Curator Dashboard

Collection of structural data of biological macromolecules. Database of information about 3D structures of large biological molecules, including proteins and nucleic acids. Users can perform queries on data and analyze and visualize results.

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• SciCrunch
• 16 years ago - by Anonymous

A R package that enables the identification of protein binding footprints in DNase I hypersensitive sites sequencing (DNase-seq) data.

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• SciCrunch
• 13 years ago - by Anonymous

A web-based compendium of molecular alterations in primary immunodeficiency diseases. Detailed information about genes and proteins that are affected in primary deficiency diseases is presented along with other pertinent information about protein-protein interactions, microarray gene expression profiles in various organs and cells of the immune system and mouse studies. RAPID also hosts a tool, the mutation viewer, to predict deleterious and novel mutations and also to visualize the mutation positions on the DNA sequence, protein sequence and three-dimensional structure for PID genes. The information in this database should be useful to researchers as well as clinicians.

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• SciCrunch
• 17 years ago - by Anonymous

Neuroscience for Kids has been created for all students and teachers who would like to learn about the nervous system. Discover the exciting world of the brain, spinal cord, neurons and the senses. Use the experiments, activities and games to help you learn about the nervous system. There are plenty of links to other web sites for you to explore. Can''t find what you are looking for? Search the web site and the questions/answers page. Keep up-to-date on new discoveries in brain research with Neuroscience in the News, request the Neuroscience for Kids Newsletter or watch BrainWorks, a 30-minute TV show about the brain hosted by Dr. Eric H. Chudler. Portions of Neuroscience for Kids are available in Spanish, Slovene, Chinese, Portuguese, Italian, Korean, Dutch, Japanese and Turkish. Neuroscience for Kids is maintained by Eric H. Chudler, Ph.D. and was supported by a Science Education Partnership Award (R25 RR12312) from the National Center for Research Resources (NCRR). Its contents are solely the responsibility of the authors and do not necessarily represent the official views of NCRR or NIH. Support: NCRR

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• SciCrunch
• 17 years ago - by Anonymous

An academic, non-profit foundation recognized of public utility that coordinates research and education in bioinformatics throughout Switzerland and provides high quality bioinformatics services to the national and international research community. * The first and primary SIB mission consists of providing services, i.e. the bioinformatics research infrastructure for life science research. It is carried through in a top-down approach, with objectives set by the SIB Board of Directors and an implementation plan agreed with the concerned groups. Federal funds are almost exclusively used to fulfill this mission. * Within the second mission the SIB plays a federating role, linking the Swiss bioinformatics community and promoting and coordinating research and education. This activity is mainly performed in a bottom-up way with funding from the universities and other partners and from research grants.

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• SciCrunch
• 16 years ago - by Anonymous

Biobank provides data collected at Assessment Center and via online questionnaires on participants aged 40-69 years recruited throughout United Kingdom and provides summary information to improve prevention, diagnosis and treatment of serious and life threatening illnesses.

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• SciCrunch
• 16 years ago - by Anonymous

The Okinawa Institute of Science and Technology Promotion Corporation (OIST PC) was established in September 2005 to conduct best in the world research and education in science and technology, and to prepare the ground for the creation of a new graduate University in Okinawa. Our concept was to grow the project out of interdisciplinary research in areas that integrate components from biology, physics, chemistry, mathematics and computation science. We have done so by recruiting researchers in Neurosciences, Molecular Sciences and Mathematical and Computational Biology, and we have recently added Environmental Science as a new focus. OIST P.C. is unique in that we are a Japanese government-funded agency, but maintain independence in developing and conducting our research and academic programs. We drive towards excellence, and we are committed to developing programs to enable outstanding researchers to be given the opportunity to conduct independent research and to excel in their chosen research topics, as well as extending to talented students the chance to access a world-class education program in Okinawa. At a time when worldwide support for research is increasingly risk-averse and obtaining funding places an ever-growing burden on faculty, OIST promotes innovative research in a highly facilitating and supportive environment. In addition to seminars and workshops, Okinawa Institute of Science and Technology Promotion Corporation (OIST) provides students from Japanese and overseas universities with education and research opportunities through a system of collaborative graduate programs and placements. Prior to the opening of the graduate university in FY 2012, these allow students to receive research guidance in a broad range of topics from Principal Investigators of research laboratories at OIST (units) through two different student research assistantships.

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• SciCrunch
• 16 years ago - by Anonymous

Data analysis service to predict whether an amino acid substitution affects protein function based on sequence homology and the physical properties of amino acids. SIFT can be applied to naturally occurring nonsynonymous polymorphisms and laboratory-induced missense mutations. (entry from Genetic Analysis Software) Web service is also available.

