Curator Dashboard

Software pipeline for dissecting glioblastoma risk signatures in the tumor immune microenvironment based on single-cell, bulk, and spatial transcriptomic data.

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• RRID
• 6 months ago - submitted by Tengyue Li

Software pipeline for identifying enhancers in bulk or single-nucleus ATAC-seq and multiomic data with a high degree of accuracy for prioritizing testing of promising candidate cell type enhancers for targeting homologous cell types across mammalian species.

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• dkNET
• 6 months ago - submitted by Maryann Martone

Core enables generation of genetically defined human iPSC-derived hepatocytes, CRISPR/Cas9 mediated gene editing, and primary mouse hepatocyte isolation.

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• SciCrunch
• 6 months ago - submitted by Edyta Vieth

Software data-centric, backend-agnostic framework for zero-shot cell-type annotation. Data-centric marker distillation for zero-shot cell-type and spatial annotation with LLMs.

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• 6 months ago - by Anonymous

Software Python library for spatial analysis of histological brain section images using a reference brain atlas. Implements the core quantification algorithms from the QUINT workflow, designed to replicate and extend the Quantifier feature of the Nutil software.

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• RRID
• 6 months ago - by Anonymous

Software tool is revision of classic ilastik. Used for interactive (supervised) pixel-level image classification and segmentation.

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• RRID
• 6 months ago - by Anonymous

Software code for simulating diffusion in brain extracellular space images.

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• RRID
• 6 months ago - by Anonymous

Software code for Monte Carlo diffusion simulation. Monte Carlo diffusion with reflecting or absorbing obstacles in 2 and 3D.

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• RRID
• 6 months ago - by Anonymous

Machine-readable framework designed to standardize, organize, and annotate the anatomical structures, developmental stages, and spatial relationships of the human brain during development. It is primarily derived from the Allen Developing Human Brain Atlas (BrainSpan) to provide a structured, hierarchical taxonomy for researchers. Application ontology built by combining ontologised versions of the Allen Institute Developing Human Brain Atlas (DHBA) StructureGraph mapped to Uberon.

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• dkNET
• 6 months ago - submitted by Maryann Martone

Software hepatocyte ploidy identification pipeline on the stereo-cell platform for accurate liver polyploidy classification via fluorescence staining and deep learning tools.

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• RRID
• 6 months ago - submitted by Jiahui Luo

SMIntegration is an innovative open-source platform for integrated analysis of spatial transcriptomics and metabolomics data. It integrates spatial pattern recognition, differential comparison, network construction, and functional annotation into a unified workflow. Designed to address key challenges in spatial multi-omics correlation analysis, SMIntegration enables researchers to explore gene-metabolite co-regulation mechanisms through an intuitive web interface, revealing spatial heterogeneity in tissue development and disease progression.

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• 6 months ago - submitted by haoke deng

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• 6 months ago - submitted by Jiahui Luo

Miniaturized, hand-held, real-time fluorescence confocal endomicroscope designed for preclinical research, allowing researchers to visualize live tissue at cellular and subcellular levels in vivo. It is primarily used to observe dynamic, 3D biological processes, such as tumor progression, drug interactions, and cell-to-cell interactions in animal models.

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• 6 months ago - by Anonymous

Software R package for performing Piecewise Structural Equation Modeling, designed to fit complex causal networks by breaking them into smaller, manageable "pieces" (individual regressions) rather than using global covariance estimation. Used to analyze complex, direct/indirect ecological and evolutionary data.

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• 6 months ago - submitted by zhu pengjin

Software R package to compute and illustrate the multiple facets of Functional Diversity. Provides graphical functions based on the ggplot library to illustrate FD values through customizable and high-resolution plots of species distribution among functional entities or in a multidimensional space. All functions include internal validation processes to check for errors in data formatting which return detailed error messages. Used to compute a global assessment of functional diversity by gathering computation of alpha and beta functional indices.

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• RRID
• 6 months ago - submitted by zhu pengjin

Provides morphological, life-history, and behavioral trait data for Arctic benthic invertebrate taxa. It facilitates trait-based ecological research in the Arctic by offering standardized, fuzzy-coded data (scores 0-3) on 19 traits (80 categories), with species names synchronized with the World Register of Marine Species (WoRMS).

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• RRID
• 6 months ago - submitted by zhu pengjin

Database on biological traits of polychaetes (bristle worms, Polychaeta: Annelida). It covers information about morphological, behavioural, reproductive and larval characteristics of polychaete taxa which has been collected from the literature.

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• RRID
• 6 months ago - submitted by zhu pengjin

SeaLifeBase insufficient information

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• 6 months ago - submitted by zhu pengjin

Database developed by the Marine Life Information Network (MarLIN) in collaboration with the Marine Biological Association (MBA) and Plymouth Marine Laboratory. It provides detailed, searchable, and downloadable functional trait information on marine benthic invertebrates and plants to support ecological research. The database emphasizes species found around the coasts and seas of the British Isles.

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• 6 months ago - submitted by zhu pengjin

CATAMI web site provides a location of the deposit and access of various underwater imagery, including data from Baited Remote Underwater Video (BRUV), Autonomous Underwater Vehicles (AUV), Diver Operated Video (DOV) and Towed Imagery (TI). CATAMI Classification Scheme provides standardised vocabulary for identifying benthic biota and substrata from underwater imagery.

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• RRID
• 6 months ago - submitted by zhu pengjin