Curator Dashboard

Web tool for text mining and semantic technologies for biomedical content discovery. Knowledge base of biomedical text mining results. Used to discover cause-effect relations between multiple entity types and deliver standardized representation of knowledge.

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• RRID
• 4 years ago - by Anonymous

Maintains and provides archival, retrieval and analytical resources for biological information. Central DDBJ resource consists of public, open-access nucleotide sequence databases including raw sequence reads, assembly information and functional annotation. Database content is exchanged with EBI and NCBI within the framework of the International Nucleotide Sequence Database Collaboration (INSDC). In 2011, DDBJ launched two new resources: DDBJ Omics Archive and BioProject. DOR is archival database of functional genomics data generated by microarray and highly parallel new generation sequencers. Data are exchanged between the ArrayExpress at EBI and DOR in the common MAGE-TAB format. BioProject provides organizational framework to access metadata about research projects and data from projects that are deposited into different databases.

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• SciCrunch
• 17 years ago - by Anonymous

Web server for systematically predicting sequence regulatory activities and applying sequence information to human genetics data. Provides global map from any sequence to regulatory activities, as represented by sequence classes, and each sequence class integrates predictions for chromatin profiles like transcription factor, histone marks, and chromatin accessibility profiles across wide range of cell types.

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• dkNET
• 4 years ago - submitted by Ko-Wei Lin

Open source database of curated, non-redundant set of profiles derived from published collections of experimentally defined transcription factor binding sites for multicellular eukaryotes. Consists of open data access, non-redundancy and quality. JASPAR CORE is smaller set that is non-redundant and curated. Collection of transcription factor DNA-binding preferences, modeled as matrices. These can be converted into Position Weight Matrices (PWMs or PSSMs), used for scanning genomic sequences. Web interface for browsing, searching and subset selection, online sequence analysis utility and suite of programming tools for genome-wide and comparative genomic analysis of regulatory regions. New functions include clustering of matrix models by similarity, generation of random matrices by sampling from selected sets of existing models and a language-independent Web Service applications programming interface for matrix retrieval.

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• SciCrunch
• 17 years ago - by Anonymous

Through Shared Resources, investigators in Fred Hutch/University of Washington Cancer Consortium and external academic and industry organizations can access services tailored to their specific research goals, including novel assay development or early access to new technologies.

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• SciCrunch
• 4 years ago - submitted by Cassie Sather

Archive and access films from the field of Ophthalmology for free on highly secure servers for permanent access and citeability. A citeable identification number (specific addressing using DOI), allows for citation of individual films in journal publications. Films may be commented by the author either in speech, or in text. Key wording provided by the authors at the time of submission, make each film recognizable to internet search machines.

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• SciCrunch
• 13 years ago - by Anonymous

Offers services for researchers exploring cancer systems through animal models. Provides animals from specific inbred mouse strains primarily used in cancer and hematopoietic research, offers cell transplant, harvest and irradiation services and can handle animal cancer model systems involving xenotransplant procedures.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Non-profit academic organization for research and services in bioinformatics. Provides freely available data from life science experiments, performs basic research in computational biology, and offers user training programme, manages databases of biological data including nucleic acid, protein sequences, and macromolecular structures. Part of EMBL.

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• SciCrunch
• 17 years ago - by Anonymous

Provides facilities and expertise to support clinical assay development from technology developed in academic laboratories.Provides assay development and testing support for early phase clinical trials with focus on cell and gene therapy.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Multidisciplinary data repository for a consortium of universities in the Netherlands housing over datasets with a focus on scientific and technical data. Most data were produced by Dutch researchers including datasets from doctoral research. Users can deposit up to 1G by completing an upload form. Collection development foci include applied sciences, biomedical technology, earth sciences, and technology and construction. 4TU.Datacentrum is a collaboration of the libraries of the three leading technical universities - Delft University of Technology, Eindhoven University of Technology and the University of Twente.

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• SciCrunch
• 14 years ago - by Anonymous

Collection of 1mm isotropic atlases for vestibular MRI research consisting of ROIs from Eickhoff et al. and Indovina et al., Brainnetome Atlas, Diedrichsen/SUIT Cerebellar Atlas, Najdenovska Thalamic Atlas, brainstem and diencephalon ROIs from Brainstem Navigator, and Neudorfer Anatomical Hypothalamus Atlas.

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• RRID
• 4 years ago - by Anonymous

Functional genomics data repository supporting MIAME-compliant data submissions. Tools are provided to help users query and download experiments and curated gene expression profiles. These data include microarray-based experiments measuring the abundance of mRNA, genomic DNA, and protein molecules, as well as non-array-based technologies such as serial analysis of gene expression (SAGE) and mass spectrometry proteomic technology. Array- and sequence-based data are accepted.

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• SciCrunch
• 17 years ago - by Anonymous

Software package for detection and handling of doublets/multiplets in single cell sequencing data.

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• RRID
• 4 years ago - by Anonymous

An algorithm for the Simultaneous Truth and Performance Level Estimation, which estimates a reference standard and segmentation generator performance from a set of segmentations. It has been widely applied for the validation of image segmentation algorithms, and to compare the performance of different algorithms and experts. It has also found application in the identification of a consensus segmentation, by combination of the output of a group of segmentation algorithms, and for segmentation by registration and template fusion., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 14 years ago - by Anonymous

Optical and fluorescence microscopy facility. Provided instruments include range of microscopes from regular brightfield microscopes to high performence LSM900- Airyscan confocal microscope. Provides Image Analysis with Imaris Full Spectrum and ClearDeconvolution software.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

An applied research and education program at Children's Hospital in Boston. The program focuses on work done at the intersection of information science, health care and biomedical discovery. The field is inherently interdisciplinary, drawing on traditional biomedical disciplines, the science and technology of computing, data science, biostatistics, epidemiology, decision sciences, population health, omics, implementation science, and health care policy and management. This program's faculty are trained in medicine, data science, computer science, mathematics and epidemiology.

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• SciCrunch
• 13 years ago - by Anonymous

Software R package to add markdown helpfiles to shiny apps, using modal dialog boxes, with no need to observe each help button separately.

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• RRID
• 4 years ago - submitted by Elena Brivio

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
• 15 years ago - by Anonymous

Core provides equipment for flow cytometric analysis, full service cell sorting, training, and dissemination.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

An ontology of affective phenomena such as emotions, moods, appraisals and subjective feelings, designed to support interdisciplinary research by providing unified annotations. The ontology is a domain specialization of the broader Mental Functioning Ontology.

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• SciCrunch
• 13 years ago - by Anonymous