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• SciCrunch
• 14 years ago - by Anonymous

Blog intended for grantees of the National Institute on Aging (NIA) at the NIH, as well as applicants for funding, those with an application in mind, application reviewers, and students pursuing careers in research on aging and Alzheimer's disease.

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• SciCrunch
• 14 years ago - by Anonymous

The mission of the Indiana Alzheimer Disease Center is to serve as a shared research resource in order to facilitate research in Alzheimer disease and related disorders and to distinguish them from normal aging. Within this mission, one objective is to provide an environment and core resources to enhance ongoing research and foster new lines by bringing together basic and clinical scientists to study the etiology, pathogenesis, diagnosis, and treatment of Alzheimer disease and related dementias, with an emphasis on hereditary dementias. The Center is composed of 6 cores: Administrative, Clinical, Neuropathology, Data Management, Education and Information Transfer, and Imaging. The Neuropathology Core functions as brain-bank facility, which stores samples from hundreds of autopsied cases and supplies them to research investigators around the world. The focus of the IADC is on behavioral neurology, clinicopathological correlations, biochemistry, and genetics of AD, frontotemporal dementia and parkinsonism linked to chromosome 17 (FTDP-17), Gerstmann-Str��������ussler-Scheinker disease (GSS), Parkinson disease and other hereditary diseases associated with abnormal protein accumulation. The Neuropathology Core carries out state-of-the-art neuropathological examination of brain, spinal cord and other tissue samples obtained from individuals affected by neurodegenerative dementia and/or other related neurodegenerative diseases. The Core is composed of five different laboratories: histology and immunohistochemistry, electron microscopy, molecular biology, biochemistry, as well as a small-animal laboratory dedicated to the study of murine models of human diseases. In the past 15 years, we have been among the first to discover mutations in genes implicated in the etiology and pathogenesis of early-onset dementia. Specifically we have identified novel mutations in the Amyloid Precursor Protein gene (APP) and Presenilin 1 (PSEN1) that are responsible for hereditary forms of early-onset AD. We have also found several novel mutations responsible for Gerstmann-Str��������ussler-Scheinker (GSS) disease, a hereditary degenerative disease causing ataxia, parkinsonism and dementia secondary to the accumulation of mutated prion protein (PrP). We have reported mutations in the MAPT gene in FTDP-17, a tauopathy which causes personality changes, cognitive dysfunction, rigidity and dementia. Other areas of research in neurodegeneration are related to the study of genetic mutations of Neuroserpin (SCNA) and Light Ferritin Polypeptide genes.

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• SciCrunch
• 17 years ago - by Anonymous

Detection of differentially expressed genes (DEGs) from the comparison of two biological conditions among different levels of gene expression, using several statistical methods: Rank Product, t-test, SAM, Limma, ANOTA, DESeq, edgeR.

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• SciCrunch
• 13 years ago - by Anonymous

Web-based repository and analysis site for connectivity matrices that have been derived from neuroimaging data including different imaging modalities, subject groups, and studies. Users can analyze connectivity matrices that have been shared publicly and upload their own matrices to share or analyze privately.

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• SciCrunch
• 13 years ago - by Anonymous

Engine and database to search the three-dimensional fragments within 3D RNA structures using as an input the sequence(s) and / or secondary structure(s) given in the dot-bracket notation. The database contains RNA sequences and secondary structures, described in the dot-bracket notation, derived from PDB-deposited RNA structures and their complexes. It also contains atom coordinates of the unmodified and modified nucleotide and nucleoside residues extracted from the PDB-deposited RNA structures, as well as torsion and pseudotorsion angle values, sugar pucker parameters and classification of base pair types given for the PBD-deposited RNA structures. Knowledge of the three dimensional RNA structure is crucial for all fields of biomolecular research. In contrast to the protein field, only about 1.300 experimentally derived structures of RNAs are deposited in the Protein Data Bank (PDB). To complement the results of experimental studies, new approaches based on bioinformatics and calculation are pursued in several laboratories to make tertiary RNA structure prediction possible. RNA FRABASE version 2.0 should greatly facilitate various RNA structure modelling approaches, RNA structure analysis and motif searching. If one compares the three dimensional RNA structure to a spatial puzzle, the RNA FRABASE allows to pull out a defined piece of this puzzle - the 3D RNA fragment. The architecture of the web-accessible RNA FRABASE engine and database is based on the following information path: PDB-deposited RNA structures �� RNA sequences and secondary structures described in the dot-bracket notation �� secondary structures of RNA fragments �� 3D RNA fragments. RNA FRABASE 2.0 also stores data and conformational parameters in order to provide on the spot structural filters to explore the three-dimensional RNA structures. An instant visualization of the 3D RNA structures is provided.

