics on neuroscience. - Algorithms for the Analysis of Neural Data - New algorithms and techniques for analyzing data obtained from physiological recording - Theoretical Basis for Collective Neural Dynamics - A synthesis of approaches from mathematics and physical sciences as well as biology will be used to explore the collective properties and nonlinear dynamics of neuronal systems. Sponsors: This program is supported by the University of California at San Diego.

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• SciCrunch
• 17 years ago - by Anonymous

The Center for Medicinal Cannabis Research (CMCR) will conduct high quality scientific studies intended to ascertain the general medical safety and efficacy of cannabis products and examine alternative forms of cannabis administration. The Center will be seen as a model resource for health policy planning by virtue of its close collaboration with federal, state, and academic entities. The objectives of this center are: 1. To conduct and support focused controlled clinical trials on the efficacy of cannabis in patients diagnosed with HIV/AIDS, cancer, seizures or muscle spasms associated with a chronic debilitating condition, or any other serious condition providing sufficient theoretical justification. 2. To use prospective clinical trials to determine optimal dosage, timing, and modes of administration for cannabis in various medical disorders. 3. To conduct randomized trials to compare the efficacy and safety of various methods of cannabis administration. 4. To conduct observational studies and randomized trials to assess the safety and toxicity of cannabis in the medically ill. Such studies will evaluate the impact of treatment on daily functioning and on life quality. 5. To conduct limited pre-clinical studies with direct relevance to understanding cannabis as a therapeutic agent. 6. To facilitate the implementation of research by assisting investigators in securing relevant regulatory review and approval by state and federal agencies. 7. To establish a process of rigorous peer review of scientific proposals. 8. To secure external sources of funding to maximize the scope and size of cannabis studies. Sponsors: This resource is supported by the University of California at San Diego.

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• SciCrunch
• 17 years ago - by Anonymous

The UCSD ADRC conducts a wide variety of research studies dedicated to understanding the causes, clinical features, and treatments for Alzheimer's disease and related memory disorders. The goal of the center is to discover ways to prevent and eradicate the disease. The Center aims to maintain research subjects, clinical resources, and clinical data to support ongoing and proposed research and to assist in the development of new clinical and interdisciplinary research. An Alzheimer's brain bank with well characterized cases, including Mild Cognitive Impairment and Lewy Body disease, is maintained at the Center.

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• SciCrunch
• 16 years ago - by Anonymous

We have developed an integrated SNP discovery pipeline, which identifies SNPs from assembled EST sequences. The results are maintained in a custom relational database along with EST source and annotation information. The current database hosts data for the important crops rice, barley and Brassica. Users may rapidly identify polymorphic sequences of interest through BLAST sequence comparison, keyword searches of annotations derived from UniRef90 and GenBank comparisons, GO annotations or in genes corresponding to syntenic regions of reference genomes. In addition, SNPs between specific varieties may be identified for targeted mapping and association studies. SNPs are viewed using a user-friendly graphical interface. The implementation of autoSNPdb allows researchers to query the results of SNP analysis to characterize SNPs between specific groups of individuals or within genes with predicted function. The system is flexible and researchers may add additional levels of annotation, and perform novel queries specific to their area of interest. If you have sequence data you'd like to include please contact Dave Edwards.

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• SciCrunch
• 17 years ago - by Anonymous

This UCSD department, the first Cognitive Science Department in the world, provides a focus for the continued evolution of the discipline of cognitive science. Cognitive science is a diverse field unifying three broad categories: the brain, behavior and computation. It's the study of how people, animals and computers think, act and learn. In order to understand the mind/brain, cognitive science brings together the methods and discoveries from neuroscience, psychology, linguistics, anthropology, philosophy and computer science. The interdisciplinary aspects of cognitive science continue to flourish, and the participation of the broader cognitive science community on campus continues to be fundamental to cognitive science as practiced at UCSD. The interdisciplinary Ph.D. program continues to be offered as a degree option (in addition to the departmental Ph.D.), with participation by members of the Departments of Anthropology, Biology, Cognitive Science, Communication, Computer Science and Engineering, Linguistics, Music, Neuroscience, Philosophy, Psychiatry, Psychology, and Sociology. Cognitive Science is a relatively young field that focuses on conducting new research into the field or applying existing knowledge into new applications. This Department contains several research labs each specializing in different areas and the Department's faculty has also been published many times in various publications. Sponsors: This department is supported by the University of California at San Diego.

