Curator Dashboard

Software package that provides functions for solving a family of sparse learning algorithms. The functions implemented enjoy the convergence rate of O(1/k^2), although the objective function is non-smooth. Main features: * First-Order Method. At each iteration, they only need to evaluate the function value and the gradient; and thus the algorithms can handle large-scale sparse data. * Optimal Convergence Rate. The convergence rate O(1/k^2) is optimal for smooth convex optimization via the first-order black-box methods. * Efficient Projection. The projection problem (proximal operator) can be solved efficiently. * Pathwise Solutions. The SLEP package provides functions that efficiently compute the pathwise solutions corresponding to a series of regularization parameters by the warm-start technique.

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• SciCrunch
• 12 years ago - by Anonymous

This database contains morphologies of hippocampal pyramidal cells and interneurons (in Neurolucida, NEURON, and pdf formats) as well as data recorded from those cells. Sponsors:This work was supported by grants from the NIH (T32-GM-08061 to T.J.M., F32-NS-10532 to N.L.G., and R01-NS35180 and R01-NS 46064 to N.S. and W.L.K.) and NSF (IGERT fellowship to Y.K.). NS46064 is part of the NSF/NIH Collaborative Research in Computational Neuroscience Program

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• SciCrunch
• 17 years ago - by Anonymous

Orbital Spike is a tool for time series analysis. It contains a wide range of methods to analyze data from point processes such as spike arrival times, heart beats or other behavioral episodes. It is optimized this program for spike trains but it works with other types of data, too. The program can analyze up to 8 channels recorded simultaneously each containing a maximum of 132,000 events (spikes). Assuming an average firing rate of 10 Hz for a neuron, you can then analyze a time series of approximately 3 and half hours long. There are up to 8 panels shown in the Orbital Spike desktop. The panels will contain the kind of data of interest. The graphs are associated with a bunch of parameters like window width, bin size, resolution, delay etc. All these parameters are listed in the parameter box, which appears on the right side of the desktop. It is pretty easy to change the parameters and what is nice, the corresponding graph(s) will be recalculated immediately. You can also use a dialog box to change parameters. There are a lot of functions, statistics, graphs and diagrams available. A few of them are: * Interspike interval sequences * ISI Poincar * maps or return maps Instantaneous firing rate * ISI histograms and probability densities * Joint ISI and MSI probability densitograms * Autocorrelation, crosscorrelation * Spike density functions using kernel estimators * Fourier-amplitude spectrum and spectogram * Symbolic maps, recurrence plots * Phase plots of spike density functions Sponsors: Support for this work came from the U.S. Department of Energy, Office of Basic Energy Sciences, Division of Engineering and Geosciences, under Grants DE-FG03-90ER14138 and DE-FG03-96ER14592; from the Office of Naval Research under Grant N00014-00-1-0181; from the National Science Foundation under Grant PHY0097134; from the National Institutes of Health under Grants R01 NS-40110-01A2 and 1RO1 NS-40110; and from the Army Research Office under Contract DAAD19-01-1-0026. R. D. Pinto was supported by the State of Sao Paulo Research Foundation (FAPESP).

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23, 2022. The South African National Bioinformatics Institute delivers biomedical discovery appropriate to both international and African context. Researchers at SANBI perform the highest level of research and provide excellence in education. Research at SANBI has set well recognized milestones in the field of computational biology. The tools and techniques used have not only been developed but also implemented across heterogeneous domains of advanced research. Local and international efforts have driven our discoveries. Until recently, the core of SANBIs research has focused upon gene expression biology. Methods developed and applied at SANBI revolve around a greater understanding of the underlying causes of diseases. SANBI approaches the problem by comparison of genes, genomes and transcriptomes. It uses computational gene expression biology to create novel biological insights and to provide biomarkers for experimental validation. It also performs analysis of human genome variation, transcriptional diversity on both the expression and splicing level and the unravelling of transcriptional regulatory networks. Resources - Hinv, STACKdb, Malaria resources and Trypanosome databases are available for on-line seaching. - SANBI offers WCD, STACKdb, stackPACK and eVOC and the eVOKE viewer as tools that can be downloaded. Sponsors: SANBI receives funding and support from a range of organisations in South Africa and Internationally. Organisations currently supporting SANBI include: South Africa * South African Medical Research Council * South African AIDS Vaccine Initiative * National Bioinformatics Network * National Research Foundation * Claude Leon Foundation * International Business Machines Inc. Europe * European Unions 6th Framework Programme * World Health Organization USA * US National Institutes of Health * Fogarty International Centre * Ludwig Institute for Cancer Research

