Curator Dashboard

A suite of software that allow users to capture, manage, and analyze effectively data from DNA microarray experiments. The suite of tools consist of four major applications, Microarray Data Manager (MADAM), TIGR_Spotfinder, Microarray Data Analysis System (MIDAS), and Multiexperiment Viewer (MeV), as well as a Minimal Information About a Microarray Experiment (MIAME)-compliant MySQL database, all of which are freely available to the scientific research community.

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• SciCrunch
• 13 years ago - by Anonymous

Software that provides a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines.

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 2nd,2023. TMAD stores raw and processed data from Tissue Microarray experiments along with their corresponding stained tissue images. In addition, TMAD provides methods for data retrieval, grouping of data, analysis and visualization as well as export to standard formats. Researchers at the Stanford University School of Medicine and their collaborators worldwide have constructed many tissue microarrays for use in basic research.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 2nd, 2023. Sequence composition based classifier for metagenomic sequences. It works by capturing signatures of each sequence based on the sequence composition. Each sequence is modeled as a walk in a de Bruijn graph with underlying Markov chain properties. ClaMS captures stationary parameters of the underlying Markov chain as well as structural parameters of the underlying de Bruijn graph to form this signature. In practice, for each sequence to binned, such a signature is computed and matched to similar signatures computed for the training sets. The best match that also qualifies the normalized distance cut-off wins. In the case that the best match does not qualify this cut-off, the sequence remains un-binned.

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• SciCrunch
• 15 years ago - by Anonymous

A study that aims to find out the most effective medication treatments for Alzheimer's disease symptoms, and to improve the quality of life of people with Alzheimer's disease. The outcomes of these trials will depend not only on randomized treatment assignment but the interactions of the clinical sites with the patients and caregivers. This study's main goals are to generate hypotheses about effectiveness and other issues with antipsychotic use that might undergo future testing.

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• SciCrunch
• 15 years ago - by Anonymous

Collect, bank, and distribute human tissue and fluid specimens by uniting tissue-based research resources within the OSU Department of Pathology and promoting collaborative research within the OSU Medical Center and related national human research projects. The HTRN is comprised of the Pathology Core Facility (PCF), Tissue Archive Service (TAS), Tissue Procurement Service (TPS), AIDS and Cancer Specimen Resource (ACSR), the Cancer and Leukemia Group B Pathology Coordinating Office (CALGB - PCO), and an Adenoma Polyp Tissue Bank (APTB).

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• SciCrunch
• 15 years ago - by Anonymous

The Parkinson''s UK Brain Bank is the UK''s largest brain bank dedicated to Parkinson''s. We collect the brain, spinal cord and a sample of cerebrospinal fluid from people with and without Parkinson''s after death. We supply tissue to researchers investigating Parkinson''s in the UK and around the world who are working towards a cure for Parkinson''s. Vital research relies upon the generosity of donors and their families who make the vital gift of brain donation after death. Become a brain donor and help us to find a cure and improve life for everyone affected by Parkinson''s. Just one donated brain can be used in up to 50 different research studies. The Parkinson''s UK Brain Bank is currently supporting more than 100 research projects. And we have more than 6,000 registered potential donors. Our tissue is: * free - unlike other banks, we don''t charge researchers for tissue * high quality - we collect most tissue within 24 hours of death * fast - we aim to supply tissue within 4 weeks * neuropathologically diagnosed - according to the latest criteria And we can: * issue ethical approval for projects that fit our research criteria - saving you time * provide tissue suitable for all modern research techniques - including snap frozen and fixed samples * offer expertise and training to researchers working with human tissue We don''t just supply brain tissue. We also know a lot about our donors, which means we can provide tissue to match your project. Donated tissue come with clinical notes from the healthcare team. And every donor provides details of their symptoms, medical history, lifestyle and medications. This makes our offer of tissue and information unique.

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• SciCrunch
• 15 years ago - by Anonymous

A university in Germany.

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• SciCrunch
• 17 years ago - submitted by Stephen Larson

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 28,2023. Platform for Neuroscientists to describe neurons and neural circuitry. Registered users may edit. The ultimate goal is advance the field of Neuromics by creating an encyclopedia of neurons and neural circuitry. NOTE: The database is no longer being maintained due to lack of funding.

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• SciCrunch
• 17 years ago - by Anonymous

Atlas of developing human brain for studying transcriptional mechanisms involved in human brain development. One of the BrainSpan datasets, Exon microarray summarized to genes, is presented. It is a downloadable archive of files containing normalized RNA-Seq expression values for analysis.

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• SciCrunch
• 16 years ago - by Anonymous

Atlas of developing human brain for studying transcriptional mechanisms involved in human brain development. One of the BrainSpan datasets, Exon microarray summarized to genes, is presented. It is a downloadable archive of files containing normalized RNA-Seq expression values for analysis.

