Curator Dashboard

Web based interface for exploring and analyzing a comprehensive maize-specific cross-platform expression compendium. This compendium was constructed by collecting, homogenizing and formally annotating publicly available microarrays from Gene Expression Omnibus (GEO), and ArrayExpress.

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• SciCrunch
• 13 years ago - by Anonymous

An Antibody supplier

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• SciCrunch
• 14 years ago - by Anonymous

Software package to dissect random from non-random patterns in copy number data and thereby to assess significantly enriched somatic copy number aberrations (SCNA) across a set of tumor specimens or cell lines.

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• SciCrunch
• 13 years ago - by Anonymous

Software to forecast the deleteriousness of non-synonymous single nucleotide variants (nsSNVs) using multiple methods and explore them in the context of the variability permitted in the long-term evolution of the affected positions. A web version (MEGA-MDW) is also available.

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• SciCrunch
• 13 years ago - by Anonymous

A Bayesian Monte Carlo Markov Chain (MCMC) sampler software for phylogenetic reconstruction. Its main distinguishing feature is the underlying probabilistic model, CAT (Lartillot and Philippe, 2004). CAT is an infinite mixture model accounting for site-specific amino-acid or nucleotide preferences. It is well suited to phylogenomic studies using large multigene alignments., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 13 years ago - by Anonymous

Software to control Type-I error inflation in partially sequenced data for rare variant association testing. It is typically used to combine sequence and genotype data for the two stage design, in which individuals sequenced in stage one for variant detection are solely or predominantly cases then in stage two the discovered variants are genotyped in the remaining individuals. BETASEQ can work with any existing rare variant association methods that use genotypes or imputed genotypes as input.

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• SciCrunch
• 13 years ago - by Anonymous

A computational tool for analyzing multiple gene expression time series data sets for the same organism. The goal is to determine if there is evidence for gene regulatory mechanisms that are shared by multiple different expression responses.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that performs bottom-up hierarchical clustering, using a Dirichlet Process (infinite mixture) to model uncertainty in the data and Bayesian model selection to decide at each step which clusters to merge. This avoids several limitations of traditional methods, for example how many clusters there should be and how to choose a principled distance metric. This implementation accepts multinomial (i.e. discrete, with 2+ categories) or time-series data and also includes a randomised algorithm which is more efficient for larger data sets.

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• SciCrunch
• 13 years ago - by Anonymous

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• SciCrunch
• 12 years ago - submitted by Eddy Kim

Public registry of antibodies with unique identifiers for commercial and non-commercial antibody reagents to give researchers a way to universally identify antibodies used in publications. The registry contains antibody product information organized according to genes, species, reagent types (antibodies, recombinant proteins, ELISA, siRNA, cDNA clones). Data is provided in many formats so that authors of biological papers, text mining tools and funding agencies can quickly and accurately identify the antibody reagents they and their colleagues used. The Antibody Registry allows any user to submit a new antibody or set of antibodies to the registry via a web form, or via a spreadsheet upload.

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• SciCrunch
• 16 years ago - by Anonymous

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• SciCrunch
• 17 years ago - submitted by Stephen Larson

Platform where academic researchers from around the world collaborate to propose and conduct basic research projects with the support of funding provided by the broader online community. The OSSP hopes to transform how academic research is funded and increase the accessibility of academic research. * Researchers pay a monthly subscription to create and maintain public profiles * Researchers alone (or in teams) submit proposed research studies - each study is peer reviewed, and (if approved) is then posted online * Investors browse through posted studies, and invest in them via small grants (microinvestments). The OSSP doesn''t charge any transaction fees or commissions * Researchers whose studies are funded conduct their research and publish their results It is in the best interest of each researcher to make their case to as many citizens as possible to ensure that they are aware of the work the researcher is engaged in - and of its importance. It is to help academic researchers make this case, and invite the broader non-research community to play a more active role in the academic research process, that The OSSP has developed this unique platform. Through the tools and resources offered by The OSSP, academic researchers may: * Create publicly-accessible profiles * Interact and exchange ideas with peers and colleagues * Manage scholarly publications/bibliographies * Secure research funding (in the form of microgrants provided by the broader non-research community) Simultaneously non-researchers, by registering as ''investors'', may: * Read through cutting-edge (peer-reviewed) research proposals * Interact and exchange ideas with academic researchers * Fund academic research projects