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• SciCrunch
• 17 years ago - by Anonymous

This is a primer of basic neuropathology- The Central Nervous System and Skeletal Muscle. It is organized in chapters by category of disease with a separate chapter for skeletal muscle. Many of the diseases could be included in more than one chapter because of overlapping pathophysiology; in each case the disorder is included in a single section in the interest of convenience. In order to recognize pathology one must have a basic foundation in normal structure, so the first chapter is an overview of basic regional central nervous system structure and anatomy. It includes an introduction to neurohistology. Other chapters address the pathophysiology of different categories of disease and provide examples of gross and microscopic pathology when they are available.

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• SciCrunch
• 17 years ago - by Anonymous

Dendritica is a program package for relating dendritic geometry and signal propagation. The programs are based on those used for the simulations described in the following paper: Vetter, P., Roth, A. & Husser, M. (2001). Action potential propagation in dendrites depends on dendritic morphology. Journal of Neurophysiology, 85: 926-937. Dendritica can functionally be divided into three main parts: - Interactive morphological analysis and electrophysiological simulation of single cells - Automated batch simulations across a set of morphologies using the same simulation parameters - Automated analysis of batch simulation runs Dendritica requires NEURON 4.1.1 with some modifications described in Appendix 1. It was tested for NEURON 4.1.1 on Linux and SGI IRIX. Some modifications to the Dendritica code may be necessary in order to run it on older or newer versions of NEURON. Sponsors: This work was supported by the Wellcome Trust, the European Community, the Max-Planck-Gesellschaft, the Wellcome Trust 4-year PhD Programme in Neuroscience.

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• SciCrunch
• 17 years ago - by Anonymous

Institute for the study of theoretical biology with a focus on evolutionary developmental biology and cultural complexity.

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• SciCrunch
• 15 years ago - submitted by Andrea Stagg

This site is about Social Anxiety Disorder, how to diagnose social anxiety, how to live and cope with social anxiety, and how to treat social anxiety. Additionally, this website also intends to educate, inform, promote self-help, and provide a way to facilitate dialog between those who suffer from social phobia.

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• SciCrunch
• 17 years ago - by Anonymous

The mission of SFARI is to improve the diagnosis, treatment, and prevention of autism and related developmental disorders. SFARI explores neuroscience from multiple directions, including molecular, cellular, systems, immunological, cognitive, behavioral, genetic, theoretical and computational perspectives. Funding for innovative scientific research is available through a peer-reviewed proposal process at regular intervals. Research projects are reviewed by a scientific advisory board and managed by the scientific director and a highly qualified staff. Proposals in multiple research areas are sought, to reflect the complex nature of autism. The Foundation supports innovative scientific projects where our involvement will play an essential role. In the course of this support, The Foundation is interested in partnering with other entities, or providing matching support where appropriate. The Simons Foundation has historically accepted only solicited grant proposals. These grant decisions are made by the Trustees of The Simons Foundation, who review applications on an ongoing basis. In the area of autism research, requests for proposals are issued on an annual basis. The Simons Foundation does not give grants to individuals, except through their institutions.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. This database provides information on the components of cellular signaling pathways and their relations to one another, which are organized into pathways called Connections Maps, which serve as the graphical interface into the database. Access to the database is free. Scientists with expertise in a given field, designated as Pathway Authorities, provide the information. With canonical or general data about cell signaling, as well as specific data about particular signaling processes in specific organisms and cells, there is information for both novices to cell signaling and experts. The Connections Maps are dynamically generated graphical interface to a database of information on the components of cellular signaling pathways and their relations to one another. Information is provided by pathway authorities with expertise in a given field. These Maps provide information on Canonical Pathways -- idealized or generalized pathways that represent common properties of a particular signaling module or pathway. Sponsors: This database is supported by AAAS.