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• SciCrunch
• 17 years ago - by Anonymous

Neuroscience is a multidisciplinary approach to understanding nervous systems at levels ranging from the molecular and cellular to the whole organism. The goal of this Program is to prepare students for careers in research, teaching and/or scientific administration. Students are expected to learn the fundamentals of neuroscience, starting with a required core sequence, become knowledgeable concerning a range of research methods as taught in a required neuroscience laboratory course, and demonstrate capability in original research. Graduate student training ultimately reflects the research competence and specialties of the faculty, that is, the specific research training received by a graduate student is the responsibility of the major professor/mentor under whose guidance and in whose laboratory the student carries out the research projects leading to the degree. Students will benefit from an interdisciplinary training approach, tailored by the major advisor but enriched by the readily available expertise and laboratory facilities of program faculty with backgrounds ranging from chemistry to psychology. In addition to this training, it is our intention, through outside speakers and planned forums, to make students aware of alternate careers open to neuroscientists whose interests and talents might lead to areas such as biotechnology, science administration and the like. The Interdepartmental Ph.D Program in Neuroscience at UC Riverside is aimed at providing high quality graduate training for students who come from a variety of undergraduate backgrounds but share a commitment and an intense interest in nervous system research. We currently have nineteen faculty with expertise in various aspects of neuroscience and whose principal appointments are in the Departments of Biology, Cell Biology & Neuroscience, Chemistry, Entomology, and Psychology, and the Division of Biomedical Sciences. A major part of training in neuroscience is in supervised laboratory research, the student working with one or more of the neuroscience faculty.

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• SciCrunch
• 14 years ago - by Anonymous

The UCLA laboratory of neuroimaging is working in several areas to enhance knowledge of anatomy, including brain mapping in large human populations, HIV, Schizophrenia, methamphetamine, tumor growth and 4d brain mapping, genetics and detection of abnormalities.

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• SciCrunch
• 17 years ago - by Anonymous

Searchable database for predicted protein sequences and structures. It has the ability to search through PDB ID, UniProt ID, and descriptive classifiers.

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• SciCrunch
• 16 years ago - by Anonymous

Biomedical technology resource center specializing in novel approaches and tools for neuroimaging. It develops novel strategies to investigate brain structure and function in their full multidimensional complexity. There is a rapidly growing need for brain models comprehensive enough to represent brain structure and function as they change across time in large populations, in different disease states, across imaging modalities, across age and sex, and even across species. International networks of collaborators are provided with a diverse array of tools to create, analyze, visualize, and interact with models of the brain. A major focus of these collaborations is to develop four-dimensional brain models that track and analyze complex patterns of dynamically changing brain structure in development and disease, expanding investigations of brain structure-function relations to four dimensions.

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• SciCrunch
• 14 years ago - by Anonymous

The UCLA-DOE Institute for Genomics and Proteomics carries out research in bioenergy, structural biology, genomics and proteomics, consistent with the research mission of the United States Department of Energy. Major interests of the 12 Principal Investigators and 9 Associate Members include systems approaches to organisms, structural biology, bioinformatics, and bioenergetic systems. The Institute sponsors 5 Core Technology Centers, for X-ray and NMR structural determination, bioinformatics and computation, protein expression and purification, and biochemical instrumentation. Services offered by this Institute: - Databases: * DIP (The Database of Interacting Proteins): The DIPTM database catalogs experimentally determined interactions between proteins. It combines information from a variety of sources to create a single, consistent set of protein-protein interactions. * ProLinks Database of Functional Linkages: The Prolinks database is a collection of inference methods used to predict functional linkages between proteins. These methods include the Phylogenetic Profile method which uses the presence and absence of proteins across multiple genomes to detect functional linkages; the Gene Cluster method, which uses genome proximity to predict functional linkage; Rosetta Stone, which uses a gene fusion event in a second organism to infer functional relatedness; and the Gene Neighbor method, which uses both gene proximity and phylogenetic distribution to infer linkage. - Data-to-Structure Servers: * SAVEs Structure Verification Server * Merohedral Twinning Test Server * SER Surface Entropy Reduction Server * VERIFY3D Structure Verification Server * ERRAT Structure Verification Server - Structure-to-Function Servers: * ProKnow Protein Functionator * Hot Patch Functional Site Locator