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• SciCrunch
• 14 years ago - by Anonymous

MATLAB toolbox for performing functional connectivity analyses includes many of the most commonly-used approaches researchers have utilized to date for the identification of condition-dependent functional interactions between fMRI time-series obtained from two or more brain regions. The approaches are either bivariate or multivariate methods defined in time or frequency domains that emphasize distinct features of relationships among the time-series.

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• SciCrunch
• 14 years ago - by Anonymous

Open Repository for the deposition and sharing of protocols for scientific research. These protocols are posted directly on the Protocol Exchange by their authors and hence have not been further styled, peer reviewed or copy edited. Rather they are made freely available to the scientific community for use and comment. The Protocol Exchange strives to facilitate rapid and unencumbered distribution of protocols for scientific research. They welcome Protocols from any branch of science however we focus particularly on Protocols being used to answer outstanding biological and biomedical science research questions, which includes methods grounded in physics and chemistry with a practical application to the study of biological problems. The content of Protocol Exchange is currently classified under the following broad subject categories: Biochemistry; Cell biology; Cell culture; Chemical modification; Computational biology; Developmental biology; Epigenomics; Genetic analysis; Genetic modification, Genomics; Imaging; Immunological techniques; Isolation, Purification and Separation; Lipidomics; Metabolomics; Microbiology; Model organisms; Nanotechnology; Neuroscience; Nucleic acid based molecular biology; Pharmacology; Plant biology; Protein analysis; Proteomics; Spectroscopy; Structural biology; Synthetic chemistry; Tissue culture; Toxicology; and Virology. If your protocol does not fall into any of these categories please contact us at protocol.exchange (at) nature.com before uploading.

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• SciCrunch
• 14 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

A data set of connectivity statements from BAMS, CoCoMac, BrainMaps, Connectome Wiki, the Hippocampal-Parahippocampal Table of Temporal-Lobe.com, and Avian Brain Circuitry Database. The data set lists which brain sites connectivity is to and from, the organism connectivity is mapped in, and journal references.

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• SciCrunch
• 14 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 3, 2023. A collection of tools for the computational genomicist written in the python language to assist in the analysis of genome scale data from a range of standard file formats. The toolkit enables filtering, comparison, conversion, summarization and annotation of genomic intervals, gene sets and sequences. The tools can both be run from the Unix command line and installed into visual workflow builders, such as Galaxy. Please note that the tools are part of a larger code base also including genomics and NGS pipelines. Everyone who uses parts of the CGAT code collection is encouraged to contribute. Contributions can take many forms: bugreports, bugfixes, new scripts and pipelines, documentation, tests, etc. All contributions are welcome.

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• SciCrunch
• 13 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

Web-based research management system that provides a one-stop-shop to researchers and their study teams to browse services and submit service and pricing requests to research service providers with a focus on billing compliance and proposal and budget development. Upgrades in process include work fulfillment data collection, invoicing and billing features, and outcome metrics using grant and publication data.

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• SciCrunch
• 14 years ago - by Anonymous

Free and secure registry to bring together two groups of people who are looking for one another: (1) people who are trying to find research studies, and (2) researchers who are looking for people to participate in their studies. It has been developed by major academic institutions across the country who want to involve you in the mission of helping today''''s studies make a real difference for everyone''''s health in the future. Anyone can join ResearchMatch. Many studies are looking for healthy people of all ages, while some are looking for people with specific health conditions. ResearchMatch can help ''''match'''' you with any type of research study, ranging from surveys to clinical trials, always giving you the choice to decide what studies may interest you.

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• SciCrunch
• 14 years ago - by Anonymous