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• SciCrunch
• 17 years ago - by Anonymous

An algorithm that estimates the tumor purity and clonal / subclonal copy number aberrations directly from high-throughput DNA sequencing data.

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• SciCrunch
• 12 years ago - by Anonymous

The SeattleSNPs PGA is focused on identifying, genotyping, and modeling the associations between single nucleotide polymorphisms (SNPs) in candidate genes and pathways that underlie inflammatory responses in humans. SeattleSNPs is focused on variation analysis in genes related to the inflammatory response. These gene targets are found in specific pathways and from interacting molecules contributing to this response. Available Resources: - Baseline assembled and complete genomic sequence and chromosomal location for candidate gene targets - Mapping of exon and repeat structure for candidate genes - Amplification primers and conditions - SNPs mapped by location in gene structure - SNPs with immediate surrounding sequence for genotype assay design - Genotypes and relative allele frequencies of the SNPs - Special features of SNPs - location (5', coding, etc.), amino acid substitutions, recurrent variation - Manuals on all protocols, data analysis procedures, and use of software tools - Workshop on genetic variation analysis and a gene submission program for variation analysis Sponsors: SeattleSNPs is funded as part of the National Heart Lung and Blood Institute's (NHLBI) Programs for Genomic Applications (PGA).

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• SciCrunch
• 17 years ago - by Anonymous

Software that identifies cell population in flow cytometry data. It demonstrates significant advantages in proper identification of populations with non-elliptical shapes, low density populations close to dense ones, minor subpopulations of a major population and rare populations. It samples large data such that spectral clustering is possible while preserving density information in edge weights. More specifically, given a matrix of coordinates as input, SamSPECTRAL first builds the communities to sample the data points. Then, it builds a graph and after weighting the edges by conductance computation, the graph is passed to a classic spectral clustering algorithm to find the spectral clusters. The last stage of SamSPECTRAL is to combine the spectral clusters. The resulting connected components estimate biological cell populations in the data sample.

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• SciCrunch
• 12 years ago - by Anonymous

Algorithm for identifying broad peaks in diffuse ChIP-seq datasets.

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• SciCrunch
• 13 years ago - by Anonymous

Founded in 1985, the San Diego Supercomputer Center (SDSC) enables international science and engineering discoveries through advances in computational science and data-intensive, high-performance computing. SDSC is considered a leader in data-intensive computing, providing resources, services and expertise to the national research community including industry and academia. The mission of SDSC is to extend the reach of scientific accomplishments by providing tools such as high-performance hardware technologies, integrative software technologies, and deep interdisciplinary expertise to these communities. From 1997 to 2004, SDSC extended its leadership in computational science and engineering to form the National Partnership for Advanced Computational Infrastructure (NPACI), teaming with approximately 40 university partners around the country. Today, SDSC is an Organized Research Unit of the University of California, San Diego with a staff of talented scientists, software developers, and support personnel. A broad community of scientists, engineers, students, commercial partners, museums, and other facilities work with SDSC to develop cyberinfrastructure-enabled applications to help manage their extreme data needs. Projects run the gamut from creating astrophysics visualization for the American Museum of Natural History, to supporting more than 20,000 users per day to the Protein Data Bank, to performing large-scale, award-winning simulations of the origin of the universe or how a major earthquake would affect densely populated areas such as southern California. Along with these data cyberinfrastructure tools, SDSC also offers users full-time support including code optimization, training, 24-hour help desk services, portal development and a variety of other services. As one of the NSF's first national supercomputer centers, SDSC served as the data-intensive site lead in the agency's TeraGrid program, a multiyear effort to build and deploy the world's first large-scale infrastructure for open scientific research. SDSC currently provides advanced user support and expertise for XSEDE (Extreme Science and Engineering Discovery Environment) the five-year NSF-funded program that succeeded TeraGrid in mid-2011.

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• SciCrunch
• 17 years ago - by Anonymous

The San Diego Psychiatric Society is a local medical specialty society. It is the district branch of the American Psychiatric Association and the California Psychiatric Association. The physician members specialize in the diagnosis and treatment of mental and emotional disorders and substance abuse. The San Diego Psychiatric Society's organizational objectives include the advancement and improvement of care for persons with mental illness through public information, education, and awareness programs and material. The society represents over 400 psychiatrists, who are the primary mental health advocates for quality patient care. The organization works to improve the public's awareness of mental illness and increase legislative and financial support of psychiatric care. Members serve in community mental health organizations, and advise the legislature on mental health issues.

