Curator Dashboard

Software tool as flexible and comprehensive codon usage analyzer. Used to analyze codon usage bias (CUB) and relevant problems.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Sequential B-Cell Epitope Predictor. Web server predicts B-cell epitopes from protein sequence. Sequence-based B-cell epitope prediction using conformational epitopes. Sequences of protein of interest should be in fasta format. BepiPred 2.0 is available as stand alone software package, with same functionality as web service., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Web tool that automatically screens bioRxiv preprints for rainbow colormaps, which are not colorblind safe. Emails authors information on replacing these colormaps with colorblind safe alternatives. Screens preprints to improve data representation and colour-blind accessibility.

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• RRID-Legacy
• 6 years ago - submitted by Tracey Weissgerber

Software suite that works by themselves, and with Amber20 itself. Can be used to carry out complete molecular dynamics simulations, with either explicit water or generalized Born solvent models.

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• SciCrunch
• 6 years ago - submitted by Nathan Anderson

Web server for in silico prediction of allergens. Alignment free server for in silico prediction of allergens based on main physicochemical properties of proteins. Used to predict the route of allergen exposure: food, inhalant or toxin.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software package that supports formal tests of whether admixture occurred, and makes it possible to infer admixture proportions and dates.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Quick and intuitive way to annotate data from genomics studies including microbiome. Project to aid researchers in applying standardized metadata describing what, where, how, and when of samples collected in genomics study. Collection of METAdata of GEnomics studies on web based NOTEbook. Metadata are stored in centralized repository and validated according to guidelines from Genomics Standard Consortium, which are also supported by repositories and large microbiome initiatives such as NCBI, European Bioinformatics Institute (EBI), and Earth Microbiome Project. Upon request from researchers, data will also be submitted for publication via NCBI Sequence Read Archive (SRA) repository.

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

Software text mining tool aiding curation at Rat Genome Database. Ontology driven, concept based literature search engine developed at RGD. Tags abstracts with gene names, gene mutations, organism names and terms from ontologies vocabularies used at RGD. Open and fully customizable.

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

Open knowledge base that can be read and edited by both humans and machines. Storage for structured data of its Wikimedia sister projects including Wikipedia, Wikivoyage, Wiktionary, Wikisource, and others. Provides support to many other sites and services beyond just Wikimedia projects.

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• SciCrunch
• 6 years ago - submitted by Pascal Welke

Software developed by analyzing workflows composed by researchers on European Galaxy server, using deep learning approach. Used to recommend tools in Galaxy. Gated recurrent units neural network.

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• RRID-Legacy
• 6 years ago - by Anonymous

Comprehensive database of A-to-I RNA Editing Events. Atlas of A-to-I RNA editing events in human and other organisms. Collection of A-to-I events in body sites of healthy individuals from GTEx project. RNA Editing sites can be searched by genomic region, gene name and other relevant features as tissue of origin. Query results are shown in sortable and downloadable tables in which main characteristics of individual RNA editing events are reported. RNA-Seq and DNA-Seq coverage per site as well as RNA editing levels are provided.

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

Cell Line Adenosine-to-Inosine RNA editing database. Searchable catalogue of RNA editing levels across cell lines. Used to facilitate rational choice of appropriate cell lines for future work on A-to-I RNA editing.

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

Software tool as big image data compatible Fiji plugin for trainable image segmentation.

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• RRID-Legacy
• 6 years ago - submitted by Lucia Garcia del Valle

Software application to organize and store in structured format signaling information published in scientific literature. Information is stored as binary causative relationships between biological entities and can be represented graphically as activity flow. Each relationship is linked to literature reporting experimental evidence. Each node is annotated with chemical inhibitors that modulate its activity. Signaling information is mapped to human proteome. SIGNOR 2.0 stores manually annotated causal relationships between proteins and other biologically relevant entities including chemicals, phenotypes, complexes, etc with compliance to FAIR data principles.

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

Software tool for visual inspection and processing of big image data. Enables loading of Tiff and Hdf5 based image data. BDC supports cropping and saving of big image data including binning and bit depth conversion. Used for analysis of TB sized image data like light sheet microscopy or electron microscopy.

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• RRID-Legacy
• 6 years ago - submitted by Lucia Garcia del Valle

Software tool to simplify creation and management of computing environments in Neuroimaging.

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• NIF
• 6 years ago - by Anonymous

Software containerized environments for reproducible neuroimaging. Part of ReproNim - Center for Reproducible Neuroimaging Computation. DataLad dataset with collection of popular computational tools provided within ready to use containerized environments.

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• NIF
• 6 years ago - by Anonymous

Software tool for fast and accurate in silico Mycobacterium spoligotyping from sequence reads.

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• RRID-Legacy
• 6 years ago - by Anonymous

Prime 95B Scientific CMOS camera brings light in from back of sensor. Photons land directly onto light receiving surface, maximizing light collecting capability. Back illuminated sCMOS camera.

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• SciCrunch
• 6 years ago - submitted by Gabrielle Pine

Kaleidoscope Pro analysis software automatically scan field recordings to discover species of interest. Kaleidoscope Viewer enalbes for examining ultrasonic and acoustic sound files visually.

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• RRID-Legacy
• 6 years ago - by Anonymous