Curator Dashboard

Server to rapidly design primers for real-time PCR measurement of eukaryotic expression.

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• SciCrunch
• 12 years ago - by Anonymous

An open-source JAVA program that is surprisingly efficient at predicting active siRNAs.

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• SciCrunch
• 11 years ago - by Anonymous

Chemical 2D structure editor and viewer application/applet based on the Chemistry Development Kit (CDK).

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• SciCrunch
• 11 years ago - by Anonymous

Repository of neuron types characterized by machine-readable part-relation-value triple-based neuron properties. A Curator Interface facilitates the direct knowledge transfer of information from the participating neuroscientist for entry into the Neuron Registry.

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• SciCrunch
• 15 years ago - by Anonymous

A group of clinical care and epilepsy research centers who are committed to improving the lives of people with epilepsy through an understanding of the genetics of epilepsy. The consoritum was in an effort to speed discovery to epilepsy genetics by pooling the resources of several research centres. Core Founding Institutes * The Centre for Genomics and Population Genetics. Duke University Institute for Genome Sciences and Policy, North Carolina, USA. (Prof. David Goldstein) * The UCL Institute of Neurology, Queen Square, London, UK. (Prof. Sanjay Sisodiya) * Beaumont Hospital and the Royal College of Surgeons in Ireland. (Dr. Norman Delanty and Dr. Gianpiero Cavalleri) * Hôpital Erasme, Université Libre de Bruxelles, Belgium. (Dr. Chantal Depondt and Prof. Massimo Pandolfo) Collaborating Institutes * The Departments of Medicine and Neurology, The Royal Melbourne Hospital, The University of Melbourne, Victoria, Australia. (Dr. Terence O'Brien and Dr. Cassandra Szoeke) * Murdoch Childrens Research Institute, Department of Paediatrics, The University of Melbourne, Melbourne, Australia. (Dr. Leslie Sheffield) They are currently working on several pharmacogenomic and epilepsy predisposition projects: * The development and implementation of electronic patient records to enhance the quality and efficiency of both patient care and genomics research. * The clinical relevance of genetic variation in vigabatrin induced visual field contriction. * The clinical relevance of genetic variation in weight fluctuation due to anti-convulsant medication. * The role of genetic variation in mesial temporal sclerosis and other "focal" epilepsies. * The potential of magnetic resonance imaging to deliver novel endophenotypes to help resolve the genetic component to epilepsy. The following resources are available to the EPIGEN consortium.. * Over 5000 epilepsy patients recruited from the following hospitals: ** The Institute of Neurology, Queen Square, London, UK. ** Beaumont Hospital, Dublin, Ireland. ** Hopital Erasme, Universite Libre de Bruxelles, Belgium. ** Duke University Hospital, Durham, North Carolina, USA. * Core genotyping facility: The EPIGEN consortium has access to Duke University Institute Genome Sciences and Policy high throughput genotyping facility. Availing of ABI taqman and Illumina Bead Array technology, this facility provides the EPIGEN consortium with genotyping for projects of all sizes. *Statistical support: Research conducted by the EPIGEN consortium can call on statistical support from Duke University IGSP, and the genetics programmes at RCSI and the ION.

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• SciCrunch
• 15 years ago - by Anonymous

Software that combines information from the mass-to-charge ratio, retention time and intensity of each peak, together with a model of the inter-peak dependency structure, to increase the accuracy of peak annotation. The software has been implemented as part of the mzMatch metabolomics analysis pipeline, which is available for download.

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• SciCrunch
• 11 years ago - by Anonymous

Desktop application for analysis and visualization of large-scale cell signaling networks.

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• SciCrunch
• 11 years ago - by Anonymous

Python scripts to analyze antibody libraries sequenced by next generation sequencing methods (454, Ion Torrent, MiSeq).