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• SciCrunch
• 17 years ago - by Anonymous

The aim of the Neural Prediction Challenge is to accelerate the development of predictive models and to provide computational neuroscientists an opportunity to test their models objectively. The challenge is really quite simple: you will be given some (visual and/or auditory) stimuli and corresponding neural responses, and you must try to predict responses to other stimuli. Each data set will be divided in to two subsets: a fit set (90% of the data) that includes both the stimuli and the corresponding neuronal responses; and a validation set (10% of the data) that includes only stimuli (no responses). Your job is to use the fit set to fit your model and then to generate predicted responses based on the stimuli provided in the validation set. Once you have the predictions you should return them to us. We will compare your predicted responses to the responses actually observed in the validation set. Current data consist of recordings from visual and auditory neurons during naturalistic stimulation. Data are provided in simple ascii files that are easily readable in Matlab (or by any other modern programming language). Details on data formatting are provided with each data set. Predictions will be evaluated continuously as they are received and results will be posted in aggregate form. Individuals' names, prediction scores and models will not be posted without prior permission (though we may contact participants directly, see official rules). Please note that this is an academic research project, it is not a traditional contest. There is no real ending date, and there is nothing to win. Sponsors: This project is supported by the NIH Human Brain Project.

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• SciCrunch
• 17 years ago - by Anonymous

The NHS National Genetics Education and Development Centre is working with a range of groups throughout the UK to facilitate the integration of genetics education into all levels of education and training for all NHS health professionals. The key aims of this center: 1. Providing leadership in genetics education 2. Helping to raise awareness 3. Involving patients and their families in informing all aspects of our work 4. Identifying the genetics knowledge, skills and attitudes which are useful for clinical role 5. Developing a framework for competences in genetics 6. Facilitating the integration of genetics into curricula and courses 7. Identifying and developing resources appropriate to the needs of health professionals (and their trainers) 8. Supporting and disseminating learning from service development initiatives in genetics Sponsors: The Centre is funded by the Department of Health as one of the major initiatives of the 2003 Genetics White Paper, Our Inheritance, Our Future - Realising the potential of genetics in the NHS which set out the Governments strategy for ensuring that the potential benefits of genetics are realised by the NHS.

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• SciCrunch
• 17 years ago - by Anonymous

Software providing a HTML5/javascript based browser for visualizing RNA-seq results in the familiar track layout of common genome browser. But given the quantitative nature of RNA-seq data, in addition to visualizing sequence coverage, the browser quantitates transcript abundance across regions of interest. The HTML5 functionality is made of use to render all the tracks using the canvas drawing element. This greatly reduces the load on servers and allows for rich interactive graphics without the need for third-party plugins. Furthermore, this framework completely segregates data from visualization, making development much easier. The browser is designed to run on all modern browsers: Firefox, Safari, Chrome, Opera and Internet Explorer (though not recommended).

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• SciCrunch
• 13 years ago - by Anonymous

TropIKA.net (Tropical Disease Research to foster Innovation and Knowledge Application) was created as a global knowledge management electronic portal to share essential information and to facilitate identification of priority needs and major research gaps in the field of infectious diseases of poverty. This website also provides funding opportunities for researchers of tropical diseases. TropIKA.net is a web-based platform for the acquisition, review and sharing of current information and knowledge on: - Public health research needs and scientific opportunities - Research-based evidence in support of control and policy - High profile research activities and control projects - International research funding and support opportunities - Potential innovations for interventions and control of infectious diseases of poverty. The Primary goals of TropIKA.net are to - Present up-to-date content in a context that makes sense for health researchers and policy makers - Improve access to scientific information on infectious diseases of poverty - Facilitate broad-based participation of disease-endemic countries in discussions and the formulation of current and emerging research priorities and agenda setting - Provide health researchers and decision makers with a comprehensive resource about best practices and authoritative summaries of research findings that have implications for their efforts to meet the challenges of infectious disease control. - Be used as an interactive knowledge platform for infectious diseases of poverty at health forums Sponsors: This website is supported by The Special Programme for Research and Training in Tropical Diseases (TDR).

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• SciCrunch
• 17 years ago - by Anonymous