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• SciCrunch
• 17 years ago - by Anonymous

The San Diego County Medical Society (SDCMS) is a non-profit organization designed to address San Diego healthcare needs for all patients and physicians through innovation, education and service. The SDCMS Foundation is advancing several innovative programs and initiatives: - The Emergency Department Medical Home (EDMH) Project matches uninsured patients in the emergency department with public and private medical coverage and establishes a medical home for them at local community health centers. - Project Access San Diego (PASD) is a program that connects eligible, low-income, uninsured patients with physicians who provide deeply discounted or pro bono care. - The SDCMS Foundation has also established five medical student scholarships at the UCSD School of Medicine.

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• SciCrunch
• 17 years ago - by Anonymous

Public research university in Edmonton, Alberta, Canada that offers degree programs in a variety of fields including business, arts, education, engineering, nursing, and medicine.

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• SciCrunch
• 16 years ago - submitted by Stephen Larson

The Wellcome Trust is the largest charity in the UK. We fund innovative biomedical research, in the UK and internationally, spending over 600 million each year to support the brightest scientists with the best ideas. The Wellcome Trust is an independent charity funding research to improve human and animal health. Established in 1936 and with an endowment of around 13 billion, it is the UK's largest non-governmental source of funds for biomedical research. What we do We spend over 600 million every year both in the UK and internationally achieving our mission. Funding We support many different kinds of research and activities with the ultimate aim of protecting and improving human and animal health. This support is not restricted to UK researchers - we devote significant funding to international research too. Biomedical science Our biomedical science funding enables the investigation of health and disease in humans and animals. This includes funding for scientists, clinicians and veterinarians at different career stages. Technology transfer Our technology transfer funding supports the development of innovative, early-stage projects with potential medical applications. Medical humanities Our medical humanities funding supports research into biomedical ethics and the history of medicine. Public engagement Our public engagement funding promotes interest, excitement and debate around science and society. Capital funding Our capital funding is for large-scale construction or refurbishment projects in the UK that support science, public engagement, medical history, or the activities of learned societies. Strategic awards Our Strategic Awards provide flexible funding that adds value to excellent research groups. Managing a grant This area contains information and resources to help you manage a grant once it has been awarded, from the grant-start certificate to the end-of-grant report and beyond. Education Resources Teaching and education Resources to help promote contemporary science in the curriculum and to enable young people to engage with biomedical science. Tree of Life Darwin200 Big Picture Science Learning Centres Scientific animations Creative Encounters Courses and conferences Trust-run conferences, courses and workshops for scientists, historians, ethicists, social scientists, teachers, healthcare professionals and policymakers, held in the UK and overseas. Advanced Courses Scientific conferences Conference centres Retreats History of medicine Biomedical ethics Biomedical resources Tools, databases and information to support different areas of biomedical research, including genomics, post-genomics and developmental biology. Animal research Genomics Model organisms Microorganisms Post-genomics Tissues Researcher support Support and advice for all kinds of engagement activities to help you communicate your work in the most effective and rewarding way possible. About researcher support National opportunities Regional opportunities Highlights Publications Browse a wealth of publications covering all aspects of the work we fund. Wellcome Trust websites Explore a range of sites covering key biomedical topics and our public engagement activities.

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• SciCrunch
• 17 years ago - by Anonymous

The Salk Institute's Laboratory for Cognitive Neuroscience (LCN) is dedicated to the study of the neural and genetic underpinnings of language and cognition. The LCN organizes its resources into two research foci: Linking Gene, Brain, and Cognition, and Language, Modality and the Brain. Linking Gene, Brain, and Cognition: Behavioral Neurogenetics: - This research is designed to increase the understanding of genetically based disorders, to investigate the consequences of genetic alterations on the development of the brain, and to explore the resulting alteration of cognitive capabilities. Language, Modality, and the Brain: - The focus of this research is to obtain a greater understanding of how language and cognition are represented in the brain. Sponsors: This resource is supported by LCN.

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• SciCrunch
• 17 years ago - by Anonymous