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• SciCrunch
• 11 years ago - by Anonymous

We have collected DNA for more than 15 years, and today we have DNA from more than 1,800 Danish MS patients and 1,200 controls, all kept in the Danish Multiple Sclerosis Biobank in DMSC. In order to increase the sample size for genetic testing, we have participated in the Nordic MS Genetic Network since 1994, and today the Nordic material consists of more than 6,000 MS cases and 6,000 controls. The research in DMSC is focused on the candidate gene approaches and the genetic influence on the differences in treatment response. We are part of the IMSGC (International Multiple Sclerosis Genetic Consortium) and the Wellcome Trust Case Control Consortium (WTCCC), where 23 research groups from 15 countries are performing the largest set of MS genome-wide association study (GWAS), genotyping 11,000 cases and 11,000 controls using 500,000 SNP chip. Primary results have elucidated associations to more than 100 gene variations (SNPs). Following this collaboration we are joining the Immunochip Consortium, where 1,000 Danish cases and 1,000 Danish controls participate in a large scale genetic analysis, investigating best genes/regions/SNPs in MS together with other international MS research groups and 9 other autoimmune diseases research groups, looking for shared autoimmune genes. The risk of MS has been increasing over the last 50 years, especially among women older than 40 years. On this background we have initiated a project looking at aspects of gender differences, including different treatment responses. Furthermore, we have initiated a large-scale vitamin D project, investigating gene variations within the vitamin D pathway, and the importance of vitamin D in clinical and immunological disease activity. In addition, we have collected more than 800 questionnaires from MS patients dealing in detail with lifestyle and environmental exposure for a project studying gene-environmental interactions.

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• SciCrunch
• 15 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVCE, documented September 2, 2016. Generalized Ontological Algorithmic Logical Invariants Extractor (GOALIE) is a tool for the construction of time-course dependent enrichments. Requires an ODBC connection to an instance of the GO database. Platform: Windows compatible, Mac OS X compatible, Linux compatible

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• SciCrunch
• 14 years ago - by Anonymous

A system of databases which stores information on the influence of mutations in regulatory gene regions . This tool helps recognize protein binding sites that are being altered by mutation. It has four cross-linked sub databases that focus on specific aspects including: (1) the effect of single nucleotide mutations in regulatory gene regions and their interaction with nuclear proteins; (2) references to original publications on the subject; (3) the experimental details of these publications; and (4) the protocols of these experiments. This resource is aimed at providing information to further research on the influence of specific sequence alterations on disease susceptibility, drug resistance and healthcare.

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• SciCrunch
• 16 years ago - by Anonymous

A scientific community-crowdsourced database containing the RNA secondary structures of known types and organisms. It is meant to provide a simple and powerful way to analyze, search and update a shared repository of information.

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• SciCrunch
• 16 years ago - by Anonymous

Software designed for the rapid, reproducible and computer-aided analysis of microarray images and the quantification of gene expression.

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• SciCrunch
• 12 years ago - by Anonymous

Software dedicated for the analysis of chemically cross-linked proteins or protein complexes using mass spectrometry.

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• SciCrunch
• 11 years ago - by Anonymous

Scalable particle fluid simulation code for Lagrangian particle-based fluid simulation. This adaptive sampling strategy allows using smaller (and thus more) particles in geometrically complex regions, while less particles are used for thick flat fluid volumes. Additionally, a novel distance-based particle surface definition is implemented which hides the particle granularity and allows dynamic resampling near the fluid-air interface. The code is implemented in C++ and should compile on Linux.

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• SciCrunch
• 16 years ago - by Anonymous

Software tool for MRI intensity standardization by aligning histograms of higher dimensions. The methods defined in http://www5.informatik.uni-erlangen.de/Forschung/Publikationen/2006/Jaeger06-ANM.pdf are implemented as and ITK filter.

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• SciCrunch
• 12 years ago - by Anonymous

An XML vocabulary and schema for strategic plans, designed to create a world wide web of intentions, stakeholders and results.

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• SciCrunch
• 13 years ago - by Anonymous

Social networking site for academic researchers that allows researchers to share papers, find people working in a field and see analytics on papers etc

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 22,2022. An open source software tool for fusion discovery with paired-end RNA-Seq reads. The tool follows a different strategy by finding fusions directly and verifying them, differentiating it from all other existing tools by finding the candidate regions and searching for the fusions afterwards.

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• SciCrunch
• 12 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE.Documented on August 23,2022. An open source tool developed for genome-wide detection of fusion transcripts from human being paired-end RNA-Seq data. This tool is a part of a larger set of tools to efficiently align oligonucleotides onto reference sequences .

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• SciCrunch
• 12 years ago - by Anonymous