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• SciCrunch
• 16 years ago - by Anonymous

UniProt Archive (UniParc) is part of UniProt project. It is a non-redundant archive of protein sequences extracted from public databases UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, PIR-PSD, EMBL, EMBL WGS, Ensembl, IPI, PDB, PIR-PSD, RefSeq, FlyBase, WormBase, H-Invitational Database, TROME database, European Patent Office proteins, United States Patent and Trademark Office proteins (USPTO) and Japan Patent Office proteins. UniParc contains only protein sequences. All other information about the protein must be retrieved from the source databases using the database cross-references. Each unique sequence is stored only once with a stable identifier. The format of the identifier is UPI followed by ten hexadecimal numbers, e.g. UPI000000000A. UniParc proteins are linked to their source databases by database cross-references. Each cross-reference links one protein in UniParc to an accession number in a source database. The database cross-reference is active as long as the sequence identified by the source accession number remains unchanged. When the sequence is modified or removed in the source database, the cross-reference from UniParc becomes inactive. Active cross-reference can be used to directly access the source databases but inactive cross-references can only be used to access sequences archives, such as the Sequence Version Archive. UniParc is available for text- and sequence-based searches. Sequences, which are no longer part of any source database, are excluded from sequence-based searches, but they are available for text-based SRS searches. Performing a similarity search against UniParc is equivalent to performing the same search against all databases cross-referenced in UniParc, as UniParc contains all proteins from its source databases. Sequence similarity searches can be done using FASTA, BLAST or Mpsrch.

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• SciCrunch
• 16 years ago - by Anonymous

Portal providing access to all JGI genomic databases and analytical tools, sequencing projects and their status, search for and download assemblies and annotations of sequenced genomes, and interactively explore those genomes and compare them with other sequenced microbes, fungi, plants or metagenomes using specialized systems tailored to each particular class of organisms. The Department of Energy (DOE) Joint Genome Institute (JGI) is a national user facility with massive-scale DNA sequencing and analysis capabilities dedicated to advancing genomics for bioenergy and environmental applications. Beyond generating tens of trillions of DNA bases annually, the Institute develops and maintains data management systems and specialized analytical capabilities to manage and interpret complex genomic data sets, and to enable an expanding community of users around the world to analyze these data in different contexts over the web.

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• SciCrunch
• 16 years ago - by Anonymous

National and international arabidopsis germplasm resource.Stores over million genotypes in physical stocks servicing worldwide Arabidopsis community in more than 50 countries. Stocks are provided under identical cost recovery conditions to academic and commercial researchers. Non-transgenic stocks are sent gratis to K-17 institutions and in special cases. Provides seed and information resources to International Arabidopsis Genome Programme and research community. Maintains accessions of Arabidopsis thaliana (and small number of other related species), including Characterized lines, Mapping populations, and Insertion lines. You may browse or search catalog.

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• SciCrunch
• 16 years ago - by Anonymous

Non-profit biomedical research organization developing predictors of disease and accelerating health research through creation of open systems, incentives, and standards. Formed to coordinate and link academic and commercial biomedical researchers through Commons that represents new paradigm for genomics intellectual property, researcher cooperation, and contributor evolved resources.

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• SciCrunch
• 16 years ago - by Anonymous

Atlas of developing human brain for studying transcriptional mechanisms involved in human brain development. One of the BrainSpan datasets, Exon microarray summarized to genes, is presented. It is a downloadable archive of files containing normalized RNA-Seq expression values for analysis.RNA-Seq exons datasets

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• SciCrunch
• 16 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
• 16 years ago - by Anonymous

Parkinson''s UK is a Parkinson''s research and support charity in the United Kingdom. In April 2010, the Parkinson''s Disease Society changed its name to become Parkinson''s UK. Its aims are to improve the quality of life for people affected by Parkinson''s and find a cure for the condition. Parkinson''s UK is the largest charity funder of research into Parkinson''s in the UK, it funds research aimed at finding better treatments and improving the understanding of Parkinson''s and its causes. It raises money through donations, legacies, community fundraising, events and corporate partnerships. The charity offers support and information to people affected by Parkinson''s, their families and carers through a network of 350 local groups across England, Wales, Scotland and Northern Ireland. (Wikipedia)

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• SciCrunch
• 16 years ago - by Anonymous

Collaborative project to bring together biochemical pathway databases and research communities focused on plant metabolism. Used to build broad network of plant metabolic pathway databases. Central feature of PMN is PlantCyc, comprehensive plant biochemical pathway database, containing curated information from literature and computational analyses about genes, enzymes, compounds, reactions, and pathways involved in primary and secondary metabolism.

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• SciCrunch
• 16 years ago - by Anonymous

An integrated software library for vector classification, regression and distribution estimation. It supports multi-class classification. LIBSVM provides a simple interface where users can easily link it with their own programs. Main features of LIBSVM include: * Different Support Vector Machine (SVM) formulations * Efficient multi-class classification * Cross validation for model selection * Probability estimates * Various kernels (including precomputed kernel matrix) * Weighted SVM for unbalanced data * Both C++ and Java sources * GUI demonstrating SVM classification and regression * Python, R, MATLAB, Perl, Ruby, Weka, Common LISP, CLISP, Haskell, OCaml, LabVIEW, and PHP interfaces. C# .NET code and CUDA extension is available. * It''s also included in some data mining environments: RapidMiner, PCP, and LIONsolver. * Automatic model selection which can generate contour of cross valiation accuracy.

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• SciCrunch
• 13 years ago - by Anonymous