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• SciCrunch
• 16 years ago - by Anonymous

The ALS Therapy Development Institute is a nonprofit biotechnology company discovering treatments for patients alive today. Our approach combines the power of a nonprofit mission with the best practices of a for-profit biotechnology company: rigorous, open-minded research and proven drug development techniques. ALS TDI combines the passion and dedication of a nonprofit organization with the entrepreneurial and scientific spirit of a biotechnology company * Our laboratory, the leading drug discovery program for ALS, bridges a critical research gap * Our in-house expertise translates research into potential drug candidates by screening drugs in the SOD1 mouse model of ALS. * Our scientific collaborations are designed to bring the most promising leads closer to patient use. * We share emerging knowledge on the disease with patients, physicians, and researchers as quickly and comprehensively as possible. * Every decision is made in the interest of finding effective treatments for people living with ALS. * Our unique approach accelerates drug development for ALS.

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• SciCrunch
• 17 years ago - by Anonymous

A database of allergenic proteins. It contains various computational tools that can assist structural biology studies related to allergens. SDAP is an important tool in the investigation of the cross-reactivity between known allergens, in testing the FAO/WHO allergenicity rules for new proteins, and in predicting the IgE-binding potential of genetically modified food proteins. Using this Internet service through a browser, it is possible to retrieve information related to an allergen from the most common protein sequence and structure databases (SwissProt, PIR, NCBI, PDB), to find sequence and structural neighbors for an allergen, and to search for the presence of an epitope other the whole collection of allergens.

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• SciCrunch
• 17 years ago - by Anonymous

Providing quality resources for the management of cerebral aneurysms and features an online calculator that calculates cerebral aneurysm volume and percent packing volume after coil embolization. The site also host an imaging Library with neuroanatomy and neurovascular images.

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• SciCrunch
• 14 years ago - by Anonymous

Data sharing repository of clinical trials, associated mechanistic studies, and other basic and applied immunology research programs. Platform to store, analyze, and exchange datasets for immune mediated diseases. Data supplied by NIAID/DAIT funded investigators and genomic, proteomic, and other data relevant to research of these programs extracted from public databases. Provides data analysis tools and immunology focused ontology to advance research in basic and clinical immunology.

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• dkNET
• 14 years ago - by Anonymous

TGD Wiki is a user-updatable database of information about the Tetrahymena thermophila genome sequence determined at The Institute for Genomic Research (TIGR). TGD Wiki provides information on the genome, genes, and proteins of Tetrahymena collected from the scientific literature, research community and many other resources. In order to keep the information in our database as current as possible, we will soon be inviting the members of the Tetrahymena community to add and update these annotations to reflect published research. TGD Wiki currently offers the following features: * Free, unrestricted read access to all available data * Sequence and annotation data for 24,725 genes (TIGR v.2008) * GBrowse genome browser with links to and from each gene page (TIGR v.2006) * BLAST searching of the TIGR gene models and genome sequence (TIGR v.2006) Tetrahymena Genome Database (TGD) Wiki began in 2004 at Stanford University using the schema and programs of its parent project, Saccharomyces Genome Database. TGD Wiki is now a collaboration between Bradley University, Stanford University, and Cornell University. As we begin TGD Wiki at its new home at Bradley University, the TGD Wiki database contains the following data from TGD: * Gene Names and Aliases * Gene Descriptions * Gene Ontology (GO) Annotations * Homologs (similar genes in selected organisms) * Protein Domains * Associated Literature * Paragraphs (longer, free-text descriptions of gene function, structure, and significance) * Coding and Protein Sequences We have updated the following fields to match the newest gene model sequences (TIGR v.2008): Coding and Protein Sequences, Protein Domains and Gene Descriptions. We will also be recalculating the GO Annotations (IEA evidence code) and Homologs as part of our effort to keep the annotations in TGD Wiki as current as possible. We will be relying on members of the Tetrahymena community to maintain high-quality, updated annotations in the remainder of the fields using our annotation interface. Also setting up new database superdb - for unpublished data Look at Ciliate.org for news on this and other new databases

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• SciCrunch
• 16 years ago - by Anonymous

Bioconductor software package for Empirical analysis of Digital Gene Expression data in R. Used for differential expression analysis of RNA-seq and digital gene expression data with biological replication.

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• SciCrunch
• 13 years ago - by Anonymous

Not yet vetted by NIF curator

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• SciCrunch
• 16 years ago - by Anonymous